Warning: Permanently added '100.24.45.142' (ED25519) to the list of known hosts.

You can reproduce this build on your computer by running:

  sudo dnf install copr-rpmbuild
  /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/8604335-fedora-41-aarch64 --chroot fedora-41-aarch64


Version: 1.2
PID: 8920
Logging PID: 8921
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': True,
 'build_id': 8604335,
 'buildroot_pkgs': [],
 'chroot': 'fedora-41-aarch64',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': '4e077b05abebc5ef6123cf3c84c782e2d83a6233',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23/pymol',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'pymol',
 'package_version': '3.1.0-3',
 'project_dirname': 'openblas-0.3.23',
 'project_name': 'openblas-0.3.23',
 'project_owner': 'psimovec',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/psimovec/openblas-0.3.23/fedora-41-aarch64/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None},
           {'baseurl': 'http://kojipkgs.fedoraproject.org/repos/rawhide/latest/$basearch/',
            'id': 'http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch',
            'name': 'Additional repo http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch'}],
 'sandbox': 'psimovec/openblas-0.3.23--https://src.fedoraproject.org/user/sergiomb',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'storage': None,
 'submitter': 'https://src.fedoraproject.org/user/sergiomb',
 'tags': [],
 'task_id': '8604335-fedora-41-aarch64',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23/pymol /var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23/pymol', '/var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol'...

Running: git checkout 4e077b05abebc5ef6123cf3c84c782e2d83a6233 --

cmd: ['git', 'checkout', '4e077b05abebc5ef6123cf3c84c782e2d83a6233', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol
rc: 0
stdout: 
stderr: Note: switching to '4e077b05abebc5ef6123cf3c84c782e2d83a6233'.

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 <new-branch-name>

Or undo this operation with:

  git switch -

Turn off this advice by setting config variable advice.detachedHead to false

HEAD is now at 4e077b0 automatic import of pymol

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/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-3.1.0.tar.gz
INFO: Reading stdout from command: curl --help all
INFO: Calling: curl -H Pragma: -o pymol-open-source-3.1.0.tar.gz --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/psimovec/openblas-0.3.23/pymol/pymol-open-source-3.1.0.tar.gz/md5/459f483231e1d521824b0e74df5ba640/pymol-open-source-3.1.0.tar.gz
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 28.1M  100 28.1M    0     0   387M      0 --:--:-- --:--:-- --:--:--  391M
INFO: Reading stdout from command: md5sum pymol-open-source-3.1.0.tar.gz
INFO: Downloading pymol.png
INFO: Calling: curl -H Pragma: -o pymol.png --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/psimovec/openblas-0.3.23/pymol/pymol.png/md5/3bbd85dbd40f588f505ad988b6df2933/pymol.png
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
/usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated
100 19466  100 19466    0     0  1363k      0 --:--:-- --:--:-- --:--:-- 1462k
INFO: Reading stdout from command: md5sum pymol.png

Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol/pymol.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1738674682.583297 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 6.0 starting (python version = 3.13.0, NVR = mock-6.0-1.fc41), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol/pymol.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1738674682.583297 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
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-2nhjcovb/pymol/pymol.spec)  Config(fedora-41-aarch64)
Start: clean chroot
Finish: clean chroot
Mock Version: 6.0
INFO: Mock Version: 6.0
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-41-aarch64-bootstrap-1738674682.583297/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: Guessed host environment type: unknown
INFO: Using container image: registry.fedoraproject.org/fedora:41
INFO: Pulling image: registry.fedoraproject.org/fedora:41
INFO: Tagging container image as mock-bootstrap-6d9619a4-97f8-44cb-b8d3-06f2029e87a5
INFO: Checking that 7ac3020af3f05d0c7a555e02fd76d64b4ceca4f01b9e721e7d9d4a5ca2fc198f image matches host's architecture
INFO: Copy content of container 7ac3020af3f05d0c7a555e02fd76d64b4ceca4f01b9e721e7d9d4a5ca2fc198f to /var/lib/mock/fedora-41-aarch64-bootstrap-1738674682.583297/root
INFO: mounting 7ac3020af3f05d0c7a555e02fd76d64b4ceca4f01b9e721e7d9d4a5ca2fc198f with podman image mount
INFO: image 7ac3020af3f05d0c7a555e02fd76d64b4ceca4f01b9e721e7d9d4a5ca2fc198f as /var/lib/containers/storage/overlay/b437ea2d28c303555d1070e6c11b4501f99b5186f2c254cec1e52a9e23930b79/merged
INFO: umounting image 7ac3020af3f05d0c7a555e02fd76d64b4ceca4f01b9e721e7d9d4a5ca2fc198f (/var/lib/containers/storage/overlay/b437ea2d28c303555d1070e6c11b4501f99b5186f2c254cec1e52a9e23930b79/merged) with podman image umount
INFO: Removing image mock-bootstrap-6d9619a4-97f8-44cb-b8d3-06f2029e87a5
INFO: Package manager dnf5 detected and used (fallback)
INFO: Not updating bootstrap chroot, bootstrap_image_ready=True
Start(bootstrap): creating root cache
Finish(bootstrap): creating root cache
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-41-aarch64-1738674682.583297/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
INFO: Package manager dnf5 detected and used (direct choice)
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.20.0-1.fc41.aarch64
  rpm-sequoia-1.7.0-3.fc41.aarch64
  dnf5-5.2.8.1-3.fc41.aarch64
  dnf5-plugins-5.2.8.1-3.fc41.aarch64
Start: installing minimal buildroot with dnf5
Updating and loading repositories:
 updates                                100% |  19.8 MiB/s |   8.8 MiB |  00m00s
 fedora                                 100% |  46.5 MiB/s |  34.1 MiB |  00m01s
 Copr repository                        100% |  49.6 MiB/s |   3.2 MiB |  00m00s
 Additional repo http_kojipkgs_fedorapr 100% | 174.3 MiB/s |  16.6 MiB |  00m00s
Repositories loaded.
Package                            Arch    Version                    Repository                                                         Size
Installing group/module packages:
 bash                              aarch64 5.2.37-1.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.2 MiB
 bzip2                             aarch64 1.0.8-20.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 171.3 KiB
 coreutils                         aarch64 9.6-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.2 MiB
 cpio                              aarch64 2.15-2.fc41                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 diffutils                         aarch64 3.10-9.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 MiB
 fedora-release-common             noarch  42-0.16                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  19.8 KiB
 findutils                         aarch64 1:4.10.0-5.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 MiB
 gawk                              aarch64 5.3.1-1.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.4 MiB
 glibc-minimal-langpack            aarch64 2.40.9000-35.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 grep                              aarch64 3.11-10.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.0 MiB
 gzip                              aarch64 1.13-3.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 424.7 KiB
 info                              aarch64 7.2-3.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 421.6 KiB
 patch                             aarch64 2.7.6-26.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 262.4 KiB
 redhat-rpm-config                 noarch  342-2.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 186.8 KiB
 rpm-build                         aarch64 4.20.0-8.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 524.9 KiB
 sed                               aarch64 4.9-4.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 873.2 KiB
 shadow-utils                      aarch64 2:4.17.0-4.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.5 MiB
 tar                               aarch64 2:1.35-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.0 MiB
 unzip                             aarch64 6.0-66.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 470.2 KiB
 util-linux                        aarch64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.6 MiB
 which                             aarch64 2.23-1.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 123.4 KiB
 xz                                aarch64 1:5.6.3-3.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 MiB
Installing dependencies:
 add-determinism                   aarch64 0.5.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.2 MiB
 alternatives                      aarch64 1.31-3.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  90.1 KiB
 ansible-srpm-macros               noarch  1-17.1.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  35.7 KiB
 audit-libs                        aarch64 4.0.3-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 415.2 KiB
 authselect                        aarch64 1.5.0-9.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 179.9 KiB
 authselect-libs                   aarch64 1.5.0-9.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 865.5 KiB
 basesystem                        noarch  11-22.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 binutils                          aarch64 2.43.50-12.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  29.2 MiB
 build-reproducibility-srpm-macros noarch  0.5.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 735.0   B
 bzip2-libs                        aarch64 1.0.8-20.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  72.6 KiB
 ca-certificates                   noarch  2024.2.69_v8.0.401-5.fc42  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.6 MiB
 coreutils-common                  aarch64 9.6-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  11.1 MiB
 cracklib                          aarch64 2.9.11-7.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 422.3 KiB
 crypto-policies                   noarch  20250124-1.git4d262e7.fc42 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 137.4 KiB
 curl                              aarch64 8.11.1-4.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 454.7 KiB
 cyrus-sasl-lib                    aarch64 2.1.28-30.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.4 MiB
 dbus                              aarch64 1:1.16.0-3.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 dbus-broker                       aarch64 36-5.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 421.9 KiB
 dbus-common                       noarch  1:1.16.0-3.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  11.2 KiB
 debugedit                         aarch64 5.1-4.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 244.3 KiB
 dwz                               aarch64 0.15-9.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 322.6 KiB
 ed                                aarch64 1.21-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 154.5 KiB
 efi-srpm-macros                   noarch  6-2.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  40.1 KiB
 elfutils                          aarch64 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.1 MiB
 elfutils-debuginfod-client        aarch64 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 143.9 KiB
 elfutils-default-yama-scope       noarch  0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.8 KiB
 elfutils-libelf                   aarch64 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 elfutils-libs                     aarch64 0.192-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 746.3 KiB
 expat                             aarch64 2.6.4-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 348.7 KiB
 fedora-gpg-keys                   noarch  42-0.4                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 128.2 KiB
 fedora-release                    noarch  42-0.16                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 fedora-release-identity-basic     noarch  42-0.16                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 719.0   B
 fedora-repos                      noarch  42-0.4                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.9 KiB
 fedora-repos-rawhide              noarch  42-0.4                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.2 KiB
 file                              aarch64 5.46-1.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 140.2 KiB
 file-libs                         aarch64 5.46-1.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  11.9 MiB
 filesystem                        aarch64 3.18-36.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 112.0   B
 filesystem-srpm-macros            noarch  3.18-36.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  38.2 KiB
 fonts-srpm-macros                 noarch  1:2.0.5-21.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  55.8 KiB
 forge-srpm-macros                 noarch  0.4.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  38.9 KiB
 fpc-srpm-macros                   noarch  1.3-14.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 144.0   B
 gdb-minimal                       aarch64 15.2-7.fc42                copr_base                                                      12.8 MiB
 gdbm                              aarch64 1:1.23-9.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 543.9 KiB
 gdbm-libs                         aarch64 1:1.23-9.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 234.0 KiB
 ghc-srpm-macros                   noarch  1.9.2-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 779.0   B
 glibc                             aarch64 2.40.9000-35.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.2 MiB
 glibc-common                      aarch64 2.40.9000-35.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 MiB
 glibc-gconv-extra                 aarch64 2.40.9000-35.fc42          http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  18.6 MiB
 gmp                               aarch64 1:6.3.0-2.fc41             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 722.0 KiB
 gnat-srpm-macros                  noarch  6-7.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.0 KiB
 go-srpm-macros                    noarch  3.6.0-6.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  60.8 KiB
 jansson                           aarch64 2.14-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  93.2 KiB
 json-c                            aarch64 0.18-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 138.7 KiB
 kernel-srpm-macros                noarch  1.0-25.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 KiB
 keyutils-libs                     aarch64 1.6.3-5.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  98.3 KiB
 krb5-libs                         aarch64 1.21.3-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.5 MiB
 libacl                            aarch64 2.3.2-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  66.3 KiB
 libarchive                        aarch64 3.7.7-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 910.6 KiB
 libattr                           aarch64 2.5.2-5.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  67.1 KiB
 libblkid                          aarch64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 290.5 KiB
 libbrotli                         aarch64 1.1.0-6.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 909.5 KiB
 libcap                            aarch64 2.73-2.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 506.8 KiB
 libcap-ng                         aarch64 0.8.5-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 160.9 KiB
 libcom_err                        aarch64 1.47.2-3.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 111.2 KiB
 libcurl                           aarch64 8.11.1-4.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 794.0 KiB
 libeconf                          aarch64 0.7.5-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  80.5 KiB
 libevent                          aarch64 2.1.12-15.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.1 MiB
 libfdisk                          aarch64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 418.8 KiB
 libffi                            aarch64 3.4.6-5.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 154.4 KiB
 libgcc                            aarch64 15.0.1-0.6.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 222.2 KiB
 libgomp                           aarch64 15.0.1-0.6.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 511.2 KiB
 libidn2                           aarch64 2.3.7-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 329.0 KiB
 libmount                          aarch64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 355.8 KiB
 libnghttp2                        aarch64 1.64.0-3.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 198.1 KiB
 libnsl2                           aarch64 2.0.1-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  93.9 KiB
 libpkgconf                        aarch64 2.3.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 134.0 KiB
 libpsl                            aarch64 0.21.5-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 132.5 KiB
 libpwquality                      aarch64 1.4.5-12.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 609.3 KiB
 libseccomp                        aarch64 2.5.5-2.fc41               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 241.4 KiB
 libselinux                        aarch64 3.8-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 201.1 KiB
 libsemanage                       aarch64 3.8-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 360.0 KiB
 libsepol                          aarch64 3.8-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 809.9 KiB
 libsmartcols                      aarch64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 224.4 KiB
 libssh                            aarch64 0.11.1-4.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 585.4 KiB
 libssh-config                     noarch  0.11.1-4.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 277.0   B
 libstdc++                         aarch64 15.0.1-0.6.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.8 MiB
 libtasn1                          aarch64 4.19.0-11.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 219.6 KiB
 libtirpc                          aarch64 1.3.6-1.rc3.fc42.2         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 210.7 KiB
 libtool-ltdl                      aarch64 2.5.4-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  94.0 KiB
 libunistring                      aarch64 1.1-9.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.7 MiB
 libuuid                           aarch64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  69.4 KiB
 libverto                          aarch64 0.3.2-10.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  69.4 KiB
 libxcrypt                         aarch64 4.4.38-4.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 272.0 KiB
 libxml2                           aarch64 2.12.9-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 MiB
 libzstd                           aarch64 1.5.6-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 667.7 KiB
 lua-libs                          aarch64 5.4.7-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 328.9 KiB
 lua-srpm-macros                   noarch  1-15.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 KiB
 lz4-libs                          aarch64 1.10.0-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 197.4 KiB
 mpfr                              aarch64 4.2.1-6.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 754.6 KiB
 ncurses-base                      noarch  6.5-5.20250125.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 326.8 KiB
 ncurses-libs                      aarch64 6.5-5.20250125.fc42        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 ocaml-srpm-macros                 noarch  10-4.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 KiB
 openblas-srpm-macros              noarch  2-19.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 112.0   B
 openldap                          aarch64 2.6.9-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 697.3 KiB
 openssl-libs                      aarch64 1:3.2.2-14.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.3 MiB
 p11-kit                           aarch64 0.25.5-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.4 MiB
 p11-kit-trust                     aarch64 0.25.5-5.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 463.3 KiB
 package-notes-srpm-macros         noarch  0.5-13.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 KiB
 pam                               aarch64 1.7.0-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.2 MiB
 pam-libs                          aarch64 1.7.0-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 222.9 KiB
 pcre2                             aarch64 10.44-1.fc42.2             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 649.2 KiB
 pcre2-syntax                      noarch  10.44-1.fc42.2             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 251.6 KiB
 perl-srpm-macros                  noarch  1-57.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 861.0   B
 pkgconf                           aarch64 2.3.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 112.4 KiB
 pkgconf-m4                        noarch  2.3.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  14.4 KiB
 pkgconf-pkg-config                aarch64 2.3.0-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 990.0   B
 popt                              aarch64 1.19-8.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 144.8 KiB
 publicsuffix-list-dafsa           noarch  20250116-1.fc42            http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  68.5 KiB
 pyproject-srpm-macros             noarch  1.16.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.9 KiB
 python-srpm-macros                noarch  3.13-4.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  51.0 KiB
 qt5-srpm-macros                   noarch  5.15.15-1.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 500.0   B
 qt6-srpm-macros                   noarch  6.8.2-1.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 456.0   B
 readline                          aarch64 8.2-12.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 561.1 KiB
 rpm                               aarch64 4.20.0-8.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.3 MiB
 rpm-build-libs                    aarch64 4.20.0-8.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 198.6 KiB
 rpm-libs                          aarch64 4.20.0-8.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 733.5 KiB
 rpm-sequoia                       aarch64 1.7.0-4.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.3 MiB
 rust-srpm-macros                  noarch  26.3-4.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.8 KiB
 setup                             noarch  2.15.0-10.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 720.7 KiB
 sqlite-libs                       aarch64 3.47.2-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.5 MiB
 systemd                           aarch64 257.2-17.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  20.1 MiB
 systemd-libs                      aarch64 257.2-17.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.3 MiB
 systemd-pam                       aarch64 257.2-17.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 systemd-rpm-macros                noarch  257.2-17.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  10.7 KiB
 tree-sitter-srpm-macros           noarch  0.1.0-8.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.5 KiB
 util-linux-core                   aarch64 2.40.4-2.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.3 MiB
 xxhash-libs                       aarch64 0.8.3-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  85.9 KiB
 xz-libs                           aarch64 1:5.6.3-3.fc42             http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 202.3 KiB
 zig-srpm-macros                   noarch  1-4.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.1 KiB
 zip                               aarch64 3.0-43.fc42                http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 762.5 KiB
 zlib-ng-compat                    aarch64 2.2.3-2.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 133.4 KiB
 zstd                              aarch64 1.5.6-3.fc42               http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.5 MiB
Installing groups:
 Buildsystem building group                                                                                                                  

Transaction Summary:
 Installing:       164 packages

Total size of inbound packages is 58 MiB. Need to download 58 MiB.
After this operation, 230 MiB extra will be used (install 230 MiB, remove 0 B).
[  1/164] bzip2-0:1.0.8-20.fc42.aarch64 100% |   1.7 MiB/s |  52.0 KiB |  00m00s
[  2/164] bash-0:5.2.37-1.fc42.aarch64  100% |  55.4 MiB/s |   1.8 MiB |  00m00s
[  3/164] cpio-0:2.15-2.fc41.aarch64    100% |  39.7 MiB/s | 284.8 KiB |  00m00s
[  4/164] coreutils-0:9.6-1.fc42.aarch6 100% |  26.5 MiB/s |   1.1 MiB |  00m00s
[  5/164] fedora-release-common-0:42-0. 100% |   7.9 MiB/s |  24.3 KiB |  00m00s
[  6/164] findutils-1:4.10.0-5.fc42.aar 100% |  76.1 MiB/s | 545.6 KiB |  00m00s
[  7/164] diffutils-0:3.10-9.fc42.aarch 100% |  21.3 MiB/s | 392.8 KiB |  00m00s
[  8/164] gawk-0:5.3.1-1.fc42.aarch64   100% |  87.0 MiB/s |   1.0 MiB |  00m00s
[  9/164] glibc-minimal-langpack-0:2.40 100% |  17.8 MiB/s | 127.9 KiB |  00m00s
[ 10/164] gzip-0:1.13-3.fc42.aarch64    100% |  39.5 MiB/s | 162.0 KiB |  00m00s
[ 11/164] grep-0:3.11-10.fc42.aarch64   100% |  28.0 MiB/s | 286.5 KiB |  00m00s
[ 12/164] info-0:7.2-3.fc42.aarch64     100% |  35.1 MiB/s | 179.5 KiB |  00m00s
[ 13/164] patch-0:2.7.6-26.fc42.aarch64 100% |  24.6 MiB/s | 125.7 KiB |  00m00s
[ 14/164] redhat-rpm-config-0:342-2.fc4 100% |  18.3 MiB/s |  74.9 KiB |  00m00s
[ 15/164] rpm-build-0:4.20.0-8.fc42.aar 100% |  18.4 MiB/s |  75.5 KiB |  00m00s
[ 16/164] sed-0:4.9-4.fc42.aarch64      100% |  33.2 MiB/s | 306.4 KiB |  00m00s
[ 17/164] tar-2:1.35-5.fc42.aarch64     100% |  91.6 MiB/s | 844.4 KiB |  00m00s
[ 18/164] shadow-utils-2:4.17.0-4.fc42. 100% | 104.1 MiB/s |   1.2 MiB |  00m00s
[ 19/164] unzip-0:6.0-66.fc42.aarch64   100% |  29.8 MiB/s | 183.0 KiB |  00m00s
[ 20/164] which-0:2.23-1.fc42.aarch64   100% |  10.1 MiB/s |  41.3 KiB |  00m00s
[ 21/164] util-linux-0:2.40.4-2.fc42.aa 100% | 109.9 MiB/s |   1.1 MiB |  00m00s
[ 22/164] xz-1:5.6.3-3.fc42.aarch64     100% |  50.0 MiB/s | 461.2 KiB |  00m00s
[ 23/164] fedora-repos-0:42-0.4.noarch  100% |   1.8 MiB/s |   9.3 KiB |  00m00s
[ 24/164] filesystem-0:3.18-36.fc42.aar 100% |  93.9 MiB/s |   1.3 MiB |  00m00s
[ 25/164] glibc-common-0:2.40.9000-35.f 100% |  64.8 MiB/s | 398.4 KiB |  00m00s
[ 26/164] glibc-0:2.40.9000-35.fc42.aar 100% | 125.1 MiB/s |   1.9 MiB |  00m00s
[ 27/164] filesystem-srpm-macros-0:3.18 100% |   5.0 MiB/s |  25.6 KiB |  00m00s
[ 28/164] coreutils-common-0:9.6-1.fc42 100% |  59.8 MiB/s |   2.1 MiB |  00m00s
[ 29/164] rpm-0:4.20.0-8.fc42.aarch64   100% |  56.2 MiB/s | 518.3 KiB |  00m00s
[ 30/164] libblkid-0:2.40.4-2.fc42.aarc 100% |  20.2 MiB/s | 124.2 KiB |  00m00s
[ 31/164] libfdisk-0:2.40.4-2.fc42.aarc 100% |  25.3 MiB/s | 155.2 KiB |  00m00s
[ 32/164] libsmartcols-0:2.40.4-2.fc42. 100% |  16.2 MiB/s |  83.1 KiB |  00m00s
[ 33/164] libmount-0:2.40.4-2.fc42.aarc 100% |  30.0 MiB/s | 153.7 KiB |  00m00s
[ 34/164] libuuid-0:2.40.4-2.fc42.aarch 100% |   5.7 MiB/s |  28.9 KiB |  00m00s
[ 35/164] xz-libs-1:5.6.3-3.fc42.aarch6 100% |  21.7 MiB/s | 111.0 KiB |  00m00s
[ 36/164] fedora-gpg-keys-0:42-0.4.noar 100% |  30.6 MiB/s | 125.2 KiB |  00m00s
[ 37/164] util-linux-core-0:2.40.4-2.fc 100% |  49.6 MiB/s | 508.4 KiB |  00m00s
[ 38/164] fedora-repos-rawhide-0:42-0.4 100% |   1.7 MiB/s |   8.9 KiB |  00m00s
[ 39/164] rpm-build-libs-0:4.20.0-8.fc4 100% |  22.9 MiB/s |  93.8 KiB |  00m00s
[ 40/164] rpm-libs-0:4.20.0-8.fc42.aarc 100% |  42.2 MiB/s | 302.7 KiB |  00m00s
[ 41/164] libxcrypt-0:4.4.38-4.fc42.aar 100% |  23.0 MiB/s | 117.6 KiB |  00m00s
[ 42/164] glibc-gconv-extra-0:2.40.9000 100% | 121.6 MiB/s |   1.7 MiB |  00m00s
[ 43/164] libselinux-0:3.8-1.fc42.aarch 100% |  23.4 MiB/s |  95.9 KiB |  00m00s
[ 44/164] systemd-libs-0:257.2-17.fc42. 100% |  69.2 MiB/s | 779.5 KiB |  00m00s
[ 45/164] libsepol-0:3.8-1.fc42.aarch64 100% |  52.7 MiB/s | 323.9 KiB |  00m00s
[ 46/164] ncurses-libs-0:6.5-5.20250125 100% |  52.8 MiB/s | 324.2 KiB |  00m00s
[ 47/164] ncurses-base-0:6.5-5.20250125 100% |  20.7 MiB/s |  63.5 KiB |  00m00s
[ 48/164] audit-libs-0:4.0.3-2.fc42.aar 100% |  20.5 MiB/s | 126.0 KiB |  00m00s
[ 49/164] libeconf-0:0.7.5-2.fc42.aarch 100% |   8.6 MiB/s |  35.2 KiB |  00m00s
[ 50/164] pam-0:1.7.0-4.fc42.aarch64    100% |  63.7 MiB/s | 521.9 KiB |  00m00s
[ 51/164] zlib-ng-compat-0:2.2.3-2.fc42 100% |  12.8 MiB/s |  65.8 KiB |  00m00s
[ 52/164] authselect-libs-0:1.5.0-9.fc4 100% |  49.1 MiB/s | 201.1 KiB |  00m00s
[ 53/164] pam-libs-0:1.7.0-4.fc42.aarch 100% |   7.1 MiB/s |  58.0 KiB |  00m00s
[ 54/164] authselect-0:1.5.0-9.fc42.aar 100% |  27.3 MiB/s | 139.7 KiB |  00m00s
[ 55/164] libcap-ng-0:0.8.5-4.fc42.aarc 100% |   7.9 MiB/s |  32.3 KiB |  00m00s
[ 56/164] readline-0:8.2-12.fc42.aarch6 100% |  41.3 MiB/s | 211.5 KiB |  00m00s
[ 57/164] bzip2-libs-0:1.0.8-20.fc42.aa 100% |  13.4 MiB/s |  41.2 KiB |  00m00s
[ 58/164] libacl-0:2.3.2-3.fc42.aarch64 100% |   4.4 MiB/s |  22.8 KiB |  00m00s
[ 59/164] libgcc-0:15.0.1-0.6.fc42.aarc 100% |  23.8 MiB/s |  97.5 KiB |  00m00s
[ 60/164] libcap-0:2.73-2.fc42.aarch64  100% |  27.8 MiB/s |  85.3 KiB |  00m00s
[ 61/164] setup-0:2.15.0-10.fc42.noarch 100% |  36.6 MiB/s | 149.8 KiB |  00m00s
[ 62/164] libsemanage-0:3.8-1.fc42.aarc 100% |  19.3 MiB/s | 118.8 KiB |  00m00s
[ 63/164] rpm-sequoia-0:1.7.0-4.fc42.aa 100% |  94.2 MiB/s | 868.1 KiB |  00m00s
[ 64/164] sqlite-libs-0:3.47.2-2.fc42.a 100% |  77.3 MiB/s | 712.7 KiB |  00m00s
[ 65/164] libzstd-0:1.5.6-3.fc42.aarch6 100% |  38.9 MiB/s | 278.9 KiB |  00m00s
[ 66/164] lua-libs-0:5.4.7-2.fc42.aarch 100% |  25.2 MiB/s | 128.9 KiB |  00m00s
[ 67/164] popt-0:1.19-8.fc42.aarch64    100% |  14.4 MiB/s |  58.9 KiB |  00m00s
[ 68/164] elfutils-libelf-0:0.192-8.fc4 100% |  40.5 MiB/s | 207.4 KiB |  00m00s
[ 69/164] elfutils-libs-0:0.192-8.fc42. 100% |  50.8 MiB/s | 260.0 KiB |  00m00s
[ 70/164] elfutils-debuginfod-client-0: 100% |  11.2 MiB/s |  46.0 KiB |  00m00s
[ 71/164] elfutils-0:0.192-8.fc42.aarch 100% |  74.0 MiB/s | 530.1 KiB |  00m00s
[ 72/164] libgomp-0:15.0.1-0.6.fc42.aar 100% |  54.7 MiB/s | 336.0 KiB |  00m00s
[ 73/164] file-0:5.46-1.fc42.aarch64    100% |  12.0 MiB/s |  48.9 KiB |  00m00s
[ 74/164] file-libs-0:5.46-1.fc42.aarch 100% | 118.3 MiB/s | 847.6 KiB |  00m00s
[ 75/164] alternatives-0:1.31-3.fc42.aa 100% |   9.8 MiB/s |  40.2 KiB |  00m00s
[ 76/164] jansson-0:2.14-2.fc42.aarch64 100% |  15.2 MiB/s |  46.8 KiB |  00m00s
[ 77/164] debugedit-0:5.1-4.fc42.aarch6 100% |  12.8 MiB/s |  78.4 KiB |  00m00s
[ 78/164] libarchive-0:3.7.7-2.fc42.aar 100% |  49.5 MiB/s | 405.7 KiB |  00m00s
[ 79/164] pkgconf-pkg-config-0:2.3.0-2. 100% |   3.2 MiB/s |   9.9 KiB |  00m00s
[ 80/164] pkgconf-0:2.3.0-2.fc42.aarch6 100% |   4.8 MiB/s |  44.7 KiB |  00m00s
[ 81/164] pkgconf-m4-0:2.3.0-2.fc42.noa 100% |   1.5 MiB/s |  14.2 KiB |  00m00s
[ 82/164] binutils-0:2.43.50-12.fc42.aa 100% | 174.2 MiB/s |   6.1 MiB |  00m00s
[ 83/164] libpkgconf-0:2.3.0-2.fc42.aar 100% |   4.1 MiB/s |  38.2 KiB |  00m00s
[ 84/164] zstd-0:1.5.6-3.fc42.aarch64   100% |  47.8 MiB/s | 440.5 KiB |  00m00s
[ 85/164] build-reproducibility-srpm-ma 100% |   3.8 MiB/s |  11.6 KiB |  00m00s
[ 86/164] curl-0:8.11.1-4.fc42.aarch64  100% |  30.5 MiB/s | 218.7 KiB |  00m00s
[ 87/164] add-determinism-0:0.5.0-2.fc4 100% | 118.5 MiB/s | 849.7 KiB |  00m00s
[ 88/164] efi-srpm-macros-0:6-2.fc42.no 100% |   3.1 MiB/s |  22.5 KiB |  00m00s
[ 89/164] forge-srpm-macros-0:0.4.0-2.f 100% |   3.9 MiB/s |  19.9 KiB |  00m00s
[ 90/164] pyproject-srpm-macros-0:1.16. 100% |   4.6 MiB/s |  14.0 KiB |  00m00s
[ 91/164] go-srpm-macros-0:3.6.0-6.fc42 100% |   4.5 MiB/s |  27.7 KiB |  00m00s
[ 92/164] qt6-srpm-macros-0:6.8.2-1.fc4 100% |   2.2 MiB/s |   9.2 KiB |  00m00s
[ 93/164] tree-sitter-srpm-macros-0:0.1 100% |   3.7 MiB/s |  11.2 KiB |  00m00s
[ 94/164] ansible-srpm-macros-0:1-17.1. 100% |   5.0 MiB/s |  20.3 KiB |  00m00s
[ 95/164] dwz-0:0.15-9.fc42.aarch64     100% |  42.9 MiB/s | 131.7 KiB |  00m00s
[ 96/164] fonts-srpm-macros-1:2.0.5-21. 100% |   6.6 MiB/s |  27.1 KiB |  00m00s
[ 97/164] fpc-srpm-macros-0:1.3-14.fc42 100% |   2.6 MiB/s |   8.0 KiB |  00m00s
[ 98/164] ghc-srpm-macros-0:1.9.2-2.fc4 100% |   3.0 MiB/s |   9.2 KiB |  00m00s
[ 99/164] gnat-srpm-macros-0:6-7.fc42.n 100% |   2.8 MiB/s |   8.6 KiB |  00m00s
[100/164] kernel-srpm-macros-0:1.0-25.f 100% |   3.2 MiB/s |   9.9 KiB |  00m00s
[101/164] lua-srpm-macros-0:1-15.fc42.n 100% |   2.9 MiB/s |   8.9 KiB |  00m00s
[102/164] ocaml-srpm-macros-0:10-4.fc42 100% |   3.0 MiB/s |   9.2 KiB |  00m00s
[103/164] openblas-srpm-macros-0:2-19.f 100% |   2.5 MiB/s |   7.8 KiB |  00m00s
[104/164] perl-srpm-macros-0:1-57.fc42. 100% |   2.1 MiB/s |   8.5 KiB |  00m00s
[105/164] python-srpm-macros-0:3.13-4.f 100% |   7.5 MiB/s |  23.0 KiB |  00m00s
[106/164] package-notes-srpm-macros-0:0 100% |   1.1 MiB/s |   9.3 KiB |  00m00s
[107/164] qt5-srpm-macros-0:5.15.15-1.f 100% |   1.7 MiB/s |   8.9 KiB |  00m00s
[108/164] rust-srpm-macros-0:26.3-4.fc4 100% |   2.3 MiB/s |  11.7 KiB |  00m00s
[109/164] zig-srpm-macros-0:1-4.fc42.no 100% |   2.7 MiB/s |   8.2 KiB |  00m00s
[110/164] ed-0:1.21-2.fc42.aarch64      100% |  20.0 MiB/s |  81.9 KiB |  00m00s
[111/164] libattr-0:2.5.2-5.fc42.aarch6 100% |   4.0 MiB/s |  16.4 KiB |  00m00s
[112/164] zip-0:3.0-43.fc42.aarch64     100% |  42.5 MiB/s | 261.1 KiB |  00m00s
[113/164] libtirpc-0:1.3.6-1.rc3.fc42.2 100% |  30.7 MiB/s |  94.3 KiB |  00m00s
[114/164] gdbm-1:1.23-9.fc42.aarch64    100% |  35.4 MiB/s | 145.1 KiB |  00m00s
[115/164] gdbm-libs-1:1.23-9.fc42.aarch 100% |   9.1 MiB/s |  56.2 KiB |  00m00s
[116/164] libnsl2-0:2.0.1-3.fc42.aarch6 100% |   5.8 MiB/s |  29.5 KiB |  00m00s
[117/164] openssl-libs-1:3.2.2-14.fc42. 100% | 167.6 MiB/s |   2.2 MiB |  00m00s
[118/164] crypto-policies-0:20250124-1. 100% |  14.4 MiB/s |  73.6 KiB |  00m00s
[119/164] libpwquality-0:1.4.5-12.fc42. 100% |  15.1 MiB/s | 107.9 KiB |  00m00s
[120/164] ca-certificates-0:2024.2.69_v 100% | 115.4 MiB/s | 945.0 KiB |  00m00s
[121/164] libcom_err-0:1.47.2-3.fc42.aa 100% |   5.2 MiB/s |  26.8 KiB |  00m00s
[122/164] krb5-libs-0:1.21.3-5.fc42.aar 100% |  73.3 MiB/s | 750.6 KiB |  00m00s
[123/164] pcre2-syntax-0:10.44-1.fc42.2 100% |  24.4 MiB/s | 149.8 KiB |  00m00s
[124/164] pcre2-0:10.44-1.fc42.2.aarch6 100% |  31.2 MiB/s | 223.3 KiB |  00m00s
[125/164] cracklib-0:2.9.11-7.fc42.aarc 100% |  26.5 MiB/s |  81.3 KiB |  00m00s
[126/164] lz4-libs-0:1.10.0-2.fc42.aarc 100% |  19.4 MiB/s |  79.6 KiB |  00m00s
[127/164] libxml2-0:2.12.9-2.fc42.aarch 100% | 110.5 MiB/s | 678.7 KiB |  00m00s
[128/164] keyutils-libs-0:1.6.3-5.fc42. 100% |   7.8 MiB/s |  31.8 KiB |  00m00s
[129/164] libverto-0:0.3.2-10.fc42.aarc 100% |   5.1 MiB/s |  20.8 KiB |  00m00s
[130/164] basesystem-0:11-22.fc42.noarc 100% |   1.4 MiB/s |   7.3 KiB |  00m00s
[131/164] gmp-1:6.3.0-2.fc41.aarch64    100% |  44.0 MiB/s | 270.1 KiB |  00m00s
[132/164] elfutils-default-yama-scope-0 100% |   4.1 MiB/s |  12.6 KiB |  00m00s
[133/164] mpfr-0:4.2.1-6.fc42.aarch64   100% |  44.9 MiB/s | 321.9 KiB |  00m00s
[134/164] json-c-0:0.18-2.fc42.aarch64  100% |  11.0 MiB/s |  44.9 KiB |  00m00s
[135/164] libffi-0:3.4.6-5.fc42.aarch64 100% |   9.4 MiB/s |  38.3 KiB |  00m00s
[136/164] libstdc++-0:15.0.1-0.6.fc42.a 100% | 100.4 MiB/s | 822.3 KiB |  00m00s
[137/164] p11-kit-0:0.25.5-5.fc42.aarch 100% |  49.8 MiB/s | 458.5 KiB |  00m00s
[138/164] p11-kit-trust-0:0.25.5-5.fc42 100% |  21.3 MiB/s | 131.1 KiB |  00m00s
[139/164] systemd-rpm-macros-0:257.2-17 100% |   8.5 MiB/s |  34.9 KiB |  00m00s
[140/164] systemd-pam-0:257.2-17.fc42.a 100% |  65.3 MiB/s | 401.0 KiB |  00m00s
[141/164] libtasn1-0:4.19.0-11.fc42.aar 100% |  14.3 MiB/s |  73.1 KiB |  00m00s
[142/164] dbus-1:1.16.0-3.fc42.aarch64  100% |   1.5 MiB/s |   7.7 KiB |  00m00s
[143/164] libseccomp-0:2.5.5-2.fc41.aar 100% |  14.0 MiB/s |  71.4 KiB |  00m00s
[144/164] dbus-broker-0:36-5.fc42.aarch 100% |  32.6 MiB/s | 166.8 KiB |  00m00s
[145/164] expat-0:2.6.4-2.fc42.aarch64  100% |  21.7 MiB/s | 110.9 KiB |  00m00s
[146/164] systemd-0:257.2-17.fc42.aarch 100% | 178.8 MiB/s |   5.5 MiB |  00m00s
[147/164] dbus-common-1:1.16.0-3.fc42.n 100% |   1.8 MiB/s |  14.5 KiB |  00m00s
[148/164] fedora-release-0:42-0.16.noar 100% |   1.9 MiB/s |  13.4 KiB |  00m00s
[149/164] fedora-release-identity-basic 100% |   4.6 MiB/s |  14.2 KiB |  00m00s
[150/164] libcurl-0:8.11.1-4.fc42.aarch 100% |  50.9 MiB/s | 364.9 KiB |  00m00s
[151/164] libnghttp2-0:1.64.0-3.fc42.aa 100% |  18.8 MiB/s |  76.9 KiB |  00m00s
[152/164] libssh-0:0.11.1-4.fc42.aarch6 100% |  56.2 MiB/s | 230.3 KiB |  00m00s
[153/164] libssh-config-0:0.11.1-4.fc42 100% |   2.2 MiB/s |   9.0 KiB |  00m00s
[154/164] xxhash-libs-0:0.8.3-2.fc42.aa 100% |   8.5 MiB/s |  34.8 KiB |  00m00s
[155/164] openldap-0:2.6.9-3.fc42.aarch 100% |  49.1 MiB/s | 251.6 KiB |  00m00s
[156/164] libidn2-0:2.3.7-3.fc42.aarch6 100% |  36.8 MiB/s | 113.0 KiB |  00m00s
[157/164] libbrotli-0:1.1.0-6.fc42.aarc 100% |  41.6 MiB/s | 340.5 KiB |  00m00s
[158/164] libpsl-0:0.21.5-5.fc42.aarch6 100% |  15.7 MiB/s |  64.2 KiB |  00m00s
[159/164] libevent-0:2.1.12-15.fc42.aar 100% |  41.5 MiB/s | 254.7 KiB |  00m00s
[160/164] cyrus-sasl-lib-0:2.1.28-30.fc 100% |  84.2 MiB/s | 776.2 KiB |  00m00s
[161/164] gdb-minimal-0:15.2-7.fc42.aar 100% | 102.8 MiB/s |   4.1 MiB |  00m00s
[162/164] libtool-ltdl-0:2.5.4-4.fc42.a 100% |   4.9 MiB/s |  35.4 KiB |  00m00s
[163/164] publicsuffix-list-dafsa-0:202 100% |   9.6 MiB/s |  58.8 KiB |  00m00s
[164/164] libunistring-0:1.1-9.fc42.aar 100% |  87.8 MiB/s | 539.4 KiB |  00m00s
--------------------------------------------------------------------------------
[164/164] Total                         100% | 133.4 MiB/s |  57.9 MiB |  00m00s
Running transaction
[  1/166] Verify package files          100% | 697.0   B/s | 164.0   B |  00m00s
>>> Running pre-transaction scriptlet: filesystem-0:3.18-36.fc42.aarch64
>>> Finished pre-transaction scriptlet: filesystem-0:3.18-36.fc42.aarch64
>>> [RPM] /var/lib/mock/fedora-41-aarch64-1738674682.583297/root/var/cache/dnf/c
[  2/166] Prepare transaction           100% |   2.4 KiB/s | 164.0   B |  00m00s
[  3/166] Installing libgcc-0:15.0.1-0. 100% | 218.6 MiB/s | 223.9 KiB |  00m00s
[  4/166] Installing publicsuffix-list- 100% |   0.0   B/s |  69.2 KiB |  00m00s
[  5/166] Installing libssh-config-0:0. 100% |   0.0   B/s | 816.0   B |  00m00s
[  6/166] Installing fedora-release-ide 100% |   0.0   B/s | 976.0   B |  00m00s
[  7/166] Installing fedora-repos-rawhi 100% |   0.0   B/s |   2.4 KiB |  00m00s
[  8/166] Installing fedora-gpg-keys-0: 100% |  28.4 MiB/s | 174.8 KiB |  00m00s
[  9/166] Installing fedora-repos-0:42- 100% |   0.0   B/s |   5.7 KiB |  00m00s
[ 10/166] Installing fedora-release-com 100% |  23.6 MiB/s |  24.1 KiB |  00m00s
[ 11/166] Installing fedora-release-0:4 100% |   0.0   B/s | 124.0   B |  00m00s
[ 12/166] Installing setup-0:2.15.0-10. 100% |  44.3 MiB/s | 726.5 KiB |  00m00s
>>> [RPM] /etc/hosts created as /etc/hosts.rpmnew
[ 13/166] Installing filesystem-0:3.18- 100% |   2.0 MiB/s | 212.4 KiB |  00m00s
[ 14/166] Installing basesystem-0:11-22 100% |   0.0   B/s | 124.0   B |  00m00s
[ 15/166] Installing pcre2-syntax-0:10. 100% | 248.1 MiB/s | 254.1 KiB |  00m00s
[ 16/166] Installing rust-srpm-macros-0 100% |   0.0   B/s |   5.6 KiB |  00m00s
[ 17/166] Installing qt5-srpm-macros-0: 100% |   0.0   B/s | 776.0   B |  00m00s
[ 18/166] Installing perl-srpm-macros-0 100% |   0.0   B/s |   1.1 KiB |  00m00s
[ 19/166] Installing package-notes-srpm 100% |   0.0   B/s |   2.0 KiB |  00m00s
[ 20/166] Installing openblas-srpm-macr 100% |   0.0   B/s | 392.0   B |  00m00s
[ 21/166] Installing ocaml-srpm-macros- 100% |   0.0   B/s |   2.2 KiB |  00m00s
[ 22/166] Installing kernel-srpm-macros 100% |   0.0   B/s |   2.3 KiB |  00m00s
[ 23/166] Installing gnat-srpm-macros-0 100% |   0.0   B/s |   1.3 KiB |  00m00s
[ 24/166] Installing ghc-srpm-macros-0: 100% |   0.0   B/s |   1.0 KiB |  00m00s
[ 25/166] Installing fpc-srpm-macros-0: 100% |   0.0   B/s | 420.0   B |  00m00s
[ 26/166] Installing ansible-srpm-macro 100% |   0.0   B/s |  36.2 KiB |  00m00s
[ 27/166] Installing qt6-srpm-macros-0: 100% |   0.0   B/s | 732.0   B |  00m00s
[ 28/166] Installing pkgconf-m4-0:2.3.0 100% |  14.5 MiB/s |  14.8 KiB |  00m00s
[ 29/166] Installing ncurses-base-0:6.5 100% |  49.1 MiB/s | 352.2 KiB |  00m00s
[ 30/166] Installing glibc-minimal-lang 100% |   0.0   B/s | 124.0   B |  00m00s
[ 31/166] Installing ncurses-libs-0:6.5 100% | 207.9 MiB/s |   1.2 MiB |  00m00s
[ 32/166] Installing glibc-0:2.40.9000- 100% | 160.5 MiB/s |   6.3 MiB |  00m00s
[ 33/166] Installing bash-0:5.2.37-1.fc 100% | 211.0 MiB/s |   8.2 MiB |  00m00s
[ 34/166] Installing glibc-common-0:2.4 100% |  60.2 MiB/s |   1.3 MiB |  00m00s
[ 35/166] Installing glibc-gconv-extra- 100% | 365.9 MiB/s |  18.7 MiB |  00m00s
[ 36/166] Installing zlib-ng-compat-0:2 100% | 131.1 MiB/s | 134.2 KiB |  00m00s
[ 37/166] Installing xz-libs-1:5.6.3-3. 100% | 198.6 MiB/s | 203.4 KiB |  00m00s
[ 38/166] Installing bzip2-libs-0:1.0.8 100% |  72.0 MiB/s |  73.7 KiB |  00m00s
[ 39/166] Installing libuuid-0:2.40.4-2 100% |  68.7 MiB/s |  70.4 KiB |  00m00s
[ 40/166] Installing libblkid-0:2.40.4- 100% | 284.8 MiB/s | 291.6 KiB |  00m00s
[ 41/166] Installing libxcrypt-0:4.4.38 100% | 134.1 MiB/s | 274.7 KiB |  00m00s
[ 42/166] Installing readline-0:8.2-12. 100% | 275.0 MiB/s | 563.2 KiB |  00m00s
[ 43/166] Installing popt-0:1.19-8.fc42 100% |  49.3 MiB/s | 151.4 KiB |  00m00s
[ 44/166] Installing libzstd-0:1.5.6-3. 100% | 217.8 MiB/s | 668.9 KiB |  00m00s
[ 45/166] Installing elfutils-libelf-0: 100% | 297.4 MiB/s |   1.2 MiB |  00m00s
[ 46/166] Installing gmp-1:6.3.0-2.fc41 100% | 235.8 MiB/s | 724.2 KiB |  00m00s
[ 47/166] Installing libstdc++-0:15.0.1 100% | 307.2 MiB/s |   2.8 MiB |  00m00s
[ 48/166] Installing libeconf-0:0.7.5-2 100% |  80.3 MiB/s |  82.2 KiB |  00m00s
[ 49/166] Installing libcap-ng-0:0.8.5- 100% | 159.0 MiB/s | 162.8 KiB |  00m00s
[ 50/166] Installing audit-libs-0:4.0.3 100% | 203.7 MiB/s | 417.2 KiB |  00m00s
[ 51/166] Installing pam-libs-0:1.7.0-4 100% | 220.0 MiB/s | 225.3 KiB |  00m00s
[ 52/166] Installing libcap-0:2.73-2.fc 100% |  29.4 MiB/s | 511.6 KiB |  00m00s
[ 53/166] Installing systemd-libs-0:257 100% | 291.9 MiB/s |   2.3 MiB |  00m00s
[ 54/166] Installing libattr-0:2.5.2-5. 100% |  66.5 MiB/s |  68.0 KiB |  00m00s
[ 55/166] Installing libacl-0:2.3.2-3.f 100% |  65.5 MiB/s |  67.1 KiB |  00m00s
[ 56/166] Installing gdbm-libs-1:1.23-9 100% | 230.1 MiB/s | 235.7 KiB |  00m00s
[ 57/166] Installing mpfr-0:4.2.1-6.fc4 100% | 246.2 MiB/s | 756.3 KiB |  00m00s
[ 58/166] Installing gawk-0:5.3.1-1.fc4 100% | 102.2 MiB/s |   2.5 MiB |  00m00s
[ 59/166] Installing dwz-0:0.15-9.fc42. 100% |  19.8 MiB/s | 323.9 KiB |  00m00s
[ 60/166] Installing libfdisk-0:2.40.4- 100% | 205.1 MiB/s | 420.0 KiB |  00m00s
[ 61/166] Installing unzip-0:6.0-66.fc4 100% |  27.2 MiB/s | 473.7 KiB |  00m00s
[ 62/166] Installing file-libs-0:5.46-1 100% | 625.3 MiB/s |  11.9 MiB |  00m00s
[ 63/166] Installing file-0:5.46-1.fc42 100% |   5.8 MiB/s | 141.7 KiB |  00m00s
[ 64/166] Installing crypto-policies-0: 100% |  20.0 MiB/s | 163.7 KiB |  00m00s
[ 65/166] Installing libsmartcols-0:2.4 100% | 220.2 MiB/s | 225.5 KiB |  00m00s
[ 66/166] Installing libsepol-0:3.8-1.f 100% | 264.0 MiB/s | 810.9 KiB |  00m00s
[ 67/166] Installing lua-libs-0:5.4.7-2 100% | 322.3 MiB/s | 330.1 KiB |  00m00s
[ 68/166] Installing alternatives-0:1.3 100% |   5.3 MiB/s |  91.7 KiB |  00m00s
[ 69/166] Installing libcom_err-0:1.47. 100% | 109.5 MiB/s | 112.2 KiB |  00m00s
[ 70/166] Installing pcre2-0:10.44-1.fc 100% | 317.7 MiB/s | 650.6 KiB |  00m00s
[ 71/166] Installing libselinux-0:3.8-1 100% | 197.6 MiB/s | 202.3 KiB |  00m00s
[ 72/166] Installing grep-0:3.11-10.fc4 100% |  49.2 MiB/s |   1.0 MiB |  00m00s
[ 73/166] Installing sed-0:4.9-4.fc42.a 100% |  43.0 MiB/s | 881.4 KiB |  00m00s
[ 74/166] Installing findutils-1:4.10.0 100% |  83.5 MiB/s |   1.9 MiB |  00m00s
[ 75/166] Installing libmount-0:2.40.4- 100% | 174.3 MiB/s | 356.9 KiB |  00m00s
[ 76/166] Installing util-linux-core-0: 100% |  92.9 MiB/s |   2.3 MiB |  00m00s
[ 77/166] Installing xz-1:5.6.3-3.fc42. 100% |  60.1 MiB/s |   1.3 MiB |  00m00s
[ 78/166] Installing lz4-libs-0:1.10.0- 100% | 193.9 MiB/s | 198.5 KiB |  00m00s
[ 79/166] Installing libffi-0:3.4.6-5.f 100% | 152.1 MiB/s | 155.8 KiB |  00m00s
[ 80/166] Installing libtasn1-0:4.19.0- 100% | 108.1 MiB/s | 221.5 KiB |  00m00s
[ 81/166] Installing p11-kit-0:0.25.5-5 100% |  95.8 MiB/s |   2.4 MiB |  00m00s
[ 82/166] Installing libunistring-0:1.1 100% | 291.0 MiB/s |   1.7 MiB |  00m00s
[ 83/166] Installing libidn2-0:2.3.7-3. 100% | 109.1 MiB/s | 335.0 KiB |  00m00s
[ 84/166] Installing libpsl-0:0.21.5-5. 100% | 130.5 MiB/s | 133.6 KiB |  00m00s
[ 85/166] Installing p11-kit-trust-0:0. 100% |  17.5 MiB/s | 465.0 KiB |  00m00s
[ 86/166] Installing zstd-0:1.5.6-3.fc4 100% |  71.6 MiB/s |   1.5 MiB |  00m00s
[ 87/166] Installing tar-2:1.35-5.fc42. 100% | 115.6 MiB/s |   3.0 MiB |  00m00s
[ 88/166] Installing libsemanage-0:3.8- 100% | 117.8 MiB/s | 361.8 KiB |  00m00s
[ 89/166] Installing shadow-utils-2:4.1 100% | 110.9 MiB/s |   4.5 MiB |  00m00s
[ 90/166] Installing zip-0:3.0-43.fc42. 100% |  41.6 MiB/s | 766.4 KiB |  00m00s
[ 91/166] Installing gdbm-1:1.23-9.fc42 100% |  29.8 MiB/s | 548.8 KiB |  00m00s
[ 92/166] Installing cyrus-sasl-lib-0:2 100% | 105.1 MiB/s |   2.4 MiB |  00m00s
[ 93/166] Installing bzip2-0:1.0.8-20.f 100% |  10.7 MiB/s | 175.8 KiB |  00m00s
[ 94/166] Installing libxml2-0:2.12.9-2 100% |  90.1 MiB/s |   1.9 MiB |  00m00s
[ 95/166] Installing sqlite-libs-0:3.47 100% | 246.3 MiB/s |   1.5 MiB |  00m00s
[ 96/166] Installing add-determinism-0: 100% |  98.3 MiB/s |   2.2 MiB |  00m00s
[ 97/166] Installing build-reproducibil 100% |   0.0   B/s |   1.0 KiB |  00m00s
[ 98/166] Installing filesystem-srpm-ma 100% |  38.0 MiB/s |  38.9 KiB |  00m00s
[ 99/166] Installing ed-0:1.21-2.fc42.a 100% |   9.6 MiB/s | 156.8 KiB |  00m00s
[100/166] Installing patch-0:2.7.6-26.f 100% |  16.1 MiB/s | 263.9 KiB |  00m00s
[101/166] Installing elfutils-default-y 100% | 255.4 KiB/s |   2.0 KiB |  00m00s
[102/166] Installing elfutils-libs-0:0. 100% | 182.7 MiB/s | 748.2 KiB |  00m00s
[103/166] Installing dbus-common-1:1.16 100% |   1.5 MiB/s |  13.6 KiB |  00m00s
[104/166] Installing cpio-0:2.15-2.fc41 100% |  50.9 MiB/s |   1.2 MiB |  00m00s
[105/166] Installing diffutils-0:3.10-9 100% |  69.9 MiB/s |   1.6 MiB |  00m00s
[106/166] Installing libgomp-0:15.0.1-0 100% | 250.3 MiB/s | 512.6 KiB |  00m00s
[107/166] Installing jansson-0:2.14-2.f 100% |  92.3 MiB/s |  94.5 KiB |  00m00s
[108/166] Installing libpkgconf-0:2.3.0 100% | 132.0 MiB/s | 135.1 KiB |  00m00s
[109/166] Installing pkgconf-0:2.3.0-2. 100% |   7.0 MiB/s | 114.9 KiB |  00m00s
[110/166] Installing pkgconf-pkg-config 100% | 118.2 KiB/s |   1.8 KiB |  00m00s
[111/166] Installing keyutils-libs-0:1. 100% |  97.4 MiB/s |  99.8 KiB |  00m00s
[112/166] Installing libverto-0:0.3.2-1 100% |  69.5 MiB/s |  71.2 KiB |  00m00s
[113/166] Installing json-c-0:0.18-2.fc 100% | 136.7 MiB/s | 139.9 KiB |  00m00s
[114/166] Installing libseccomp-0:2.5.5 100% | 237.6 MiB/s | 243.3 KiB |  00m00s
[115/166] Installing expat-0:2.6.4-2.fc 100% |  11.1 MiB/s | 350.8 KiB |  00m00s
[116/166] Installing dbus-broker-0:36-5 100% |  14.8 MiB/s | 424.4 KiB |  00m00s
[117/166] Installing dbus-1:1.16.0-3.fc 100% |   0.0   B/s | 124.0   B |  00m00s
[118/166] Installing libnghttp2-0:1.64. 100% | 194.5 MiB/s | 199.2 KiB |  00m00s
[119/166] Installing xxhash-libs-0:0.8. 100% |  85.3 MiB/s |  87.4 KiB |  00m00s
[120/166] Installing libbrotli-0:1.1.0- 100% | 222.6 MiB/s | 911.7 KiB |  00m00s
[121/166] Installing libtool-ltdl-0:2.5 100% |  92.9 MiB/s |  95.1 KiB |  00m00s
[122/166] Installing coreutils-common-0 100% | 286.0 MiB/s |  11.2 MiB |  00m00s
[123/166] Installing openssl-libs-1:3.2 100% | 301.6 MiB/s |   6.3 MiB |  00m00s
[124/166] Installing coreutils-0:9.6-1. 100% | 171.4 MiB/s |   8.2 MiB |  00m00s
[125/166] Installing ca-certificates-0: 100% |   1.4 MiB/s |   2.4 MiB |  00m02s
[126/166] Installing krb5-libs-0:1.21.3 100% | 211.0 MiB/s |   2.5 MiB |  00m00s
[127/166] Installing libarchive-0:3.7.7 100% | 222.8 MiB/s | 912.6 KiB |  00m00s
[128/166] Installing libtirpc-0:1.3.6-1 100% | 103.7 MiB/s | 212.5 KiB |  00m00s
[129/166] Installing gzip-0:1.13-3.fc42 100% |  22.1 MiB/s | 430.2 KiB |  00m00s
[130/166] Installing authselect-libs-0: 100% | 122.8 MiB/s | 880.5 KiB |  00m00s
[131/166] Installing cracklib-0:2.9.11- 100% |  21.2 MiB/s | 433.7 KiB |  00m00s
[132/166] Installing libpwquality-0:1.4 100% |  28.9 MiB/s | 621.7 KiB |  00m00s
[133/166] Installing libnsl2-0:2.0.1-3. 100% |  46.4 MiB/s |  95.0 KiB |  00m00s
[134/166] Installing pam-0:1.7.0-4.fc42 100% | 116.1 MiB/s |   4.3 MiB |  00m00s
[135/166] Installing util-linux-0:2.40. 100% | 127.5 MiB/s |   6.6 MiB |  00m00s
[136/166] Installing systemd-pam-0:257. 100% | 167.3 MiB/s |   1.2 MiB |  00m00s
[137/166] Installing systemd-0:257.2-17 100% |  95.1 MiB/s |  20.2 MiB |  00m00s
>>> Running post-install scriptlet: systemd-0:257.2-17.fc42.aarch64
>>> Finished post-install scriptlet: systemd-0:257.2-17.fc42.aarch64
>>> Scriptlet output:
>>> Creating group 'systemd-journal' with GID 190.
>>> Creating group 'systemd-oom' with GID 999.
>>> Creating user 'systemd-oom' (systemd Userspace OOM Killer) with UID 999 and 
>>> 
[138/166] Installing libssh-0:0.11.1-4. 100% | 191.2 MiB/s | 587.5 KiB |  00m00s
[139/166] Installing rpm-sequoia-0:1.7. 100% | 287.2 MiB/s |   2.3 MiB |  00m00s
[140/166] Installing rpm-libs-0:4.20.0- 100% | 239.3 MiB/s | 735.1 KiB |  00m00s
[141/166] Installing rpm-build-libs-0:4 100% | 194.8 MiB/s | 199.4 KiB |  00m00s
[142/166] Installing libevent-0:2.1.12- 100% | 271.3 MiB/s |   1.1 MiB |  00m00s
[143/166] Installing openldap-0:2.6.9-3 100% | 171.2 MiB/s | 701.1 KiB |  00m00s
[144/166] Installing libcurl-0:8.11.1-4 100% | 258.8 MiB/s | 795.1 KiB |  00m00s
[145/166] Installing elfutils-debuginfo 100% |   8.4 MiB/s | 146.2 KiB |  00m00s
[146/166] Installing elfutils-0:0.192-8 100% | 120.8 MiB/s |   3.1 MiB |  00m00s
[147/166] Installing binutils-0:2.43.50 100% | 263.0 MiB/s |  29.2 MiB |  00m00s
[148/166] Installing gdb-minimal-0:15.2 100% | 213.2 MiB/s |  12.8 MiB |  00m00s
[149/166] Installing debugedit-0:5.1-4. 100% |  13.4 MiB/s | 247.0 KiB |  00m00s
[150/166] Installing curl-0:8.11.1-4.fc 100% |  15.9 MiB/s | 457.2 KiB |  00m00s
[151/166] Installing rpm-0:4.20.0-8.fc4 100% |  71.8 MiB/s |   2.7 MiB |  00m00s
[152/166] Installing efi-srpm-macros-0: 100% |  40.1 MiB/s |  41.1 KiB |  00m00s
[153/166] Installing tree-sitter-srpm-m 100% |   7.2 MiB/s |   7.4 KiB |  00m00s
[154/166] Installing lua-srpm-macros-0: 100% |   0.0   B/s |   1.9 KiB |  00m00s
[155/166] Installing zig-srpm-macros-0: 100% |   0.0   B/s |   1.7 KiB |  00m00s
[156/166] Installing forge-srpm-macros- 100% |  39.3 MiB/s |  40.3 KiB |  00m00s
[157/166] Installing go-srpm-macros-0:3 100% |  60.5 MiB/s |  62.0 KiB |  00m00s
[158/166] Installing fonts-srpm-macros- 100% |  55.7 MiB/s |  57.0 KiB |  00m00s
[159/166] Installing python-srpm-macros 100% |  50.9 MiB/s |  52.2 KiB |  00m00s
[160/166] Installing redhat-rpm-config- 100% |  63.0 MiB/s | 193.5 KiB |  00m00s
[161/166] Installing rpm-build-0:4.20.0 100% |  27.4 MiB/s | 533.6 KiB |  00m00s
[162/166] Installing pyproject-srpm-mac 100% |   2.4 MiB/s |   2.5 KiB |  00m00s
[163/166] Installing authselect-0:1.5.0 100% |  10.0 MiB/s | 184.3 KiB |  00m00s
[164/166] Installing which-0:2.23-1.fc4 100% |   7.7 MiB/s | 125.6 KiB |  00m00s
[165/166] Installing info-0:7.2-3.fc42. 100% |  24.2 MiB/s | 422.0 KiB |  00m00s
[166/166] Installing systemd-rpm-macros 100% |   5.1 KiB/s |  11.3 KiB |  00m02s
Warning: skipped OpenPGP checks for 164 packages from repositories: copr_base, http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch
Complete!
Finish: installing minimal buildroot with dnf5
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: add-determinism-0.5.0-2.fc42.aarch64
alternatives-1.31-3.fc42.aarch64
ansible-srpm-macros-1-17.1.fc42.noarch
audit-libs-4.0.3-2.fc42.aarch64
authselect-1.5.0-9.fc42.aarch64
authselect-libs-1.5.0-9.fc42.aarch64
basesystem-11-22.fc42.noarch
bash-5.2.37-1.fc42.aarch64
binutils-2.43.50-12.fc42.aarch64
build-reproducibility-srpm-macros-0.5.0-2.fc42.noarch
bzip2-1.0.8-20.fc42.aarch64
bzip2-libs-1.0.8-20.fc42.aarch64
ca-certificates-2024.2.69_v8.0.401-5.fc42.noarch
coreutils-9.6-1.fc42.aarch64
coreutils-common-9.6-1.fc42.aarch64
cpio-2.15-2.fc41.aarch64
cracklib-2.9.11-7.fc42.aarch64
crypto-policies-20250124-1.git4d262e7.fc42.noarch
curl-8.11.1-4.fc42.aarch64
cyrus-sasl-lib-2.1.28-30.fc42.aarch64
dbus-1.16.0-3.fc42.aarch64
dbus-broker-36-5.fc42.aarch64
dbus-common-1.16.0-3.fc42.noarch
debugedit-5.1-4.fc42.aarch64
diffutils-3.10-9.fc42.aarch64
dwz-0.15-9.fc42.aarch64
ed-1.21-2.fc42.aarch64
efi-srpm-macros-6-2.fc42.noarch
elfutils-0.192-8.fc42.aarch64
elfutils-debuginfod-client-0.192-8.fc42.aarch64
elfutils-default-yama-scope-0.192-8.fc42.noarch
elfutils-libelf-0.192-8.fc42.aarch64
elfutils-libs-0.192-8.fc42.aarch64
expat-2.6.4-2.fc42.aarch64
fedora-gpg-keys-42-0.4.noarch
fedora-release-42-0.16.noarch
fedora-release-common-42-0.16.noarch
fedora-release-identity-basic-42-0.16.noarch
fedora-repos-42-0.4.noarch
fedora-repos-rawhide-42-0.4.noarch
file-5.46-1.fc42.aarch64
file-libs-5.46-1.fc42.aarch64
filesystem-3.18-36.fc42.aarch64
filesystem-srpm-macros-3.18-36.fc42.noarch
findutils-4.10.0-5.fc42.aarch64
fonts-srpm-macros-2.0.5-21.fc42.noarch
forge-srpm-macros-0.4.0-2.fc42.noarch
fpc-srpm-macros-1.3-14.fc42.noarch
gawk-5.3.1-1.fc42.aarch64
gdb-minimal-15.2-7.fc42.aarch64
gdbm-1.23-9.fc42.aarch64
gdbm-libs-1.23-9.fc42.aarch64
ghc-srpm-macros-1.9.2-2.fc42.noarch
glibc-2.40.9000-35.fc42.aarch64
glibc-common-2.40.9000-35.fc42.aarch64
glibc-gconv-extra-2.40.9000-35.fc42.aarch64
glibc-minimal-langpack-2.40.9000-35.fc42.aarch64
gmp-6.3.0-2.fc41.aarch64
gnat-srpm-macros-6-7.fc42.noarch
go-srpm-macros-3.6.0-6.fc42.noarch
grep-3.11-10.fc42.aarch64
gzip-1.13-3.fc42.aarch64
info-7.2-3.fc42.aarch64
jansson-2.14-2.fc42.aarch64
json-c-0.18-2.fc42.aarch64
kernel-srpm-macros-1.0-25.fc42.noarch
keyutils-libs-1.6.3-5.fc42.aarch64
krb5-libs-1.21.3-5.fc42.aarch64
libacl-2.3.2-3.fc42.aarch64
libarchive-3.7.7-2.fc42.aarch64
libattr-2.5.2-5.fc42.aarch64
libblkid-2.40.4-2.fc42.aarch64
libbrotli-1.1.0-6.fc42.aarch64
libcap-2.73-2.fc42.aarch64
libcap-ng-0.8.5-4.fc42.aarch64
libcom_err-1.47.2-3.fc42.aarch64
libcurl-8.11.1-4.fc42.aarch64
libeconf-0.7.5-2.fc42.aarch64
libevent-2.1.12-15.fc42.aarch64
libfdisk-2.40.4-2.fc42.aarch64
libffi-3.4.6-5.fc42.aarch64
libgcc-15.0.1-0.6.fc42.aarch64
libgomp-15.0.1-0.6.fc42.aarch64
libidn2-2.3.7-3.fc42.aarch64
libmount-2.40.4-2.fc42.aarch64
libnghttp2-1.64.0-3.fc42.aarch64
libnsl2-2.0.1-3.fc42.aarch64
libpkgconf-2.3.0-2.fc42.aarch64
libpsl-0.21.5-5.fc42.aarch64
libpwquality-1.4.5-12.fc42.aarch64
libseccomp-2.5.5-2.fc41.aarch64
libselinux-3.8-1.fc42.aarch64
libsemanage-3.8-1.fc42.aarch64
libsepol-3.8-1.fc42.aarch64
libsmartcols-2.40.4-2.fc42.aarch64
libssh-0.11.1-4.fc42.aarch64
libssh-config-0.11.1-4.fc42.noarch
libstdc++-15.0.1-0.6.fc42.aarch64
libtasn1-4.19.0-11.fc42.aarch64
libtirpc-1.3.6-1.rc3.fc42.2.aarch64
libtool-ltdl-2.5.4-4.fc42.aarch64
libunistring-1.1-9.fc42.aarch64
libuuid-2.40.4-2.fc42.aarch64
libverto-0.3.2-10.fc42.aarch64
libxcrypt-4.4.38-4.fc42.aarch64
libxml2-2.12.9-2.fc42.aarch64
libzstd-1.5.6-3.fc42.aarch64
lua-libs-5.4.7-2.fc42.aarch64
lua-srpm-macros-1-15.fc42.noarch
lz4-libs-1.10.0-2.fc42.aarch64
mpfr-4.2.1-6.fc42.aarch64
ncurses-base-6.5-5.20250125.fc42.noarch
ncurses-libs-6.5-5.20250125.fc42.aarch64
ocaml-srpm-macros-10-4.fc42.noarch
openblas-srpm-macros-2-19.fc42.noarch
openldap-2.6.9-3.fc42.aarch64
openssl-libs-3.2.2-14.fc42.aarch64
p11-kit-0.25.5-5.fc42.aarch64
p11-kit-trust-0.25.5-5.fc42.aarch64
package-notes-srpm-macros-0.5-13.fc42.noarch
pam-1.7.0-4.fc42.aarch64
pam-libs-1.7.0-4.fc42.aarch64
patch-2.7.6-26.fc42.aarch64
pcre2-10.44-1.fc42.2.aarch64
pcre2-syntax-10.44-1.fc42.2.noarch
perl-srpm-macros-1-57.fc42.noarch
pkgconf-2.3.0-2.fc42.aarch64
pkgconf-m4-2.3.0-2.fc42.noarch
pkgconf-pkg-config-2.3.0-2.fc42.aarch64
popt-1.19-8.fc42.aarch64
publicsuffix-list-dafsa-20250116-1.fc42.noarch
pyproject-srpm-macros-1.16.4-2.fc42.noarch
python-srpm-macros-3.13-4.fc42.noarch
qt5-srpm-macros-5.15.15-1.fc42.noarch
qt6-srpm-macros-6.8.2-1.fc42.noarch
readline-8.2-12.fc42.aarch64
redhat-rpm-config-342-2.fc42.noarch
rpm-4.20.0-8.fc42.aarch64
rpm-build-4.20.0-8.fc42.aarch64
rpm-build-libs-4.20.0-8.fc42.aarch64
rpm-libs-4.20.0-8.fc42.aarch64
rpm-sequoia-1.7.0-4.fc42.aarch64
rust-srpm-macros-26.3-4.fc42.noarch
sed-4.9-4.fc42.aarch64
setup-2.15.0-10.fc42.noarch
shadow-utils-4.17.0-4.fc42.aarch64
sqlite-libs-3.47.2-2.fc42.aarch64
systemd-257.2-17.fc42.aarch64
systemd-libs-257.2-17.fc42.aarch64
systemd-pam-257.2-17.fc42.aarch64
systemd-rpm-macros-257.2-17.fc42.noarch
tar-1.35-5.fc42.aarch64
tree-sitter-srpm-macros-0.1.0-8.fc42.noarch
unzip-6.0-66.fc42.aarch64
util-linux-2.40.4-2.fc42.aarch64
util-linux-core-2.40.4-2.fc42.aarch64
which-2.23-1.fc42.aarch64
xxhash-libs-0.8.3-2.fc42.aarch64
xz-5.6.3-3.fc42.aarch64
xz-libs-5.6.3-3.fc42.aarch64
zig-srpm-macros-1-4.fc42.noarch
zip-3.0-43.fc42.aarch64
zlib-ng-compat-2.2.3-2.fc42.aarch64
zstd-1.5.6-3.fc42.aarch64
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1738627200
Wrote: /builddir/build/SRPMS/pymol-3.1.0-3.fc42.src.rpm
Finish: rpmbuild -bs
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-41-aarch64-1738674682.583297/root/var/log/dnf5.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
Finish: buildsrpm
INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-2nhjcovb/pymol/pymol.spec) Config(child) 0 minutes 25 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
INFO: Start(/var/lib/copr-rpmbuild/results/pymol-3.1.0-3.fc42.src.rpm)  Config(fedora-41-aarch64)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-41-aarch64-bootstrap-1738674682.583297/root.
INFO: reusing tmpfs at /var/lib/mock/fedora-41-aarch64-bootstrap-1738674682.583297/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
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-41-aarch64-1738674682.583297/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
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.20.0-1.fc41.aarch64
  rpm-sequoia-1.7.0-3.fc41.aarch64
  dnf5-5.2.8.1-3.fc41.aarch64
  dnf5-plugins-5.2.8.1-3.fc41.aarch64
Finish: chroot init
Start: build phase for pymol-3.1.0-3.fc42.src.rpm
Start: build setup for pymol-3.1.0-3.fc42.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1738627200
Wrote: /builddir/build/SRPMS/pymol-3.1.0-3.fc42.src.rpm
Updating and loading repositories:
 fedora                                 100% | 183.5 KiB/s |  17.6 KiB |  00m00s
 updates                                100% | 139.6 KiB/s |  10.2 KiB |  00m00s
 Copr repository                        100% | 118.2 KiB/s |   1.5 KiB |  00m00s
 Additional repo http_kojipkgs_fedorapr 100% | 239.4 KiB/s |   3.8 KiB |  00m00s
Repositories loaded.
Package                              Arch    Version                           Repository                                                         Size
Installing:
 catch2-devel                        aarch64 2.13.10-6.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 952.9 KiB
 desktop-file-utils                  aarch64 0.27-3.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 317.9 KiB
 freeglut-devel                      aarch64 3.6.0-4.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.3 MiB
 freetype-devel                      aarch64 2.13.3-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.5 MiB
 gcc                                 aarch64 15.0.1-0.6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  98.5 MiB
 gcc-c++                             aarch64 15.0.1-0.6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  38.6 MiB
 glew-devel                          aarch64 2.2.0-10.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.8 MiB
 glm-devel                           noarch  1.0.1-3.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.1 MiB
 libappstream-glib                   aarch64 0.8.3-3.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.5 MiB
 libpng-devel                        aarch64 2:1.6.44-2.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 949.6 KiB
 libxml2-devel                       aarch64 2.12.9-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.4 MiB
 mesa-libGL-devel                    aarch64 24.3.4-3.fc41                     updates                                                        80.9 KiB
 mmtf-cpp-devel                      aarch64 1.1.0-7.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 114.4 KiB
 msgpack-devel                       aarch64 3.1.0-18.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.1 MiB
 netcdf-devel                        aarch64 4.9.2-8.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 371.3 KiB
 pyproject-rpm-macros                noarch  1.16.4-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 113.0 KiB
 python3-devel                       aarch64 3.13.1-4.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.8 MiB
 python3-pillow                      aarch64 11.1.0-2.fc42                     copr_base                                                       4.1 MiB
 python3-pyside6-devel               aarch64 6.8.1.1-3.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.2 MiB
 python3-pytest                      noarch  8.3.4-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  20.8 MiB
 python3-qt5-devel                   aarch64 5.15.11-3.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.7 MiB
Installing dependencies:
 OpenCL-ICD-Loader                   aarch64 3.0.6-2.20241023git5907ac1.fc42   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  78.6 KiB
 SDL3                                aarch64 3.2.2-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.6 MiB
 abattis-cantarell-vf-fonts          noarch  0.301-14.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 192.7 KiB
 adwaita-cursor-theme                noarch  47.0-2.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  10.0 MiB
 adwaita-icon-theme                  noarch  47.0-2.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 adwaita-icon-theme-legacy           noarch  46.2-3.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.1 MiB
 alsa-lib                            aarch64 1.2.13-4.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.4 MiB
 annobin-docs                        noarch  12.88-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  98.6 KiB
 annobin-plugin-gcc                  aarch64 12.88-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.0 MiB
 aribb24                             aarch64 1.0.3^20160216git5e9be27-2.fc42   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 137.8 KiB
 assimp                              aarch64 5.3.1-5.fc42                      copr_base                                                       6.5 MiB
 at-spi2-atk                         aarch64 2.55.2-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 359.2 KiB
 at-spi2-core                        aarch64 2.55.2-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 MiB
 atk                                 aarch64 2.55.2-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 296.8 KiB
 avahi                               aarch64 0.9~rc2-2.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 MiB
 avahi-devel                         aarch64 0.9~rc2-2.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 130.6 KiB
 avahi-glib                          aarch64 0.9~rc2-2.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  67.6 KiB
 avahi-libs                          aarch64 0.9~rc2-2.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 230.4 KiB
 blosc                               aarch64 1.21.6-6.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 129.9 KiB
 bluez-libs                          aarch64 5.79-1.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 278.7 KiB
 brotli                              aarch64 1.1.0-6.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  67.6 KiB
 brotli-devel                        aarch64 1.1.0-6.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  65.6 KiB
 bzip2-devel                         aarch64 1.0.8-20.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 309.8 KiB
 cairo                               aarch64 1.18.2-3.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.8 MiB
 cairo-devel                         aarch64 1.18.2-3.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.3 MiB
 cairo-gobject                       aarch64 1.18.2-3.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  67.2 KiB
 cdparanoia-libs                     aarch64 10.2-47.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 137.6 KiB
 cjson                               aarch64 1.7.18-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  96.0 KiB
 clang-libs                          aarch64 19.1.7-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 119.1 MiB
 clang-resource-filesystem           aarch64 19.1.7-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  15.3 KiB
 cmake                               aarch64 3.31.5-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  29.4 MiB
 cmake-data                          noarch  3.31.5-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.5 MiB
 cmake-filesystem                    aarch64 3.31.5-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 cmake-rpm-macros                    noarch  3.31.5-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   7.7 KiB
 codec2                              aarch64 1.2.0-6.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.4 MiB
 colord-libs                         aarch64 1.4.7-6.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 970.2 KiB
 cpp                                 aarch64 15.0.1-0.6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  35.4 MiB
 cups-devel                          aarch64 1:2.4.11-10.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 185.8 KiB
 cups-filesystem                     noarch  1:2.4.11-10.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 cups-libs                           aarch64 1:2.4.11-10.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 666.9 KiB
 dbus-devel                          aarch64 1:1.16.0-3.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 131.7 KiB
 dbus-libs                           aarch64 1:1.16.0-3.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 397.5 KiB
 default-fonts-core-sans             noarch  4.2-4.fc42                        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  11.9 KiB
 double-conversion                   aarch64 3.3.0-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 140.4 KiB
 duktape                             aarch64 2.7.0-9.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 672.0 KiB
 emacs-filesystem                    noarch  1:30.0-4.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 fdk-aac-free                        aarch64 2.0.0-15.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 591.2 KiB
 flac-libs                           aarch64 1.4.3-6.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 613.7 KiB
 fmt                                 aarch64 11.1.2-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 257.2 KiB
 fontconfig                          aarch64 2.16.0-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 fontconfig-devel                    aarch64 2.16.0-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 119.3 KiB
 fonts-filesystem                    noarch  1:2.0.5-21.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   0.0   B
 freeglut                            aarch64 3.6.0-4.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 523.4 KiB
 freetype                            aarch64 2.13.3-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 814.5 KiB
 fribidi                             aarch64 1.0.16-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 246.3 KiB
 game-music-emu                      aarch64 0.6.3-17.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 298.5 KiB
 gcc-gfortran                        aarch64 15.0.1-0.6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  36.6 MiB
 gcc-plugin-annobin                  aarch64 15.0.1-0.6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  69.2 KiB
 gdk-pixbuf2                         aarch64 2.42.12-10.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.6 MiB
 gdk-pixbuf2-modules                 aarch64 2.42.12-10.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 135.5 KiB
 gettext                             aarch64 0.23.1-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.8 MiB
 gettext-envsubst                    aarch64 0.23.1-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 106.7 KiB
 gettext-libs                        aarch64 0.23.1-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.0 MiB
 gettext-runtime                     aarch64 0.23.1-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 508.0 KiB
 glib2                               aarch64 2.83.2-6.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  15.3 MiB
 glib2-devel                         aarch64 2.83.2-6.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  16.1 MiB
 glibc-devel                         aarch64 2.40.9000-35.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.2 MiB
 glx-utils                           aarch64 9.0.0-9.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 590.6 KiB
 gmp-c++                             aarch64 1:6.3.0-2.fc41                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 195.6 KiB
 gmp-devel                           aarch64 1:6.3.0-2.fc41                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 358.1 KiB
 gnutls                              aarch64 3.8.8-3.fc41                      updates                                                         3.3 MiB
 gnutls-c++                          aarch64 3.8.8-3.fc41                      updates                                                        66.3 KiB
 gnutls-dane                         aarch64 3.8.8-3.fc41                      updates                                                        66.3 KiB
 gnutls-devel                        aarch64 3.8.8-3.fc41                      updates                                                         5.6 MiB
 google-noto-fonts-common            noarch  20250101-2.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  17.7 KiB
 google-noto-sans-vf-fonts           noarch  20250101-2.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.4 MiB
 graphene                            aarch64 1.10.6-10.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 178.6 KiB
 graphite2                           aarch64 1.3.14-18.fc42                    copr_base                                                     239.6 KiB
 graphite2-devel                     aarch64 1.3.14-18.fc42                    copr_base                                                      49.3 KiB
 groff-base                          aarch64 1.23.0-8.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.2 MiB
 gsm                                 aarch64 1.0.22-8.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  76.7 KiB
 gssdp                               aarch64 1.6.3-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 190.0 KiB
 gstreamer1                          aarch64 1.24.11-2.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.7 MiB
 gstreamer1-plugins-bad-free-libs    aarch64 1.24.11-3.fc42                    copr_base                                                       3.2 MiB
 gstreamer1-plugins-base             aarch64 1.24.11-2.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.3 MiB
 gtk-update-icon-cache               aarch64 3.24.43-3.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  94.1 KiB
 gtk3                                aarch64 3.24.43-3.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  23.0 MiB
 gupnp                               aarch64 1.6.8-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 320.1 KiB
 gupnp-igd                           aarch64 1.6.0-6.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  98.8 KiB
 harfbuzz                            aarch64 10.2.0-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.6 MiB
 harfbuzz-cairo                      aarch64 10.2.0-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  68.1 KiB
 harfbuzz-devel                      aarch64 10.2.0-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.2 MiB
 harfbuzz-icu                        aarch64 10.2.0-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  67.4 KiB
 hdf-libs                            aarch64 4.3.0-3.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 722.9 KiB
 hdf5                                aarch64 1.14.5-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.0 MiB
 hdf5-devel                          aarch64 1.14.5-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.2 MiB
 hicolor-icon-theme                  noarch  0.17-20.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  72.2 KiB
 highway                             aarch64 1.2.0-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.4 MiB
 hiredis                             aarch64 1.2.0-6.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 201.8 KiB
 hwdata                              noarch  0.392-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   9.4 MiB
 ilbc                                aarch64 3.0.4-13.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  79.4 KiB
 iso-codes                           noarch  4.17.0-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  20.3 MiB
 jasper-libs                         aarch64 4.2.3-3.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 332.8 KiB
 jbigkit-libs                        aarch64 2.1-31.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 181.5 KiB
 json-glib                           aarch64 1.10.6-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 610.7 KiB
 jsoncpp                             aarch64 1.9.5-9.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 271.7 KiB
 kernel-headers                      aarch64 6.14.0-0.rc1.15.fc42              http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.4 MiB
 keyutils-libs-devel                 aarch64 1.6.3-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  48.2 KiB
 krb5-devel                          aarch64 1.21.3-5.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 705.9 KiB
 lame-libs                           aarch64 3.100-19.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 lcms2                               aarch64 2.16-5.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 420.7 KiB
 libGLEW                             aarch64 2.2.0-10.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 840.4 KiB
 libICE                              aarch64 1.1.2-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 222.4 KiB
 libSM                               aarch64 1.2.5-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 129.1 KiB
 libX11                              aarch64 1.8.11-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 MiB
 libX11-common                       noarch  1.8.11-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.2 MiB
 libX11-devel                        aarch64 1.8.11-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.0 MiB
 libX11-xcb                          aarch64 1.8.11-1.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  67.0 KiB
 libXau                              aarch64 1.0.12-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 121.0 KiB
 libXau-devel                        aarch64 1.0.12-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   7.5 KiB
 libXcomposite                       aarch64 0.4.6-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  96.5 KiB
 libXcursor                          aarch64 1.2.3-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  69.5 KiB
 libXdamage                          aarch64 1.1.6-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  95.7 KiB
 libXext                             aarch64 1.3.6-3.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 145.9 KiB
 libXext-devel                       aarch64 1.3.6-3.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  98.9 KiB
 libXfixes                           aarch64 6.0.1-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  70.2 KiB
 libXft                              aarch64 2.3.8-8.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 192.4 KiB
 libXi                               aarch64 1.8.2-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  72.5 KiB
 libXinerama                         aarch64 1.1.5-8.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  71.0 KiB
 libXrandr                           aarch64 1.5.4-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  71.7 KiB
 libXrender                          aarch64 0.9.12-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  70.0 KiB
 libXrender-devel                    aarch64 0.9.12-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  50.1 KiB
 libXtst                             aarch64 1.2.5-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  73.5 KiB
 libXv                               aarch64 1.0.13-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  70.0 KiB
 libXxf86vm                          aarch64 1.1.6-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  69.2 KiB
 libaec                              aarch64 1.1.3-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 154.0 KiB
 libaec-devel                        aarch64 1.1.3-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  12.5 KiB
 libaom                              aarch64 3.9.0-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.8 MiB
 libaribcaption                      aarch64 1.1.1-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 271.9 KiB
 libasan                             aarch64 15.0.1-0.6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.5 MiB
 libasyncns                          aarch64 0.8-30.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  99.4 KiB
 libatomic                           aarch64 15.0.1-0.6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  68.8 KiB
 libavcodec-free                     aarch64 7.0.2-12.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.2 MiB
 libavformat-free                    aarch64 7.0.2-12.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.6 MiB
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 qt6-qtwebchannel                    aarch64 6.8.2-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 502.9 KiB
 qt6-qtwebengine                     aarch64 6.8.2-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 222.4 MiB
 qt6-qtwebsockets                    aarch64 6.8.2-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 363.4 KiB
 qt6-qtwebview                       aarch64 6.8.2-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 494.6 KiB
 qt6-rpm-macros                      noarch  6.8.2-1.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.9 KiB
 rav1e-libs                          aarch64 0.7.1-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.1 MiB
 rhash                               aarch64 1.4.5-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 394.8 KiB
 rsvg-pixbuf-loader                  aarch64 2.59.2-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 336.9 KiB
 samba-client-libs                   aarch64 2:4.21.3-6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  20.1 MiB
 samba-common                        noarch  2:4.21.3-6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 210.1 KiB
 samba-common-libs                   aarch64 2:4.21.3-6.fc42                   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 266.5 KiB
 sdl2-compat                         aarch64 2.30.52-1.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 485.4 KiB
 shared-mime-info                    aarch64 2.3-7.fc42                        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.3 MiB
 shiboken6                           aarch64 6.8.1.1-3.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 104.3 KiB
 snappy                              aarch64 1.2.1-4.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  83.0 KiB
 soxr                                aarch64 0.1.3-18.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 206.9 KiB
 speex                               aarch64 1.2.0-19.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 136.5 KiB
 spirv-tools-libs                    aarch64 2024.4-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   5.4 MiB
 srt-libs                            aarch64 1.5.4-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 923.3 KiB
 svt-av1-libs                        aarch64 2.1.0-5.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   3.9 MiB
 sysprof-capture-devel               aarch64 47.2-2.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 275.7 KiB
 systemd-devel                       aarch64 257.2-17.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 610.5 KiB
 tslib                               aarch64 1.22-11.fc41                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   4.6 MiB
 twolame-libs                        aarch64 0.4.0-6.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 157.5 KiB
 tzdata                              noarch  2024b-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.6 MiB
 unbound-libs                        aarch64 1.22.0-11.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.4 MiB
 unixODBC                            aarch64 2.3.12-6.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 MiB
 vapoursynth-libs                    aarch64 70-1.fc42                         http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.0 MiB
 vim-filesystem                      noarch  2:9.1.1000-1.fc42                 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  40.0   B
 vo-amrwbenc                         aarch64 0.1.3-22.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 177.9 KiB
 vulkan-headers                      noarch  1.4.304.0-2.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  28.2 MiB
 vulkan-loader                       aarch64 1.4.304.0-2.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 611.8 KiB
 vulkan-loader-devel                 aarch64 1.4.304.0-2.fc42                  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.0 KiB
 webrtc-audio-processing             aarch64 1.3-3.fc42                        http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.5 MiB
 xcb-util                            aarch64 0.4.1-7.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  70.3 KiB
 xcb-util-cursor                     aarch64 0.1.5-3.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  71.2 KiB
 xcb-util-image                      aarch64 0.4.1-7.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  70.2 KiB
 xcb-util-keysyms                    aarch64 0.4.1-7.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  68.6 KiB
 xcb-util-renderutil                 aarch64 0.3.10-7.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  72.4 KiB
 xcb-util-wm                         aarch64 0.4.2-7.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 137.3 KiB
 xkeyboard-config                    noarch  2.43-2.fc42                       http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   6.6 MiB
 xml-common                          noarch  0.6.3-66.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  78.4 KiB
 xorg-x11-proto-devel                noarch  2024.1-4.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.7 MiB
 xprop                               aarch64 1.2.8-3.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  78.6 KiB
 xvidcore                            aarch64 1.3.7-13.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 680.4 KiB
 xz-devel                            aarch64 1:5.6.3-3.fc42                    http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 255.6 KiB
 zeromq                              aarch64 4.3.5-21.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 920.1 KiB
 zimg                                aarch64 3.0.5-3.fc41                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 471.4 KiB
 zlib-ng-compat-devel                aarch64 2.2.3-2.fc42                      http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 107.0 KiB
 zvbi                                aarch64 0.2.43-2.fc42                     http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   1.3 MiB

Transaction Summary:
 Installing:       523 packages

Total size of inbound packages is 494 MiB. Need to download 494 MiB.
After this operation, 2 GiB extra will be used (install 2 GiB, remove 0 B).
[  1/523] catch2-devel-0:2.13.10-6.fc42 100% |   7.1 MiB/s | 196.9 KiB |  00m00s
[  2/523] desktop-file-utils-0:0.27-3.f 100% |   2.4 MiB/s |  68.1 KiB |  00m00s
[  3/523] freeglut-devel-0:3.6.0-4.fc42 100% |  16.3 MiB/s | 886.8 KiB |  00m00s
[  4/523] freetype-devel-0:2.13.3-2.fc4 100% |  30.1 MiB/s |   1.0 MiB |  00m00s
[  5/523] glew-devel-0:2.2.0-10.fc42.aa 100% |  21.1 MiB/s | 216.5 KiB |  00m00s
[  6/523] glm-devel-0:1.0.1-3.fc42.noar 100% |  27.0 MiB/s | 248.5 KiB |  00m00s
[  7/523] mesa-libGL-devel-0:24.3.4-3.f 100% |   3.7 MiB/s |  38.1 KiB |  00m00s
[  8/523] libappstream-glib-0:0.8.3-3.f 100% |  46.9 MiB/s | 384.3 KiB |  00m00s
[  9/523] libpng-devel-2:1.6.44-2.fc42. 100% |  40.7 MiB/s | 291.6 KiB |  00m00s
[ 10/523] libxml2-devel-0:2.12.9-2.fc42 100% |  40.3 MiB/s | 494.9 KiB |  00m00s
[ 11/523] mmtf-cpp-devel-0:1.1.0-7.fc42 100% |   4.2 MiB/s |  30.4 KiB |  00m00s
[ 12/523] gcc-c++-0:15.0.1-0.6.fc42.aar 100% | 140.6 MiB/s |  13.9 MiB |  00m00s
[ 13/523] msgpack-devel-0:3.1.0-18.fc42 100% |  12.7 MiB/s | 311.8 KiB |  00m00s
[ 14/523] pyproject-rpm-macros-0:1.16.4 100% |  10.9 MiB/s |  44.6 KiB |  00m00s
[ 15/523] netcdf-devel-0:4.9.2-8.fc42.a 100% |  12.7 MiB/s |  90.9 KiB |  00m00s
[ 16/523] gcc-0:15.0.1-0.6.fc42.aarch64 100% | 209.9 MiB/s |  35.7 MiB |  00m00s
[ 17/523] python3-devel-0:3.13.1-4.fc42 100% |   8.5 MiB/s | 358.2 KiB |  00m00s
[ 18/523] python3-pyside6-devel-0:6.8.1 100% |  44.7 MiB/s | 274.8 KiB |  00m00s
[ 19/523] python3-qt5-devel-0:5.15.11-3 100% |  62.7 MiB/s | 385.1 KiB |  00m00s
[ 20/523] freetype-0:2.13.3-2.fc42.aarc 100% |  65.6 MiB/s | 403.1 KiB |  00m00s
[ 21/523] freeglut-0:3.6.0-4.fc42.aarch 100% |  14.3 MiB/s | 146.3 KiB |  00m00s
[ 22/523] python3-pillow-0:11.1.0-2.fc4 100% |  12.4 MiB/s | 943.0 KiB |  00m00s
[ 23/523] libGLEW-0:2.2.0-10.fc42.aarch 100% |  42.2 MiB/s | 173.0 KiB |  00m00s
[ 24/523] libstdc++-devel-0:15.0.1-0.6. 100% |  88.9 MiB/s |   2.7 MiB |  00m00s
[ 25/523] mesa-libGL-0:24.3.4-3.fc41.aa 100% |  24.3 MiB/s | 174.1 KiB |  00m00s
[ 26/523] libpng-2:1.6.44-2.fc42.aarch6 100% |  23.0 MiB/s | 118.0 KiB |  00m00s
[ 27/523] msgpack-0:3.1.0-18.fc42.aarch 100% |   7.4 MiB/s |  30.2 KiB |  00m00s
[ 28/523] python3-0:3.13.1-4.fc42.aarch 100% |   9.2 MiB/s |  28.3 KiB |  00m00s
[ 29/523] cpp-0:15.0.1-0.6.fc42.aarch64 100% | 212.4 MiB/s |  11.7 MiB |  00m00s
[ 30/523] netcdf-0:4.9.2-8.fc42.aarch64 100% |  36.8 MiB/s | 791.2 KiB |  00m00s
[ 31/523] mesa-libglapi-0:24.3.4-3.fc41 100% |  30.8 MiB/s |  63.1 KiB |  00m00s
[ 32/523] python3-qt5-0:5.15.11-3.fc42. 100% | 105.0 MiB/s |   1.0 MiB |  00m00s
[ 33/523] hdf5-0:1.14.5-2.fc42.aarch64  100% |  97.3 MiB/s |   1.9 MiB |  00m00s
[ 34/523] python3-qt5-base-0:5.15.11-3. 100% | 128.3 MiB/s |   2.8 MiB |  00m00s
[ 35/523] python3-libs-0:3.13.1-4.fc42. 100% | 157.9 MiB/s |   8.7 MiB |  00m00s
[ 36/523] python-qt5-rpm-macros-0:5.15. 100% | 595.1 KiB/s |   8.9 KiB |  00m00s
[ 37/523] qt5-qtbase-common-0:5.15.16-2 100% |   2.3 MiB/s |  12.0 KiB |  00m00s
[ 38/523] qt5-qtbase-0:5.15.16-2.fc42.a 100% | 157.0 MiB/s |   3.5 MiB |  00m00s
[ 39/523] hdf5-devel-0:1.14.5-2.fc42.aa 100% |  87.0 MiB/s |   1.4 MiB |  00m00s
[ 40/523] mesa-filesystem-0:24.3.4-3.fc 100% |   2.2 MiB/s |  20.7 KiB |  00m00s
[ 41/523] mesa-libgbm-0:24.3.4-3.fc41.a 100% |   9.0 MiB/s |  27.8 KiB |  00m00s
[ 42/523] libicu-0:76.1-4.fc42.aarch64  100% | 118.7 MiB/s |  10.6 MiB |  00m00s
[ 43/523] qt5-qtxmlpatterns-0:5.15.16-2 100% |  90.1 MiB/s | 922.2 KiB |  00m00s
[ 44/523] gcc-gfortran-0:15.0.1-0.6.fc4 100% | 186.2 MiB/s |  13.0 MiB |  00m00s
[ 45/523] mesa-dri-drivers-0:24.3.4-3.f 100% | 159.0 MiB/s |  20.5 MiB |  00m00s
[ 46/523] qt5-qtx11extras-0:5.15.16-2.f 100% | 952.9 KiB/s |  34.3 KiB |  00m00s
[ 47/523] qt5-qtwebsockets-0:5.15.16-2. 100% |   3.6 MiB/s |  85.5 KiB |  00m00s
[ 48/523] qt5-qtwebchannel-0:5.15.16-2. 100% |  33.1 MiB/s | 101.6 KiB |  00m00s
[ 49/523] qt5-qtserialport-0:5.15.16-2. 100% |  21.1 MiB/s |  64.7 KiB |  00m00s
[ 50/523] qt5-qtsvg-0:5.15.16-2.fc42.aa 100% |  44.7 MiB/s | 183.1 KiB |  00m00s
[ 51/523] qt5-qtsensors-0:5.15.16-2.fc4 100% |  43.2 MiB/s | 221.3 KiB |  00m00s
[ 52/523] qt5-qtmultimedia-0:5.15.16-2. 100% |  97.0 MiB/s | 794.3 KiB |  00m00s
[ 53/523] qt5-qtlocation-0:5.15.16-3.fc 100% | 203.8 MiB/s |   3.1 MiB |  00m00s
[ 54/523] qt5-qtconnectivity-0:5.15.16- 100% |  56.0 MiB/s | 459.1 KiB |  00m00s
[ 55/523] qt5-qtbase-devel-0:5.15.16-2. 100% | 159.9 MiB/s |   3.0 MiB |  00m00s
[ 56/523] qt5-qtdeclarative-0:5.15.16-2 100% | 102.1 MiB/s |   4.2 MiB |  00m00s
[ 57/523] libgfortran-0:15.0.1-0.6.fc42 100% |  43.5 MiB/s | 445.1 KiB |  00m00s
[ 58/523] qt5-qtbase-gui-0:5.15.16-2.fc 100% | 157.2 MiB/s |   6.3 MiB |  00m00s
[ 59/523] alsa-lib-0:1.2.13-4.fc42.aarc 100% |  49.7 MiB/s | 458.4 KiB |  00m00s
[ 60/523] python3-pytest-0:8.3.4-2.fc42 100% |  87.8 MiB/s |   2.0 MiB |  00m00s
[ 61/523] gstreamer1-0:1.24.11-2.fc42.a 100% | 112.8 MiB/s |   1.6 MiB |  00m00s
[ 62/523] gstreamer1-plugins-bad-free-l 100% | 143.9 MiB/s | 883.9 KiB |  00m00s
[ 63/523] glib2-0:2.83.2-6.fc42.aarch64 100% | 121.0 MiB/s |   3.0 MiB |  00m00s
[ 64/523] libglvnd-glx-1:1.7.0-7.fc42.a 100% |   9.7 MiB/s | 128.6 KiB |  00m00s
[ 65/523] libglvnd-1:1.7.0-7.fc42.aarch 100% |  13.3 MiB/s | 108.7 KiB |  00m00s
[ 66/523] gstreamer1-plugins-base-0:1.2 100% |  98.0 MiB/s |   2.2 MiB |  00m00s
[ 67/523] libglvnd-devel-1:1.7.0-7.fc42 100% |  21.9 MiB/s | 157.0 KiB |  00m00s
[ 68/523] libglvnd-core-devel-1:1.7.0-7 100% |   2.4 MiB/s |  17.3 KiB |  00m00s
[ 69/523] libglvnd-egl-1:1.7.0-7.fc42.a 100% |   8.9 MiB/s |  36.3 KiB |  00m00s
[ 70/523] libglvnd-gles-1:1.7.0-7.fc42. 100% |   7.4 MiB/s |  30.2 KiB |  00m00s
[ 71/523] mesa-libEGL-0:24.3.4-3.fc41.a 100% |  67.2 MiB/s | 137.6 KiB |  00m00s
[ 72/523] libglvnd-opengl-1:1.7.0-7.fc4 100% |   4.3 MiB/s |  39.5 KiB |  00m00s
[ 73/523] pulseaudio-libs-0:17.0-5.fc42 100% |  58.8 MiB/s | 662.2 KiB |  00m00s
[ 74/523] openal-soft-0:1.24.2-2.fc42.a 100% |  46.2 MiB/s | 614.8 KiB |  00m00s
[ 75/523] bluez-libs-0:5.79-1.fc42.aarc 100% |  12.8 MiB/s |  91.7 KiB |  00m00s
[ 76/523] cups-filesystem-1:2.4.11-10.f 100% |   2.2 MiB/s |  13.7 KiB |  00m00s
[ 77/523] fontconfig-0:2.16.0-2.fc42.aa 100% |  36.4 MiB/s | 261.1 KiB |  00m00s
[ 78/523] cups-libs-1:2.4.11-10.fc42.aa 100% |  28.2 MiB/s | 260.0 KiB |  00m00s
[ 79/523] glx-utils-0:9.0.0-9.fc42.aarc 100% |  17.8 MiB/s |  72.7 KiB |  00m00s
[ 80/523] harfbuzz-devel-0:10.2.0-2.fc4 100% |  67.0 MiB/s | 411.4 KiB |  00m00s
[ 81/523] harfbuzz-0:10.2.0-2.fc42.aarc 100% | 101.0 MiB/s |   1.0 MiB |  00m00s
[ 82/523] harfbuzz-cairo-0:10.2.0-2.fc4 100% |   9.4 MiB/s |  28.8 KiB |  00m00s
[ 83/523] harfbuzz-icu-0:10.2.0-2.fc42. 100% |   5.2 MiB/s |  15.9 KiB |  00m00s
[ 84/523] glib2-devel-0:2.83.2-6.fc42.a 100% | 109.1 MiB/s |   1.4 MiB |  00m00s
[ 85/523] libicu-devel-0:76.1-4.fc42.aa 100% |  91.9 MiB/s | 752.7 KiB |  00m00s
[ 86/523] libICE-0:1.1.2-2.fc42.aarch64 100% |  15.1 MiB/s |  77.2 KiB |  00m00s
[ 87/523] libSM-0:1.2.5-2.fc42.aarch64  100% |  14.5 MiB/s |  44.4 KiB |  00m00s
[ 88/523] libX11-common-0:1.8.11-1.fc42 100% |  23.6 MiB/s | 145.1 KiB |  00m00s
[ 89/523] libX11-0:1.8.11-1.fc42.aarch6 100% |  78.5 MiB/s | 642.7 KiB |  00m00s
[ 90/523] libX11-devel-0:1.8.11-1.fc42. 100% |  98.8 MiB/s | 911.0 KiB |  00m00s
[ 91/523] libX11-xcb-0:1.8.11-1.fc42.aa 100% |   3.8 MiB/s |  11.8 KiB |  00m00s
[ 92/523] libdrm-0:2.4.124-2.fc42.aarch 100% |  37.0 MiB/s | 189.3 KiB |  00m00s
[ 93/523] libinput-0:1.27.1-2.fc42.aarc 100% |  51.2 MiB/s | 209.7 KiB |  00m00s
[ 94/523] libdrm-devel-0:2.4.124-2.fc42 100% |  35.2 MiB/s | 180.1 KiB |  00m00s
[ 95/523] libjpeg-turbo-0:3.1.0-2.fc42. 100% |  61.4 MiB/s | 251.6 KiB |  00m00s
[ 96/523] libxcb-0:1.17.0-5.fc42.aarch6 100% |  57.8 MiB/s | 236.8 KiB |  00m00s
[ 97/523] libxkbcommon-0:1.7.0-6.fc42.a 100% |  34.9 MiB/s | 143.0 KiB |  00m00s
[ 98/523] libxkbcommon-x11-0:1.7.0-6.fc 100% |   5.1 MiB/s |  21.1 KiB |  00m00s
[ 99/523] libxcb-devel-0:1.17.0-5.fc42. 100% |  97.5 MiB/s |   1.1 MiB |  00m00s
[100/523] xcb-util-image-0:0.4.1-7.fc42 100% |   4.5 MiB/s |  18.6 KiB |  00m00s
[101/523] xcb-util-keysyms-0:0.4.1-7.fc 100% |   3.5 MiB/s |  14.2 KiB |  00m00s
[102/523] xcb-util-renderutil-0:0.3.10- 100% |   5.6 MiB/s |  17.2 KiB |  00m00s
[103/523] xcb-util-wm-0:0.4.2-7.fc42.aa 100% |   9.8 MiB/s |  30.1 KiB |  00m00s
[104/523] cmake-filesystem-0:3.31.5-1.f 100% |   5.8 MiB/s |  17.7 KiB |  00m00s
[105/523] perl-File-Basename-0:2.86-515 100% |   5.6 MiB/s |  17.2 KiB |  00m00s
[106/523] perl-English-0:1.11-515.fc42. 100% |   2.7 MiB/s |  13.6 KiB |  00m00s
[107/523] perl-File-Path-0:2.18-512.fc4 100% |  11.5 MiB/s |  35.2 KiB |  00m00s
[108/523] perl-Getopt-Long-1:2.58-3.fc4 100% |  15.6 MiB/s |  63.7 KiB |  00m00s
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[463/523] systemd-devel-0:257.2-17.fc42 100% |  59.3 MiB/s | 546.1 KiB |  00m00s
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--------------------------------------------------------------------------------
[523/523] Total                         100% | 188.5 MiB/s | 494.4 MiB |  00m03s
Running transaction
Importing OpenPGP key 0xE99D6AD1:
 UserID     : "Fedora (41) <fedora-41-primary@fedoraproject.org>"
 Fingerprint: 466CF2D8B60BC3057AA9453ED0622462E99D6AD1
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-41-primary
The key was successfully imported.
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>>> Running post-install scriptlet: avahi-0:0.9~rc2-2.fc42.aarch64
>>> Finished post-install scriptlet: avahi-0:0.9~rc2-2.fc42.aarch64
>>> Scriptlet output:
>>> Created symlink '/etc/systemd/system/sockets.target.wants/avahi-daemon.socke
>>> Created symlink '/etc/systemd/system/dbus-org.freedesktop.Avahi.service' →
>>> Created symlink '/etc/systemd/system/multi-user.target.wants/avahi-daemon.se
>>> 
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[501/525] Installing msgpack-devel-0:3. 100% | 159.0 MiB/s |   5.2 MiB |  00m00s
[502/525] Installing libstdc++-devel-0: 100% | 289.9 MiB/s |  15.7 MiB |  00m00s
[503/525] Installing gcc-c++-0:15.0.1-0 100% | 286.3 MiB/s |  38.7 MiB |  00m00s
[504/525] Installing qt5-rpm-macros-0:5 100% | 119.7 KiB/s |   2.4 KiB |  00m00s
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[506/525] Installing qt6-rpm-macros-0:6 100% | 192.3 KiB/s |   4.0 KiB |  00m00s
[507/525] Installing qt6-qtbase-devel-0 100% | 145.0 MiB/s |  21.2 MiB |  00m00s
[508/525] Installing qt6-qtbase-private 100% | 148.0 MiB/s |   5.9 MiB |  00m00s
[509/525] Installing qt6-qtdeclarative- 100% | 166.1 MiB/s |  22.4 MiB |  00m00s
[510/525] Installing pyside6-tools-0:6. 100% |  10.3 MiB/s | 200.4 KiB |  00m00s
[511/525] Installing python3-pyside6-de 100% | 143.6 MiB/s |   2.3 MiB |  00m00s
[512/525] Installing python3-qt5-devel- 100% | 109.4 MiB/s |   2.8 MiB |  00m00s
[513/525] Installing mmtf-cpp-devel-0:1 100% |  57.1 MiB/s | 117.0 KiB |  00m00s
[514/525] Installing freeglut-devel-0:3 100% | 165.5 MiB/s |   2.3 MiB |  00m00s
[515/525] Installing glew-devel-0:2.2.0 100% | 362.0 MiB/s |   1.8 MiB |  00m00s
[516/525] Installing netcdf-devel-0:4.9 100% |  18.6 MiB/s | 380.0 KiB |  00m00s
[517/525] Installing python3-pillow-0:1 100% | 209.9 MiB/s |   4.2 MiB |  00m00s
[518/525] Installing python3-pytest-0:8 100% | 269.3 MiB/s |  21.0 MiB |  00m00s
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[520/525] Installing gcc-plugin-annobin 100% |   4.1 MiB/s |  70.8 KiB |  00m00s
[521/525] Installing annobin-plugin-gcc 100% |  46.8 MiB/s |   1.0 MiB |  00m00s
[522/525] Installing desktop-file-utils 100% |  15.0 MiB/s | 321.6 KiB |  00m00s
[523/525] Installing libappstream-glib- 100% |  62.1 MiB/s |   1.5 MiB |  00m00s
[524/525] Installing catch2-devel-0:2.1 100% | 187.7 MiB/s | 960.8 KiB |  00m00s
[525/525] Installing glm-devel-0:1.0.1- 100% |   2.8 MiB/s |   2.2 MiB |  00m01s
Warning: skipped OpenPGP checks for 511 packages from repositories: copr_base, http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch
Complete!
Finish: build setup for pymol-3.1.0-3.fc42.src.rpm
Start: rpmbuild pymol-3.1.0-3.fc42.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1738627200
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.bnTA5B
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ test -d /builddir/build/BUILD/pymol-3.1.0-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/pymol-3.1.0-build
+ /usr/bin/rm -rf /builddir/build/BUILD/pymol-3.1.0-build
+ /usr/bin/mkdir -p /builddir/build/BUILD/pymol-3.1.0-build
+ /usr/bin/mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/SPECPARTS
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.ogQFww
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ rm -rf pymol-open-source-3.1.0
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/pymol-open-source-3.1.0.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd pymol-open-source-3.1.0
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/pymol-wmclass-main.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f
+ /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/pymol-wmclass-pmgapp.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f
+ /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/pymol-mmtf.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f
+ ln -sr modules/web modules/pymol_web
+ sed -e 's|1.26.4,<2|1.26.4,<3|g' -i ./pyproject.toml
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.z0c8bV
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd pymol-open-source-3.1.0
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(packaging)'
+ echo 'python3dist(pip) >= 19'
+ '[' -f pyproject.toml ']'
+ echo '(python3dist(tomli) if python3-devel < 3.11)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ echo -n
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ VALAFLAGS=-g
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ CC=gcc
+ CXX=g++
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ RPM_TOXENV=py313
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir --output /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-buildrequires -p
Handling numpy>=1.26.4,<3 from build-system.requires
Requirement not satisfied: numpy>=1.26.4,<3
Handling setuptools>=69.2.0 from build-system.requires
Requirement not satisfied: setuptools>=69.2.0
Exiting dependency generation pass: build backend
+ cat /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-buildrequires
+ rm -rfv '*.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Wrote: /builddir/build/SRPMS/pymol-3.1.0-3.fc42.buildreqs.nosrc.rpm
INFO: Going to install missing dynamic buildrequires
Updating and loading repositories:
 updates                                100% | 424.7 KiB/s |  10.2 KiB |  00m00s
 fedora                                 100% |  60.5 KiB/s |  17.6 KiB |  00m00s
 Additional repo http_kojipkgs_fedorapr 100% | 239.4 KiB/s |   3.8 KiB |  00m00s
 Copr repository                        100% | 102.5 KiB/s |   1.5 KiB |  00m00s
Repositories loaded.
Package "catch2-devel-2.13.10-6.fc42.aarch64" is already installed.
Package "desktop-file-utils-0.27-3.fc42.aarch64" is already installed.
Package "freeglut-devel-3.6.0-4.fc42.aarch64" is already installed.
Package "freetype-devel-2.13.3-2.fc42.aarch64" is already installed.
Package "gcc-15.0.1-0.6.fc42.aarch64" is already installed.
Package "gcc-c++-15.0.1-0.6.fc42.aarch64" is already installed.
Package "glew-devel-2.2.0-10.fc42.aarch64" is already installed.
Package "glm-devel-1.0.1-3.fc42.noarch" is already installed.
Package "mesa-libGL-devel-24.3.4-3.fc41.aarch64" is already installed.
Package "libappstream-glib-0.8.3-3.fc42.aarch64" is already installed.
Package "libpng-devel-2:1.6.44-2.fc42.aarch64" is already installed.
Package "libxml2-devel-2.12.9-2.fc42.aarch64" is already installed.
Package "mmtf-cpp-devel-1.1.0-7.fc42.aarch64" is already installed.
Package "msgpack-devel-3.1.0-18.fc42.aarch64" is already installed.
Package "netcdf-devel-4.9.2-8.fc42.aarch64" is already installed.
Package "pyproject-rpm-macros-1.16.4-2.fc42.noarch" is already installed.
Package "python3-devel-3.13.1-4.fc42.aarch64" is already installed.
Package "python3-pillow-11.1.0-2.fc42.aarch64" is already installed.
Package "python3-pyside6-devel-6.8.1.1-3.fc42.aarch64" is already installed.
Package "python3-pytest-8.3.4-2.fc42.noarch" is already installed.
Package "python3-qt5-devel-5.15.11-3.fc42.aarch64" is already installed.
Package "python3-packaging-24.2-3.fc42.noarch" is already installed.

Package                    Arch    Version        Repository                                                         Size
Installing:
 python3-numpy             aarch64 1:2.2.2-2.fc42 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  33.8 MiB
 python3-pip               noarch  24.3.1-2.fc42  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  11.3 MiB
 python3-setuptools        noarch  74.1.3-5.fc42  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   8.4 MiB
Installing dependencies:
 flexiblas                 aarch64 3.4.4-7.fc42   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  48.5 KiB
 flexiblas-netlib          aarch64 3.4.4-7.fc42   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   9.1 MiB
 flexiblas-openblas-openmp aarch64 3.4.4-7.fc42   http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  67.3 KiB
 openblas                  aarch64 0.3.29-1.fc42  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 111.7 KiB
 openblas-openmp           aarch64 0.3.29-1.fc42  http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch  20.4 MiB
 python3-numpy-f2py        aarch64 1:2.2.2-2.fc42 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch   2.0 MiB

Transaction Summary:
 Installing:         9 packages

Total size of inbound packages is 18 MiB. Need to download 18 MiB.
After this operation, 85 MiB extra will be used (install 85 MiB, remove 0 B).
[1/9] python3-pip-0:24.3.1-2.fc42.noarc 100% |  62.9 MiB/s |   2.5 MiB |  00m00s
[2/9] flexiblas-netlib-0:3.4.4-7.fc42.a 100% | 126.5 MiB/s |   2.8 MiB |  00m00s
[3/9] python3-numpy-1:2.2.2-2.fc42.aarc 100% |  87.9 MiB/s |   6.4 MiB |  00m00s
[4/9] python3-numpy-f2py-1:2.2.2-2.fc42 100% |  39.9 MiB/s | 449.3 KiB |  00m00s
[5/9] flexiblas-openblas-openmp-0:3.4.4 100% |   4.0 MiB/s |  16.5 KiB |  00m00s
[6/9] flexiblas-0:3.4.4-7.fc42.aarch64  100% |   4.1 MiB/s |  25.5 KiB |  00m00s
[7/9] python3-setuptools-0:74.1.3-5.fc4 100% |  21.9 MiB/s |   1.8 MiB |  00m00s
[8/9] openblas-0:0.3.29-1.fc42.aarch64  100% |  10.3 MiB/s |  42.3 KiB |  00m00s
[9/9] openblas-openmp-0:0.3.29-1.fc42.a 100% | 160.7 MiB/s |   3.9 MiB |  00m00s
--------------------------------------------------------------------------------
[9/9] Total                             100% | 170.6 MiB/s |  17.9 MiB |  00m00s
Running transaction
[ 1/11] Verify package files            100% | 138.0   B/s |   9.0   B |  00m00s
[ 2/11] Prepare transaction             100% |  85.0   B/s |   9.0   B |  00m00s
[ 3/11] Installing openblas-0:0.3.29-1. 100% | 110.8 MiB/s | 113.5 KiB |  00m00s
[ 4/11] Installing openblas-openmp-0:0. 100% | 407.8 MiB/s |  20.4 MiB |  00m00s
[ 5/11] Installing flexiblas-0:3.4.4-7. 100% |  48.5 MiB/s |  49.7 KiB |  00m00s
[ 6/11] Installing flexiblas-openblas-o 100% |  66.6 MiB/s |  68.2 KiB |  00m00s
[ 7/11] Installing flexiblas-netlib-0:3 100% | 198.7 MiB/s |   9.1 MiB |  00m00s
[ 8/11] Installing python3-numpy-f2py-1 100% |  60.9 MiB/s |   2.1 MiB |  00m00s
[ 9/11] Installing python3-numpy-1:2.2. 100% | 238.6 MiB/s |  34.1 MiB |  00m00s
[10/11] Installing python3-setuptools-0 100% | 161.5 MiB/s |   8.6 MiB |  00m00s
[11/11] Installing python3-pip-0:24.3.1 100% |  75.4 MiB/s |  11.6 MiB |  00m00s
Warning: skipped OpenPGP checks for 9 packages from repository: http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch
Complete!
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1738627200
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.v2OKdw
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd pymol-open-source-3.1.0
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(packaging)'
+ echo 'python3dist(pip) >= 19'
+ '[' -f pyproject.toml ']'
+ echo '(python3dist(tomli) if python3-devel < 3.11)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ echo -n
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ VALAFLAGS=-g
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ CC=gcc
+ CXX=g++
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ RPM_TOXENV=py313
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir --output /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-buildrequires -p
Handling numpy>=1.26.4,<3 from build-system.requires
Requirement satisfied: numpy>=1.26.4,<3
   (installed: numpy 2.2.2)
Handling setuptools>=69.2.0 from build-system.requires
Requirement satisfied: setuptools>=69.2.0
   (installed: setuptools 74.1.3)
Handling numpy>=1.26.4,<3 from pyproject.toml generated metadata: [dependencies] (pymol)
Requirement satisfied: numpy>=1.26.4,<3
   (installed: numpy 2.2.2)
Handling pillow==10.3.0 from pyproject.toml generated metadata: [optional-dependencies] test (pymol)
Ignoring alien requirement: pillow==10.3.0
Handling pytest==8.2.2 from pyproject.toml generated metadata: [optional-dependencies] test (pymol)
Ignoring alien requirement: pytest==8.2.2
+ cat /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-buildrequires
+ rm -rfv '*.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Wrote: /builddir/build/SRPMS/pymol-3.1.0-3.fc42.buildreqs.nosrc.rpm
INFO: Going to install missing dynamic buildrequires
Updating and loading repositories:
 fedora                                 100% | 172.7 KiB/s |  17.6 KiB |  00m00s
 Copr repository                        100% |  90.4 KiB/s |   1.5 KiB |  00m00s
 updates                                100% | 143.6 KiB/s |  10.2 KiB |  00m00s
 Additional repo http_kojipkgs_fedorapr 100% | 212.8 KiB/s |   3.8 KiB |  00m00s
Repositories loaded.
Package "catch2-devel-2.13.10-6.fc42.aarch64" is already installed.
Package "desktop-file-utils-0.27-3.fc42.aarch64" is already installed.
Package "freeglut-devel-3.6.0-4.fc42.aarch64" is already installed.
Package "freetype-devel-2.13.3-2.fc42.aarch64" is already installed.
Package "gcc-15.0.1-0.6.fc42.aarch64" is already installed.
Package "gcc-c++-15.0.1-0.6.fc42.aarch64" is already installed.
Package "glew-devel-2.2.0-10.fc42.aarch64" is already installed.
Package "glm-devel-1.0.1-3.fc42.noarch" is already installed.
Package "mesa-libGL-devel-24.3.4-3.fc41.aarch64" is already installed.
Package "libappstream-glib-0.8.3-3.fc42.aarch64" is already installed.
Package "libpng-devel-2:1.6.44-2.fc42.aarch64" is already installed.Nothing to do.

Package "libxml2-devel-2.12.9-2.fc42.aarch64" is already installed.
Package "mmtf-cpp-devel-1.1.0-7.fc42.aarch64" is already installed.
Package "msgpack-devel-3.1.0-18.fc42.aarch64" is already installed.
Package "netcdf-devel-4.9.2-8.fc42.aarch64" is already installed.
Package "pyproject-rpm-macros-1.16.4-2.fc42.noarch" is already installed.
Package "python3-devel-3.13.1-4.fc42.aarch64" is already installed.
Package "python3-pillow-11.1.0-2.fc42.aarch64" is already installed.
Package "python3-pyside6-devel-6.8.1.1-3.fc42.aarch64" is already installed.
Package "python3-pytest-8.3.4-2.fc42.noarch" is already installed.
Package "python3-qt5-devel-5.15.11-3.fc42.aarch64" is already installed.
Package "python3-packaging-24.2-3.fc42.noarch" is already installed.
Package "python3-pip-24.3.1-2.fc42.noarch" is already installed.
Package "python3-setuptools-74.1.3-5.fc42.noarch" is already installed.

Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1738627200
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.Jz4rVN
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd pymol-open-source-3.1.0
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(packaging)'
+ echo 'python3dist(pip) >= 19'
+ '[' -f pyproject.toml ']'
+ echo '(python3dist(tomli) if python3-devel < 3.11)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ echo -n
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ VALAFLAGS=-g
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ CC=gcc
+ CXX=g++
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ RPM_TOXENV=py313
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir --output /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-buildrequires -p
Handling numpy>=1.26.4,<3 from build-system.requires
Requirement satisfied: numpy>=1.26.4,<3
   (installed: numpy 2.2.2)
Handling setuptools>=69.2.0 from build-system.requires
Requirement satisfied: setuptools>=69.2.0
   (installed: setuptools 74.1.3)
Handling numpy>=1.26.4,<3 from pyproject.toml generated metadata: [dependencies] (pymol)
Requirement satisfied: numpy>=1.26.4,<3
   (installed: numpy 2.2.2)
Handling pillow==10.3.0 from pyproject.toml generated metadata: [optional-dependencies] test (pymol)
Ignoring alien requirement: pillow==10.3.0
Handling pytest==8.2.2 from pyproject.toml generated metadata: [optional-dependencies] test (pymol)
Ignoring alien requirement: pytest==8.2.2
+ cat /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-buildrequires
+ rm -rfv '*.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.721MNb
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd pymol-open-source-3.1.0
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ VALAFLAGS=-g
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ CC=gcc
+ CXX=g++
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_wheel.py -C=use-openmp=yes -C=testing=true -C=use-msgpackc=c++11 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir
Processing /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0
  Preparing metadata (pyproject.toml): started
  Running command Preparing metadata (pyproject.toml)
  running build_ext
  cmake /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 -DTARGET_NAME=_cmd -DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/lib.linux-aarch64-cpython-313/pymol -DCMAKE_BUILD_TYPE=Release -DALL_INC_DIR=include;contrib/uiuc/plugins/include;ov/src;layer0;layer1;layer2;layer3;layer4;layer5;build/generated;contrib/uiuc/plugins/molfile_plugin/src;contrib/mmtf-c;layerCTest;/usr/lib64/python3.13/site-packages/numpy/_core/include;/usr/include;/usr/include/freetype2;/usr/include/libxml2;/usr/include/python3.13;/usr/include/python3.13; -DALL_SRC=build/generated/ShaderText.cpp;contrib/mmtf-c/mmtf_parser.cpp;contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c;contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c;contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c;contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c;contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/carplugin.c;contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/corplugin.c;contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c;contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c;contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c;contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c;contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/hash.c;contrib/uiuc/plugins/molfile_plugin/src/inthash.c;contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c;contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c;contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c;contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c;contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c;contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c;contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c;contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c;layer0/Bezier.cpp;layer0/Block.cpp;layer0/CarveHelper.cpp;layer0/ContourSurf.cpp;layer0/Crystal.cpp;layer0/Err.cpp;layer0/Feedback.cpp;layer0/Field.cpp;layer0/File.cpp;layer0/GFXManager.cpp;layer0/GenericBuffer.cpp;layer0/GraphicsUtil.cpp;layer0/Isosurf.cpp;layer0/Map.cpp;layer0/Match.cpp;layer0/Matrix.cpp;layer0/MemoryDebug.cpp;layer0/MemoryUsage.cpp;layer0/MyPNG.cpp;layer0/Parse.cpp;layer0/Pixmap.cpp;layer0/PostProcess.cpp;layer0/PrintUtils.cpp;layer0/ShaderMgr.cpp;layer0/ShaderPreprocessor.cpp;layer0/ShaderPrg.cpp;layer0/Sphere.cpp;layer0/TTT.cpp;layer0/Tetsurf.cpp;layer0/Texture.cpp;layer0/Tracker.cpp;layer0/Triangle.cpp;layer0/Util.cpp;layer0/Util2.cpp;layer0/Vector.cpp;layer0/Word.cpp;layer0/ccealignmodule.cpp;layer0/marching_cubes.cpp;layer0/os_gl.cpp;layer1/Basis.cpp;layer1/ButMode.cpp;layer1/CGO.cpp;layer1/CGOGL.cpp;layer1/CGORenderer.cpp;layer1/COLLADA.cpp;layer1/Camera.cpp;layer1/Character.cpp;layer1/Color.cpp;layer1/Control.cpp;layer1/Extrude.cpp;layer1/Font.cpp;layer1/FontGLUT.cpp;layer1/FontGLUT8x13.cpp;layer1/FontGLUT9x15.cpp;layer1/FontGLUTHel10.cpp;layer1/FontGLUTHel12.cpp;layer1/FontGLUTHel18.cpp;layer1/FontType.cpp;layer1/ImageUtils.cpp;layer1/Movie.cpp;layer1/Ortho.cpp;layer1/P.cpp;layer1/PConv.cpp;layer1/Pick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-DALL_DEF=_PYMOL_LIBPNG;_PYMOL_FREETYPE;PYMOL_OPENMP;_PYMOL_VMD_PLUGINS;_HAVE_LIBXML;MMTF_MSGPACK_USE_CPP11;MSGPACK_NO_BOOST;_PYMOL_NO_MAIN;_PYMOL_CTEST;_PYMOL_NUMPY; -DALL_LIB_DIR=/usr/lib64;/usr/lib; -DALL_LIB=png;freetype;xml2;GL;GLEW;netcdf; -DALL_COMP_ARGS=-Werror=return-type;-Wunused-variable;-Wno-switch;-Wno-narrowing;-Wno-char-subscripts;-O3;-fopenmp; -DALL_EXT_LINK=-fopenmp -DSHARED_SUFFIX=.cpython-313-aarch64-linux-gnu.so
  -- The C compiler identification is GNU 15.0.1
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  -- Check for working CXX compiler: /usr/bin/g++ - skipped
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  -- Configuring done (0.7s)
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  -- Build files have been written to: /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_cmd
  cmake --build . --config Release -j4
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  cd /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_cmd && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_cmd /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_cmd /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_cmd/CMakeFiles/_cmd.dir/DependInfo.cmake "--color="
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  [  1%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function ‘PlugIOManagerInitAll’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        | ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |        ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function ‘PlugIOManagerFreeAll’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        | ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |        ^~~~~~
  [  1%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘DEN_read_volumetric_data’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:970:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    970 |     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:971:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    971 |     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘POT_read_volumetric_data’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1113:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1113 |     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1114:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1114 |     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘abinit_header’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1511:3: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1511 |   fread(skip, 1, 8, fp);
        |   ^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘GEO_read_next_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:619:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    619 |     fscanf(data->file, "%*s %f %f %f", &x, &y, &z);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:70:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  [  2%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
   1097 | static void whereami(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
   1077 | static void thisline(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1028:12: warning: ‘fpexpftoc’ defined but not used [-Wunused-function]
   1028 | static int fpexpftoc(char *ftocstr) {
        |            ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1006:12: warning: ‘have_keyline’ defined but not used [-Wunused-function]
   1006 | static int have_keyline(FILE *file, const char *keystring1,
        |            ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:962:12: warning: ‘goto_keyline’ defined but not used [-Wunused-function]
    962 | static int goto_keyline(FILE *file, ...) {
        |            ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:901:14: warning: ‘strtoupper’ defined but not used [-Wunused-function]
    901 | static char *strtoupper(char *s) {
        |              ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:895:12: warning: ‘iswhiteline’ defined but not used [-Wunused-function]
    895 | static int iswhiteline(char *s) {
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:846:13: warning: ‘eatwhitelines’ defined but not used [-Wunused-function]
    846 | static void eatwhitelines(FILE *file) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:835:13: warning: ‘eatline’ defined but not used [-Wunused-function]
    835 | static void eatline(FILE * fd, int n)
        |             ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:711:12: warning: ‘symmetry_expand’ defined but not used [-Wunused-function]
    711 | static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms,
        |            ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:585:13: warning: ‘print_matrix4’ defined but not used [-Wunused-function]
    585 | static void print_matrix4(const float mat[16]) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:540:13: warning: ‘angular_momentum_expon’ defined but not used [-Wunused-function]
    540 | static void angular_momentum_expon(int  *ang_mom_expon,
        |             ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:507:13: warning: ‘del_wavefunction’ defined but not used [-Wunused-function]
    507 | static void del_wavefunction(qm_timestep_t *ts) {
        |             ^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:490:13: warning: ‘replace_wavefunction’ defined but not used [-Wunused-function]
    490 | static void replace_wavefunction(qm_timestep_t *ts, int n) {
        |             ^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:471:27: warning: ‘add_wavefunction’ defined but not used [-Wunused-function]
    471 | static qm_wavefunction_t* add_wavefunction(qm_timestep_t *ts) {
        |                           ^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:437:18: warning: ‘init_qmdata’ defined but not used [-Wunused-function]
    437 | static qmdata_t* init_qmdata() {
        |                  ^~~~~~~~~~~
  [  2%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:243:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    243 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_bonds_aux(void*, int*, int**, int**, float**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘void* open_bgf_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  [  3%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c: In function ‘open_binpos_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:64:3: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     64 |   fread(magicchar,sizeof(char),4,fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:72:3: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     72 |   fread(&igarb,sizeof(int),1,fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [  3%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘read_bgf_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:120:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 224 [-Wstringop-truncation]
    120 |     strncpy(numstr, record + 31, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:125:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 214 [-Wstringop-truncation]
    125 |     strncpy(numstr+10, record + 41, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:130:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 204 [-Wstringop-truncation]
    130 |     strncpy(numstr+20, record + 51, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:120:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 224 [-Wstringop-truncation]
    120 |     strncpy(numstr, record + 31, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:125:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 214 [-Wstringop-truncation]
    125 |     strncpy(numstr+10, record + 41, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:130:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 204 [-Wstringop-truncation]
    130 |     strncpy(numstr+20, record + 51, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘read_bgf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:144:10: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 242 [-Wstringop-truncation]
    144 |   strncpy(name, record + 13, 5);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:149:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 236 [-Wstringop-truncation]
    149 |   strncpy(resname, record + 19, 4);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:167:10: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 194 [-Wstringop-truncation]
    167 |   strncpy(type, record+61, 5);
        |          ^
  [  3%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp
  [  4%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:326:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    326 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:339:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    339 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:344:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    344 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:349:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    349 |   fgets(line, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:363:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    363 |       fgets(line, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:373:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    373 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:266:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    266 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:268:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    268 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:272:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    272 |   fgets(line, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:295:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    295 |       fgets(line, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:305:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    305 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘open_car_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:169:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    169 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:179:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    179 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:182:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    182 |     fgets(line, LINESIZE, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:210:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    210 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:213:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    213 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:224:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    224 |     fgets(line, LINESIZE, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:226:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    226 |     fgets(line, LINESIZE, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:230:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    230 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:234:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    234 |       fgets(line, LINESIZE, fd);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:245:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    245 |     fgets(line, LINESIZE, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                             ^~
  In function ‘read_car_structure_line’,
      inlined from ‘read_car_structure’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:277:12:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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:970,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:85:
  In function ‘sprintf’,
      inlined from ‘read_car_structure_line’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:5,
      inlined from ‘read_car_structure’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:277:12:
  /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 ());
        |                                   ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function ‘int read_brix_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function ‘void* open_brix_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [  4%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp.o
  [  4%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘int read_ccp4_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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] ) {
        |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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] ) {
        |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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] ) {
        |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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] ) {
        |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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] ) {
        |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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] ) {
        |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘void* open_ccp4_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  [  5%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [  5%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp
  [  6%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘bool MMTF_unpack_from_file(const char*, MMTF_container*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:1079:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1079 |     fread(buffer, fileLen, 1, file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function ‘read_dcdstep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:60:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                   ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function ‘void* open_cube_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘open_ccp4_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:279:3: warning: ‘dataOffset’ may be used uninitialized [-Wmaybe-uninitialized]
    279 |   if (dataOffset != (CCP4HDSIZE + symBytes)) {
        |   ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:89:8: note: ‘dataOffset’ was declared here
     89 |   long dataOffset, filesize;
        |        ^~~~~~~~~~
  [  6%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function ‘open_cube_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:179:10: warning: ‘__strncat_chk’ output may be truncated copying 240 bytes from a string of length 1023 [-Wstringop-truncation]
    179 |   strncat(voltmpl.dataname, readbuf, 240);      // 240 is max space left after
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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))
        |   ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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))
        |     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:669:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    669 |   fgets(fbuffer, 1024, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:554:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    554 |   fgets(fbuffer, 1024, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [  6%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:362:5: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 4095 [-Wstringop-truncation]
    362 |     strncpy(atom->name, buf, sizeof(atom->name));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:267:5: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 4095 [-Wstringop-truncation]
    267 |     strncpy(atom->name, buf, sizeof(atom->name));
        |     ^
  [  7%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function ‘int read_dsn6_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:233:14: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    233 |         fread(brick, sizeof(char), 512, fd);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function ‘void* open_dsn6_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:91:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     91 |   fread(fileHeader, sizeof(short), 19, fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:63:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [  7%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp
  [  8%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp
  In function ‘MMTF_parser_integer_decode_from_16(short const*, unsigned int, int, unsigned int*)’,
      inlined from ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:702:59,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:578:50: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    578 |     float* output = (float*)MALLOC_ARRAY(float, (*output_length));
        |                                                  ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:699:18: note: ‘step1_length’ was declared here
    699 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:740:72: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    740 |         int32_t* output = MMTF_parser_recursive_indexing_decode_from_16(step1, step1_length, output_length);
        |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:737:18: note: ‘step1_length’ was declared here
    737 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:713:71: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    713 |         int32_t* step2 = MMTF_parser_recursive_indexing_decode_from_16(step1, step1_length, &step2_length);
        |                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:709:18: note: ‘step1_length’ was declared here
    709 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:685:71: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    685 |         int32_t* step2 = MMTF_parser_recursive_indexing_decode_from_16(step1, step1_length, &step2_length);
        |                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:681:18: note: ‘step1_length’ was declared here
    681 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:671:55: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    671 |         int32_t* step2 = MMTF_parser_run_length_decode(step1, step1_length, &step2_length);
        |                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:667:18: note: ‘step1_length’ was declared here
    667 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:657:55: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    657 |         int32_t* step2 = MMTF_parser_run_length_decode(step1, step1_length, &step2_length);
        |                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:653:18: note: ‘step1_length’ was declared here
    653 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:633:56: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    633 |         int32_t* output = MMTF_parser_run_length_decode(step1, step1_length, output_length);
        |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:630:18: note: ‘step1_length’ was declared here
    630 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:873:5: warning: ‘typecheck’ may be used uninitialized [-Wmaybe-uninitialized]
    873 |     if (typecode != typecheck) {
        |     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:868:9: note: ‘typecheck’ was declared here
    868 |     int typecheck;
        |         ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function ‘int read_edm_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function ‘void eatline(FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~^~~~~~~~~~~~~~~~~~~
  [  8%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp
  [  8%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘have_gamess’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1106:8: warning: variable ‘word’ set but not used [-Wunused-but-set-variable]
   1106 |   char word[3][BUFSIZ];
        |        ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_basis_stats’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2264:8: warning: variable ‘word’ set but not used [-Wunused-but-set-variable]
   2264 |   char word[7][BUFSIZ];
        |        ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_wavefunction’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:3573:8: warning: variable ‘word’ set but not used [-Wunused-but-set-variable]
   3573 |   char word[6][BUFSIZ];
        |        ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function ‘void* open_fs4_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:48:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |            ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:47:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘eatline’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    840 |     fgets(readbuf, 1024, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1002:13: warning: ‘print_input_data’ defined but not used [-Wunused-function]
   1002 | static void print_input_data(qmdata_t *data) {
        |             ^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:162:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: ‘get_pte_vdw_radius’ defined but not used [-Wunused-function]
    109 | static float get_pte_vdw_radius(const int idx)
        |              ^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: ‘get_pte_mass’ defined but not used [-Wunused-function]
    102 | static float get_pte_mass(const int idx)
        |              ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: ‘get_pte_label’ defined but not used [-Wunused-function]
     95 | static const char *get_pte_label(const int idx)
        |                    ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
   1097 | static void whereami(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
   1077 | static void thisline(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1028:12: warning: ‘fpexpftoc’ defined but not used [-Wunused-function]
   1028 | static int fpexpftoc(char *ftocstr) {
        |            ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:901:14: warning: ‘strtoupper’ defined but not used [-Wunused-function]
    901 | static char *strtoupper(char *s) {
        |              ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:895:12: warning: ‘iswhiteline’ defined but not used [-Wunused-function]
    895 | static int iswhiteline(char *s) {
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:585:13: warning: ‘print_matrix4’ defined but not used [-Wunused-function]
    585 | static void print_matrix4(const float mat[16]) {
        |             ^~~~~~~~~~~~~
  [  9%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:71:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:70:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘read_gamess_rundata’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:615:3: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
    615 |   strncpy(sys_data->basis_string, data->basis_string,
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:620:3: warning: ‘strncpy’ output may be truncated copying 4096 bytes from a string of length 8191 [-Wstringop-truncation]
    620 |   strncpy(sys_data->runtitle, data->runtitle, sizeof(sys_data->runtitle));
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:621:3: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
    621 |   strncpy(sys_data->geometry, data->geometry, sizeof(sys_data->geometry));
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:622:3: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
    622 |   strncpy(sys_data->version_string, data->version_string,
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_coordinates’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1618:5: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 8191 [-Wstringop-truncation]
   1618 |     strncpy(atm->type, atname, sizeof(atm->type));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1618:5: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 8191 [-Wstringop-truncation]
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function ‘void line3(FILE*, GRASSP*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:284:3: note: in expansion of macro ‘TRASH’
    284 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:291:3: note: in expansion of macro ‘TRASH’
    291 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:305:3: note: in expansion of macro ‘TRASH’
    305 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:307:3: note: in expansion of macro ‘TRASH’
    307 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:311:3: note: in expansion of macro ‘TRASH’
    311 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:313:3: note: in expansion of macro ‘TRASH’
    313 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:318:3: note: in expansion of macro ‘TRASH’
    318 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:320:3: note: in expansion of macro ‘TRASH’
    320 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:328:3: note: in expansion of macro ‘TRASH’
    328 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:330:3: note: in expansion of macro ‘TRASH’
    330 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:354:3: note: in expansion of macro ‘TRASH’
    354 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:356:3: note: in expansion of macro ‘TRASH’
    356 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:357:3: note: in expansion of macro ‘TRASH’
    357 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:359:3: note: in expansion of macro ‘TRASH’
    359 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:360:3: note: in expansion of macro ‘TRASH’
    360 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:362:3: note: in expansion of macro ‘TRASH’
    362 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:371:5: note: in expansion of macro ‘TRASH’
    371 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:373:5: note: in expansion of macro ‘TRASH’
    373 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:374:5: note: in expansion of macro ‘TRASH’
    374 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:394:5: note: in expansion of macro ‘TRASH’
    394 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:396:5: note: in expansion of macro ‘TRASH’
    396 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:397:5: note: in expansion of macro ‘TRASH’
    397 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [  9%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_basis_options’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1422:5: warning: ‘__strncat_chk’ output may be truncated copying 1 byte from a string of length 9 [-Wstringop-truncation]
   1422 |     strncat(data->basis_string, &data->gbasis[3], 1);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1411:5: warning: ‘__strncat_chk’ output may be truncated copying 1 byte from a string of length 9 [-Wstringop-truncation]
   1411 |     strncat(data->basis_string, &data->gbasis[2], 1);
        |     ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp:51:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [  9%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp: In function ‘void* open_grid_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:60:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |            ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:59:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [ 10%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp
  [ 10%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/hash.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/hash.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/hash.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/hash.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/hash.c
  [ 11%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/inthash.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/inthash.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/inthash.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/inthash.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/inthash.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_input_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1682:5: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 8191 [-Wstringop-truncation]
   1682 |     strncpy(atm->type, atname, sizeof(atm->type));
        |     ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function ‘int mdio_readline(md_file*, char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:48:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [ 11%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:89:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:79:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                   ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_contrl’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1981:3: warning: ‘strncpy’ specified bound 8192 equals destination size [-Wstringop-truncation]
   1981 |   strncpy(data->geometry, trimright(temp+7), sizeof(data->geometry));
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_proc_mem.isra.0’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1279:5: warning: ‘strncpy’ output may be truncated copying 256 bytes from a string of length 8191 [-Wstringop-truncation]
   1279 |     strncpy(data->memory,&word[2][0],sizeof(data->memory));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1272:5: warning: ‘strncpy’ specified bound 256 equals destination size [-Wstringop-truncation]
   1272 |     strncpy(data->memory,trimright(temp),sizeof(data->memory));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_contrl_firefly’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1818:3: warning: ‘strncpy’ specified bound 8192 equals destination size [-Wstringop-truncation]
   1818 |   strncpy(data->geometry, trimright(temp+7), sizeof(data->geometry));
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function ‘g96_header(md_file*, char*, int, float*) [clone .constprop.0]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:650:39: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 500 [-Wstringop-truncation]
    650 |         if (title && titlelen) strncpy(title, buf, titlelen);
        |                                       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function ‘gro_header(md_file*, char*, int, float*, int*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1018:33: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 500 [-Wstringop-truncation]
   1018 |   if (title && titlelen) strncpy(title, buf, titlelen);
        |                                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp: In function ‘open_gro_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:103:12: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 80 [-Wstringop-truncation]
    103 |     strncpy(gmx->meta->title, mdh.title, 80);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘get_traj_frame.isra.0’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:819:5: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 10 [-Wstringop-truncation]
    819 |     strncpy((*atoms)[i].type, (*atoms)[indexmap[i]].type, 10);
        |     ^
  [ 11%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp
  [ 12%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp
  [ 12%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp
  [ 13%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘int read_mdf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘void* open_mdf_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2_bonds_aux(void*, int*, int**, int**, float**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘void* open_mol2_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~
  [ 13%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c
  [ 13%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In function ‘int {anonymous}::write_structure(void*, int, const molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1904:9: warning: unused variable ‘last_ctnumber’ [-Wunused-variable]
   1904 |     int last_ctnumber = -1;
        |         ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘read_molden_rundata’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:596:25: warning: variable ‘hessian_data’ set but not used [-Wunused-but-set-variable]
    596 |   molfile_qm_hessian_t *hessian_data;
        |                         ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘count_orbitals’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1165:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1165 |   fscanf(data->file, " Ene= %f\n", &orbenergy);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1166:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1166 |   fscanf(data->file, " Spin= %s\n", spin);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1167:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1167 |   fscanf(data->file, " Occup= %f\n", &occu);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘eatline’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    840 |     fgets(readbuf, 1024, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘open_molden_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:224:11: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    224 |           fscanf(data->file, "%d", &natm);
        |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
   1097 | static void whereami(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
   1077 | static void thisline(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1006:12: warning: ‘have_keyline’ defined but not used [-Wunused-function]
   1006 | static int have_keyline(FILE *file, const char *keystring1,
        |            ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:711:12: warning: ‘symmetry_expand’ defined but not used [-Wunused-function]
    711 | static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms,
        |            ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:585:13: warning: ‘print_matrix4’ defined but not used [-Wunused-function]
    585 | static void print_matrix4(const float mat[16]) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:507:13: warning: ‘del_wavefunction’ defined but not used [-Wunused-function]
    507 | static void del_wavefunction(qm_timestep_t *ts) {
        |             ^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:490:13: warning: ‘replace_wavefunction’ defined but not used [-Wunused-function]
    490 | static void replace_wavefunction(qm_timestep_t *ts, int n) {
        |             ^~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:48:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: ‘get_pte_vdw_radius’ defined but not used [-Wunused-function]
    109 | static float get_pte_vdw_radius(const int idx)
        |              ^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: ‘get_pte_mass’ defined but not used [-Wunused-function]
    102 | static float get_pte_mass(const int idx)
        |              ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: ‘get_pte_label’ defined but not used [-Wunused-function]
     95 | static const char *get_pte_label(const int idx)
        |                    ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:91:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     91 |     fgets(line, 80, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:116:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    116 |     fgets(line, 80, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:132:9: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    132 |    fgets(line, 80, infile);
        |    ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:149:11: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    149 |      fgets(line, 80, infile);
        |      ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:155:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    155 |               fgets(line, 80, infile);
        |               ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:161:11: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    161 |      fgets(line, 80, infile); //one more read to keep us in sync
        |      ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:170:27: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    170 |                      fgets(line, 80, infile);
        |                      ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:217:15: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    217 |          fgets(line, 80, infile);
        |          ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:237:23: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    237 |                  fgets(line, 80, infile);
        |                  ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:256:15: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    256 |          fgets(line, 80, infile);
        |          ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘read_molden_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:350:7: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    350 |       strncpy(atom->type, atname, sizeof(atom->type));
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:351:7: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    351 |       strncpy(atom->name, atname, sizeof(atom->name));
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:317:7: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    317 |       strncpy(atom->name, atname,     sizeof(atom->name));
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:326:7: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 1023 [-Wstringop-truncation]
    326 |       strncpy(data->atoms[i].type, atname, sizeof(data->atoms[i].type));
        |       ^
  [ 14%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp
  [ 14%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function ‘read_next_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:103:10: warning: variable ‘numatoms’ set but not used [-Wunused-but-set-variable]
    103 |   int i, numatoms;
        |          ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function ‘open_namdbin_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:78:3: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     78 |   fread(&filen, sizeof(namdbin_int32), 1, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 14%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                       ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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:970,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47:
  In function ‘sprintf’,
      inlined from ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:9:
  /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 ());
        |                                   ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                              ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:29: note: directive argument in the range [0, 2147483646]
    722 |             sprintf(subsub, "%03x", j);
        |                             ^~~~~~
  In function ‘sprintf’,
      inlined from ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:13:
  /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 ());
        |                                   ~~~~~~~~~~~~~~~~~
  [ 15%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp
  [ 15%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp: In function ‘int read_parm7_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:80:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     80 |         fgets(buf, 85, file);
        |         ~~~~~^~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_atoms(const char*, int, molfile_atom_t*, FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 function ‘sprintf’,
      inlined from ‘DDreldir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:675:13,
      inlined from ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:779:23:
  /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 ());
        |                                   ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                                   ^~~~
  In function ‘DDreldir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, int, int)’,
      inlined from ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:779:23:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 function ‘sprintf’,
      inlined from ‘DDreldir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:13,
      inlined from ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:779:23:
  /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 ());
        |                                   ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_atype(const char*, int, molfile_atom_t*, FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_resnames(const char*, int, char*, FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_respointers(const char*, int, molfile_atom_t*, int, const char*, FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘parm7struct* read_parm7_header(FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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"
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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"
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)"
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int read_parm7_flag(FILE*, const char*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~
  [ 16%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h: In member function ‘int {anonymous}::ReadPARM::readparm(FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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]);
        |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘read_parm7_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:277:12: warning: ‘__strncpy_chk’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
    277 |     strncpy(resnames, buf+4*j, 4);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:259:12: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
    259 |     strncpy(atom->type, buf+4*j, 4);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:206:12: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
    206 |     strncpy(atom->name, buf+4*j, 4);
        |            ^
  [ 16%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [ 16%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:32:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |            ^~~~~~~~~~~
  [ 17%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘int getUniqueResID(char*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:443:7: warning: unused variable ‘i’ [-Wunused-variable]
    443 |   int i, uid;
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘int parseStructureFaster(molfile_atom_t*, int*, pdbxParser*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |                                               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:503:8: warning: unused variable ‘oldChain’ [-Wunused-variable]
    503 |   char oldChain[8];
        |        ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘bool readAngleBonds(molfile_atom_t*, pdbxParser*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:803:7: warning: unused variable ‘bondTable’ [-Wunused-variable]
    803 |   int bondTable[32];
        |       ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:807:15: warning: unused variable ‘j’ [-Wunused-variable]
    807 |   int i, pos, j, k;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:811:8: warning: unused variable ‘modelNum’ [-Wunused-variable]
    811 |   char modelNum[8];
        |        ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:822:20: warning: unused variable ‘atom’ [-Wunused-variable]
    822 |   molfile_atom_t * atom;
        |                    ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:884:7: warning: unused variable ‘test’ [-Wunused-variable]
    884 |   int test = parser->nbonds + bnum;
        |       ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘bool readRMSDBonds(molfile_atom_t*, pdbxParser*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:984:7: warning: unused variable ‘bondTable’ [-Wunused-variable]
    984 |   int bondTable[32];
        |       ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:988:15: warning: unused variable ‘j’ [-Wunused-variable]
    988 |   int i, pos, j, k;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:991:8: warning: unused variable ‘modelNum’ [-Wunused-variable]
    991 |   char modelNum[8];
        |        ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1002:20: warning: unused variable ‘atom’ [-Wunused-variable]
   1002 |   molfile_atom_t * atom;
        |                    ^~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:31:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h: In function ‘read_next_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:119:3: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 82 [-Wstringop-truncation]
    119 |   strncpy(tmp, record, PDB_RECORD_LENGTH);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:144:5: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 52 [-Wstringop-truncation]
    144 |     strncpy(numstr, record + 30, 8);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:149:5: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 44 [-Wstringop-truncation]
    149 |     strncpy(numstr+10, record + 38, 8);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:154:5: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 36 [-Wstringop-truncation]
    154 |     strncpy(numstr+20, record + 46, 8);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:159:5: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 28 [-Wstringop-truncation]
    159 |     strncpy(numstr+30, record + 54, 6);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:164:5: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 22 [-Wstringop-truncation]
    164 |     strncpy(numstr+40, record + 60, 6);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘void* open_file_write(const char*, const char*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1409:9: warning: unused variable ‘fd’ [-Wunused-variable]
   1409 |   FILE* fd;
        |         ^~
  [ 17%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |                    ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h: In function ‘read_pdb_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:299:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 70 [-Wstringop-truncation]
    299 |   strncpy(name, record + 12, 4);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:304:3: warning: ‘strncpy’ output may be truncated copying 1 byte from a string of length 66 [-Wstringop-truncation]
    304 |   strncpy(altloc, record + 16, 1);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:308:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 65 [-Wstringop-truncation]
    308 |   strncpy(resname, record + 17, 4);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:317:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 60 [-Wstringop-truncation]
    317 |   strncpy(resid, record + 22, 4);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:159:5: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 28 [-Wstringop-truncation]
    159 |     strncpy(numstr+30, record + 54, 6);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:164:5: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 22 [-Wstringop-truncation]
    164 |     strncpy(numstr+40, record + 60, 6);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:330:5: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 10 [-Wstringop-truncation]
    330 |     strncpy(segname, record + 72, 4);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:339:5: warning: ‘strncpy’ output may be truncated copying 2 bytes from a string of length 6 [-Wstringop-truncation]
    339 |     strncpy(elementsymbol, record + 76, 2);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp: In function ‘read_phi_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp:216:14: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
    216 |       strncpy(currNum, currChar, 4);
        |              ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h: In function ‘open_pdb_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:190:5: warning: ‘strncpy’ output may be truncated copying 9 bytes from a string of length 32 [-Wstringop-truncation]
    190 |     strncpy(date, record + 50, 9);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:200:5: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 20 [-Wstringop-truncation]
    200 |     strncpy(pdbcode, record + 62, 4);
        |     ^
  [ 18%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp
  [ 18%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function ‘int read_plt_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 ) {
        |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In function ‘(anonymous namespace)::read_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1786:22: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   1786 |               strncpy( ct.particles[to].type, v->second.funct.c_str(),
        |                      ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function ‘void* open_plt_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [ 18%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c.o
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void put_element_ply(PlyFile*, void*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:459:7: warning: unused variable ‘i’ [-Wunused-variable]
    459 |   int i,j,k;
        |       ^
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void ascii_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1407:7: warning: unused variable ‘i’ [-Wunused-variable]
   1407 |   int i,j,k;
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void binary_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1541:7: warning: unused variable ‘i’ [-Wunused-variable]
   1541 |   int i,j,k;
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function ‘get_atom_radius’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |                ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |         ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void binary_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void get_binary_item(FILE*, int, int*, unsigned int*, double*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~~^~~~~~~~~~~~~~~
  [ 19%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |            ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function ‘read_pqr_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:109:3: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 81 [-Wstringop-truncation]
    109 |   strncpy(tmp, record, PQR_RECORD_LENGTH);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function ‘read_pqr_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:137:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 68 [-Wstringop-truncation]
    137 |   strncpy(name, record+12, 4);    name[4] = 0;
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:138:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 63 [-Wstringop-truncation]
    138 |   strncpy(resname, record+17, 4); resname[4] = 0;
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:139:3: warning: ‘strncpy’ output may be truncated copying 1 byte from a string of length 59 [-Wstringop-truncation]
    139 |   strncpy(chain, record+21, 1);   chain[1] = 0;
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:140:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 58 [-Wstringop-truncation]
    140 |   strncpy(resid, record+22, 4);   resid[4] = 0;
        |   ^
  [ 19%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In member function ‘(anonymous namespace)::SitesArray::insert_row(std::vector<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > const&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation]
    784 |         strncpy(arr, value.substr(1,value.size()-2).c_str(), N);
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation]
    786 |         strncpy(arr, value.c_str(), N);
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In member function ‘(anonymous namespace)::PseudoArray::insert_row(std::vector<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > const&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
    784 |         strncpy(arr, value.substr(1,value.size()-2).c_str(), N);
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
    786 |         strncpy(arr, value.c_str(), N);
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘recreate_command_line’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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';
        |   ~~~~~~~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                   ~~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In member function ‘(anonymous namespace)::AtomArray::insert_row(std::vector<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > const&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:886:16: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
    886 |         strncpy( a.name,
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘ascii_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1520:14: warning: ‘other_data’ may be used uninitialized [-Wmaybe-uninitialized]
   1520 |         item = elem_data + prop->offset;
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1423:9: note: ‘other_data’ was declared here
   1423 |   char *other_data;
        |         ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘binary_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1643:14: warning: ‘other_data’ may be used uninitialized [-Wmaybe-uninitialized]
   1643 |         item = elem_data + prop->offset;
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1555:9: note: ‘other_data’ was declared here
   1555 |   char *other_data;
        |         ^~~~~~~~~~
  [ 19%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c
  [ 20%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function ‘open_rst_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:48:11: warning: variable ‘timesteprst’ set but not used [-Wunused-but-set-variable]
     48 |   double  timesteprst;
        |           ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:67:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     67 |   fgets(title, 82, fd);
        |   ^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:70:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     70 |   fgets(line, 82, fd);
        |   ^~~~~~~~~~~~~~~~~~~
  [ 20%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp.o
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function ‘int read_spider_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:36:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [ 21%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp.o
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  [ 21%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp.o
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c: In function ‘read_tinker_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c:103:5: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    103 |     strncpy(atom->name, buffer, sizeof(atom->name));
        |     ^
  [ 22%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |         ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |       ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘read_vasp5xdatcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:224:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    224 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘read_vasp5xdatcar_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:174:27: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    174 |   for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file);
        |                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:180:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    180 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:189:26: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    189 |  for (i = 0; i < 3; ++i) fgets(lineptr, LINESIZE, data->file);
        |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:194:4: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    194 |    fgets(lineptr, LINESIZE, data->file);
        |    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:204:26: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    204 |  for (i = 0; i < 8; ++i) fgets(lineptr, LINESIZE, data->file);
        |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘open_vasp5xdatcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:69:27: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     69 |   for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file);
        |                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:72:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     72 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:77:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     77 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘void* open_uhbd_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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];
        |                      ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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];
        |                            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘int read_uhbd_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘void* open_uhbd_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:47:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ^~~~~~~~~~~~~~~
  [ 22%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘read_vaspchgcar_data’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:237:60: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    237 |   for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file);
        |                                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:282:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    282 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘read_vaspchgcar_metadata’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:150:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    150 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘open_vaspchgcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:71:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     71 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:75:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     75 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:81:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     81 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:92:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:103:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    103 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:131:44: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    131 |   for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:41:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: ‘vasp_timestep_unitcell’ defined but not used [-Wunused-function]
    111 | static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
        |             ^~~~~~~~~~~~~~~~~~~~~~
  [ 22%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘read_vaspoutcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:239:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    239 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:242:9: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    242 |         fgets(lineptr, LINESIZE, data->file);
        |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘read_vaspoutcar_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:204:9: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    204 |         fgets(lineptr, LINESIZE, data->file);
        |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 23%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘open_vaspoutcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:87:10: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     87 |          fgets(lineptr, LINESIZE, data->file);
        |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘read_vaspparchg_data’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:238:60: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    238 |   for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file);
        |                                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘read_vaspparchg_metadata’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:150:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    150 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘open_vaspparchg_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:71:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     71 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:75:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     75 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:81:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     81 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:92:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:103:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    103 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:131:44: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    131 |   for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:41:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: ‘vasp_timestep_unitcell’ defined but not used [-Wunused-function]
    111 | static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
        |             ^~~~~~~~~~~~~~~~~~~~~~
  [ 23%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘write_vaspposcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:360:40: warning: argument to ‘sizeof’ in ‘strncpy’ call is the same expression as the source; did you mean to use the size of the destination? [-Wsizeof-pointer-memaccess]
    360 |     strncpy(tmptype, atom->type, sizeof(atom->type));
        |                                        ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘read_vaspposcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:232:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    232 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:237:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    237 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:246:43: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    246 |   for (i = 0; i < data->version - 2; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:249:35: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    249 |   if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file);
        |                                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:256:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    256 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘read_vaspposcar_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:195:42: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    195 |  for (i = 0; i < data->version + 3; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:198:34: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    198 |  if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file);
        |                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:203:4: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    203 |    fgets(lineptr, LINESIZE, data->file);
        |    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘open_vaspposcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:69:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     69 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:73:27: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     73 |   for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file);
        |                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:87:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     87 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  [ 24%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘read_vaspxdatcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:283:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    283 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘read_vaspxdatcar_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:228:27: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    228 |   for (i = 0; i < 4; ++i) fgets(lineptr, LINESIZE, data->file);
        |                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:233:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    233 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:237:32: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    237 |       for (i = 0; i < 2; ++i)  fgets(lineptr, LINESIZE, data->file);
        |                                ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:252:44: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    252 |   for (i = 0; i < 10 - data->version; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘open_vaspxdatcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:89:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     89 |   fgets(lineptr, LINESIZE, poscar);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:92:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |   fgets(lineptr, LINESIZE, poscar);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:97:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     97 |     fgets(lineptr, LINESIZE, poscar);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:111:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    111 |   fgets(lineptr, LINESIZE, poscar);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:121:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    121 |       fgets(lineptr, LINESIZE, poscar);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 24%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c.o
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function ‘read_vaspxml_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:139:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    139 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:144:9: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    144 |         fgets(lineptr, LINESIZE, data->file);
        |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function ‘open_vaspxml_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:86:8: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     86 |        fgets(lineptr, LINESIZE, data->file);
        |        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:92:8: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |        fgets(lineptr, LINESIZE, data->file);
        |        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:47:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  [ 24%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c
  [ 25%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp
  [ 25%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_bonds_aux(void*, int*, int**, int**, float**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘void* open_xbgf_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |                                             ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |                                             ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function ‘vtf_read_bonds’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:147:48: warning: ‘%s’ directive argument is null [-Wformat-overflow=]
    147 |   sprintf(message, "vtfplugin:%d: error: %s: \"%s\"\n",
        |                                                ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:72:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include/vmdconio.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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, ...) {
        |            ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function ‘vtf_open_file_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:538:9: warning: ‘__strncat_chk’ output may be truncated copying 200 bytes from a string of length 254 [-Wstringop-truncation]
    538 |         strncat(msg, keyword, 200);
        |         ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:629:7: warning: ‘__strncat_chk’ output may be truncated copying 200 bytes from a string of length 254 [-Wstringop-truncation]
    629 |       strncat(msg, keyword, 200);
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘open_vtk_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:152:10: warning: ‘strncpy’ output may be truncated copying 256 bytes from a string of length 2039 [-Wstringop-truncation]
    152 |   strncpy(vtk->title, inbuf, sizeof(vtk->title) - 1);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘read_xbgf_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:143:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 223 [-Wstringop-truncation]
    143 |     strncpy(numstr, record + 32, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:148:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 213 [-Wstringop-truncation]
    148 |     strncpy(numstr+10, record + 42, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:153:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 203 [-Wstringop-truncation]
    153 |     strncpy(numstr+20, record + 52, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:143:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 223 [-Wstringop-truncation]
    143 |     strncpy(numstr, record + 32, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:148:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 213 [-Wstringop-truncation]
    148 |     strncpy(numstr+10, record + 42, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:153:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 203 [-Wstringop-truncation]
    153 |     strncpy(numstr+20, record + 52, 10);
        |            ^
  [ 26%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp
  [ 26%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:172:10: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 241 [-Wstringop-truncation]
    172 |   strncpy(name, record + 14, 5);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:177:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 235 [-Wstringop-truncation]
    177 |   strncpy(resname, record + 20, 4);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:182:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 154 [-Wstringop-truncation]
    182 |   strncpy(segname, record + 101, 4);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:197:10: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 192 [-Wstringop-truncation]
    197 |   strncpy(type, record+63, 5);
        |          ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:57:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  [ 26%] Building CXX object CMakeFiles/_cmd.dir/layer0/Bezier.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Bezier.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Bezier.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Bezier.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Bezier.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c: In function ‘read_xyz_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:133:7: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    133 |       strncpy(atom->name, buffer, sizeof(atom->name));
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘void eatline(FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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
        |   ~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘void* open_xsf_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                 ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:37:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  [ 27%] Building CXX object CMakeFiles/_cmd.dir/layer0/Block.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Block.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Block.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Block.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Block.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/CarveHelper.cpp.o -MF CMakeFiles/_cmd.dir/layer0/CarveHelper.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/CarveHelper.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘read_xsf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:597:20: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    597 |             strncpy(atom->name, buffer, sizeof(atom->name));
        |                    ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘open_xsf_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:438:22: warning: ‘strncpy’ output may be truncated copying 255 bytes from a string of length 255 [-Wstringop-truncation]
    438 |               strncpy(set->dataname, readbuf, 255);
        |                      ^
  [ 27%] Building CXX object CMakeFiles/_cmd.dir/layer0/ContourSurf.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/ContourSurf.cpp.o -MF CMakeFiles/_cmd.dir/layer0/ContourSurf.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/ContourSurf.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ContourSurf.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.cpp:8:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.h: In constructor ‘CarveHelper::CarveHelper(PyMOLGlobals*, float, const float*, std::size_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.h:23:9: warning: ‘CarveHelper::m_cutoff’ will be initialized after [-Wreorder]
     23 |   float m_cutoff;
        |         ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.h:22:16: warning:   ‘const float* CarveHelper::m_vertices’ [-Wreorder]
     22 |   const float* m_vertices;
        |                ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.cpp:20:1: warning:   when initialized here [-Wreorder]
     20 | CarveHelper::CarveHelper(PyMOLGlobals* G, float cutoff, const float* vertices,
        | ^~~~~~~~~~~
  [ 28%] Building CXX object CMakeFiles/_cmd.dir/layer0/Crystal.cpp.o
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Field.cpp: In function ‘PyObject* FieldAsNumPyArray(CField*, short int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Field.cpp:83:1: warning: label ‘ok_except1’ defined but not used [-Wunused-label]
     83 | ok_except1:
        | ^~~~~~~~~~
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    179 |   ok = ok && I->size() == size;
        |              ~~~~~~~~~~^~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp: In destructor ‘virtual GenericBuffer::~GenericBuffer()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp:208:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<BufferDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    208 |   for (auto i = 0; i < m_desc.size(); ++i) {
        |                    ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp: In member function ‘bool GenericBuffer::sepBufferData()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp:275:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<BufferDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    275 |   for (auto i = 0; i < m_desc.size(); ++i) {
        |                    ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp: In member function ‘void VertexBuffer::bind(GLuint, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp:427:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<BufferDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    427 |     for (auto i = 0; i < m_desc.size(); ++i) {
        |                      ~~^~~~~~~~~~~~~~~
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/MemoryUsage.cpp.o -MF CMakeFiles/_cmd.dir/layer0/MemoryUsage.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/MemoryUsage.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryUsage.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.cpp: In function ‘void* VLADeleteRaw(void*, int, unsigned int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.cpp:218:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
    218 |       if(index < -old_size)
        |          ~~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.cpp:230:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
    230 |        (index < vla->size) && ((count + index) <= vla->size)) {
        |         ~~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.cpp: In function ‘void* VLAInsertRaw(void*, int, unsigned int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.cpp:251:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
    251 |       if(index < -old_size)
        |          ~~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.cpp:258:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
    258 |     if(index > old_size)
        |        ~~~~~~^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.cpp:261:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
    261 |     if((index >= 0) && (count > 0) && (index <= old_size)) {
        |                                        ~~~~~~^~~~~~~~~~~
  [ 33%] Building CXX object CMakeFiles/_cmd.dir/layer0/MyPNG.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/MyPNG.cpp.o -MF CMakeFiles/_cmd.dir/layer0/MyPNG.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/MyPNG.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryUsage.cpp: In function ‘size_t pymol::memory_usage()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                     ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |     ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Pixmap.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Pixmap.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Pixmap.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Pixmap.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp: In function ‘int MyPNGWrite(pymol::zstring_view, const pymol::Image&, float, int, int, float, float, png_outbuf_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp:300:20: warning: comparison of integer expressions of different signedness: ‘png_uint_32’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
    300 |       for(k = 0; k < height; k++)
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp:341:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
    341 |           for(b = 0; b < height; b++) {
        |                      ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp:342:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
    342 |             for(a = 0; a < width; a++) {
        |                        ~~^~~~~~~
  [ 34%] Building CXX object CMakeFiles/_cmd.dir/layer0/PostProcess.cpp.o
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  [ 36%] Building CXX object CMakeFiles/_cmd.dir/layer0/ShaderPrg.cpp.o
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/TTT.cpp.o -MF CMakeFiles/_cmd.dir/layer0/TTT.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/TTT.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TTT.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.cpp:21:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderPrg.cpp:20:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 37%] Building CXX object CMakeFiles/_cmd.dir/layer0/Tetsurf.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Tetsurf.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Tetsurf.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Tetsurf.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Tetsurf.cpp
  [ 37%] Building CXX object CMakeFiles/_cmd.dir/layer0/Texture.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Texture.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Texture.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Texture.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Texture.cpp
  [ 38%] Building CXX object CMakeFiles/_cmd.dir/layer0/Tracker.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Tracker.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Tracker.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Tracker.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Tracker.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Texture.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 38%] Building CXX object CMakeFiles/_cmd.dir/layer0/Triangle.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Triangle.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Triangle.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Triangle.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Triangle.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Texture.cpp: In function ‘bool TextureIsCharTextured(PyMOLGlobals*, int, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Texture.cpp:130:9: warning: unused variable ‘use_shader’ [-Wunused-variable]
    130 |   short use_shader = (short) SettingGetGlobal_b(G, cSetting_use_shaders);
        |         ^~~~~~~~~~
  [ 39%] Building CXX object CMakeFiles/_cmd.dir/layer0/Util.cpp.o
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Util2.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Util2.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Util2.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Util2.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Word.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Word.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Word.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Word.cpp
  [ 40%] Building CXX object CMakeFiles/_cmd.dir/layer0/ccealignmodule.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/ccealignmodule.cpp.o -MF CMakeFiles/_cmd.dir/layer0/ccealignmodule.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/ccealignmodule.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ccealignmodule.cpp
  [ 40%] Building CXX object CMakeFiles/_cmd.dir/layer0/marching_cubes.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/marching_cubes.cpp.o -MF CMakeFiles/_cmd.dir/layer0/marching_cubes.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/marching_cubes.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:49,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ccealignmodule.cpp:39:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array2d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, Array2D<T>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array2d_utils.h:62:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
     62 |     for (int i=0; i<M; i++)
        |     ^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array2d_utils.h:68:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
     68 |         A = B;
        |         ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:50:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array3d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, Array3D<T>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array3d_utils.h:47:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
     47 |     for (int i=0; i<M; i++)
        |     ^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array3d_utils.h:52:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
     52 |         A = B;
        |         ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:56:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_fortran_array2d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, Fortran_Array2D<T>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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++)
        |     ^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:57:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_fortran_array3d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, Fortran_Array3D<T>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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++)
        |     ^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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;
        |         ^
  [ 41%] Building CXX object CMakeFiles/_cmd.dir/layer0/os_gl.cpp.o
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Basis.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Basis.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Basis.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Basis.cpp
  [ 42%] Building CXX object CMakeFiles/_cmd.dir/layer1/ButMode.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/ButMode.cpp.o -MF CMakeFiles/_cmd.dir/layer1/ButMode.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/ButMode.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp: In function ‘mc::Mesh mc::march(const Field&, float, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                   ~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                   ~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |               ~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |             ~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp: In function ‘void mc::calculateNormals(Mesh&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                   ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                   ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                   ~~^~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 42%] Building CXX object CMakeFiles/_cmd.dir/layer1/CGO.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/CGO.cpp.o -MF CMakeFiles/_cmd.dir/layer1/CGO.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/CGO.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp:22:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp: In function ‘void ButModeFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CButMode’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp:144:3: note: in expansion of macro ‘DeleteP’
    144 |   DeleteP(G->ButMode);
        |   ^~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:45:
  In member function ‘TNT::Array1D<double>::set_(double*, double*, double const&)’,
      inlined from ‘TNT::Array1D<double>::Array1D(int, double const&)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array1d.h:119:6,
      inlined from ‘findBest(cePoint*, cePoint*, afp**, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ccealignmodule.cpp:506:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array1d.h:283:20: warning: ‘memset’ specified bound between 18446744056529682432 and 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]
    283 |                 *p = a;
        |                 ~~~^~~
  [ 42%] Building CXX object CMakeFiles/_cmd.dir/layer1/CGOGL.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/CGOGL.cpp.o -MF CMakeFiles/_cmd.dir/layer1/CGOGL.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/CGOGL.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGOGL.cpp
  [ 43%] Building CXX object CMakeFiles/_cmd.dir/layer1/CGORenderer.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/CGORenderer.cpp.o -MF CMakeFiles/_cmd.dir/layer1/CGORenderer.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/CGORenderer.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGORenderer.cpp
  [ 43%] Building CXX object CMakeFiles/_cmd.dir/layer1/COLLADA.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/COLLADA.cpp.o -MF CMakeFiles/_cmd.dir/layer1/COLLADA.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/COLLADA.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/COLLADA.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp: In function ‘void CheckAttributesForUsage(const CGO*, AttribDataDesc&, AttribDataDesc&, CGO*, bool&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:8819:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   8819 |     for (auto idx = 0; idx < attrIdx; ++idx) {
        |                        ~~~~^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp: In function ‘void PopulateOpsIntoStructuresForConversion(std::map<int, int>&, std::map<int, std::map<int, AttribOp*> >&, AttribDataDesc&, AttribDataDesc&, int&, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:8904:37: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   8904 |           if (attrOp->incr_vertices != vertsperpickinfo) {
        |               ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp: In function ‘CGO* CGOConvertToShader(const CGO*, AttribDataDesc&, AttribDataDesc&, int, buffer_layout, bool, int*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:9236:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<AttribDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9236 |             for (auto idx = 0; idx < attrData.size(); ++idx) {
        |                                ~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:9251:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<AttribDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9251 |             for (auto idx = 0; idx < attrData.size(); ++idx) {
        |                                ~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:9262:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   9262 |           for (int nxt = 0; nxt < attribOp->incr_vertices; ++nxt) {
        |                             ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  [ 44%] Building CXX object CMakeFiles/_cmd.dir/layer1/Camera.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Camera.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Camera.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Camera.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Camera.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGOGL.cpp:9:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/COLLADA.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 44%] Building CXX object CMakeFiles/_cmd.dir/layer1/Character.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Character.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Character.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Character.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Character.cpp
  [ 44%] Building CXX object CMakeFiles/_cmd.dir/layer1/Color.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Color.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Color.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Color.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp
  [ 45%] Building CXX object CMakeFiles/_cmd.dir/layer1/Control.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Control.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Control.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Control.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Control.cpp
  [ 45%] Building CXX object CMakeFiles/_cmd.dir/layer1/Extrude.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Extrude.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Extrude.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Extrude.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘ObjectGadgetRamp* ColorGetRamp(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:178:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    178 |     if (index < I->Ext.size()) {
        |         ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorExtFromPyList(PyMOLGlobals*, PyObject*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:499:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    499 |   for (int a = 0; a < n_ext; ++a) {
        |                   ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:516:15: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    516 |     if (a_new == I->Ext.size()) {
        |         ~~~~~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorFromPyList(PyMOLGlobals*, PyObject*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:567:44: warning: comparison of integer expressions of different signedness: ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    567 |     if (partial_restore && I->Color.size() > index) {
        |                            ~~~~~~~~~~~~~~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:573:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    573 |     if (index >= I->Color.size()) {
        |         ~~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorGetIndex(PyMOLGlobals*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:681:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    681 |       if((i < I->Color.size()) && (i >= 0))
        |           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘const char* ColorGetName(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:762:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    762 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:774:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    774 |     if (a < I->Ext.size()) {
        |         ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorGetStatus(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:790:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    790 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘void ColorUpdateFromLut(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1693:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1693 |   for(i = 0; i < I->Color.size(); i++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1697:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1697 |     if(index < I->Color.size()) {
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘const float* ColorGet(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1806:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1806 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘const float* ColorGetRaw(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1833:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1833 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorGetEncoded(PyMOLGlobals*, int, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1851:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1851 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitiveName(PyMOLGlobals*, const Sequence&, const char*) [with Sequence = std::vector<ExtRec>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:302:35:   required from here
    302 |   return findByCaseInsensitiveName(G, G->Color->Ext, name);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:243:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    243 |   for (int a = 0; a < seq.size(); ++a) {
        |                   ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitiveName(PyMOLGlobals*, const Sequence&, const char*) [with Sequence = std::vector<ColorRec>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:624:38:   required from here
    624 |     color = findByCaseInsensitiveName(G, I->Color, name);
        |             ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:243:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    243 |   for (int a = 0; a < seq.size(); ++a) {
        |                   ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitivePrefix(PyMOLGlobals*, const Sequence&, const char*, int&) [with Sequence = std::vector<ColorRec>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:739:42:   required from here
    739 |   int color = findByCaseInsensitivePrefix(G, I->Color, name, best);
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:273:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    273 |   for (int a = 0; a < seq.size(); ++a) {
        |                   ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitivePrefix(PyMOLGlobals*, const Sequence&, const char*, int&) [with Sequence = std::vector<ExtRec>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:741:54:   required from here
    741 |     int const ext_color = findByCaseInsensitivePrefix(G, I->Ext, name, best);
        |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:273:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    273 |   for (int a = 0; a < seq.size(); ++a) {
        |                   ~~^~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Control.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:22:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Control.cpp: In function ‘void ControlFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CControl’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Control.cpp:410:3: note: in expansion of macro ‘DeleteP’
    410 |   DeleteP(G->Control);
        |   ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp: In function ‘ExtrudeComputeTangents(CExtrude*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp:742:13: warning: ‘MEM <vector(2) float> [(float *)_62]’ may be used uninitialized [-Wmaybe-uninitialized]
    742 |   *(v1++) = *(v++);             /* first segment */
        |             ^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp:744:13: warning: ‘MEM[(float *)_62 + 8B]’ may be used uninitialized [-Wmaybe-uninitialized]
    744 |   *(v1++) = *(v++);
        |             ^~~~~~
  [ 45%] Building CXX object CMakeFiles/_cmd.dir/layer1/Font.cpp.o
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp: In function ‘ExtrudeCGOSurfaceTube(CExtrude const*, CGO*, cCylCap, float const*, bool, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp:949:46: warning: ‘stop’ may be used uninitialized [-Wmaybe-uninitialized]
    949 |             if(color_override && (b > start) && (b < stop))
        |                ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp:876:14: note: ‘stop’ was declared here
    876 |   int start, stop;
        |              ^~~~
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontGLUTHel18.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontGLUTHel18.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontGLUTHel18.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUTHel18.cpp
  [ 48%] Building CXX object CMakeFiles/_cmd.dir/layer1/FontType.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontType.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontType.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontType.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontType.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUT.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 49%] Building CXX object CMakeFiles/_cmd.dir/layer1/ImageUtils.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/ImageUtils.cpp.o -MF CMakeFiles/_cmd.dir/layer1/ImageUtils.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/ImageUtils.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ImageUtils.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontType.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 49%] Building CXX object CMakeFiles/_cmd.dir/layer1/Movie.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Movie.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Movie.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Movie.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Movie.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ImageUtils.cpp: In function ‘pymol::Result<pymol::Image> PyMOLImageComposite(PyMOLGlobals*, const pymol::Image&, const pymol::Image&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ImageUtils.cpp:54:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
     54 |   for (int i = 0; i < image.getSizeInBytes() / image.getPixelSize(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 49%] Building CXX object CMakeFiles/_cmd.dir/layer1/Ortho.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Ortho.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Ortho.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Ortho.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp
  [ 50%] Building CXX object CMakeFiles/_cmd.dir/layer1/P.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/P.cpp.o -MF CMakeFiles/_cmd.dir/layer1/P.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/P.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Movie.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp: In function ‘void OrthoAddOutput(PyMOLGlobals*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1099:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
   1099 |       if (cc >= OrthoLineLength - 6) { /* fail safe */
        |           ~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp: In function ‘std::unique_ptr<pymol::Image> makeBgGridImage(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1321:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   1321 |   for (unsigned j = 0; j != tmpImg->getHeight(); ++j) {
        |                        ~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1322:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   1322 |     for (unsigned i = 0; i != tmpImg->getWidth(); ++i, q += 4) {
        |                          ~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp: In function ‘void OrthoDoDraw(PyMOLGlobals*, const OrthoDrawInfo&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1873:8: warning: variable ‘double_pump’ set but not used [-Wunused-but-set-variable]
   1873 |   auto double_pump = SettingGet<bool>(G, cSetting_stereo_double_pump_mono);
        |        ^~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:59:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: In function ‘int WrapperObjectAssignSubScript(PyObject*, PyObject*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:873:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
    873 |       if (strlen(valstr) > ap->maxlen) {
        |           ~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:897:18: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
    897 |       if (valint == -1 && PyErr_Occurred())
        |           ~~~~~~~^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: In function ‘int PAutoBlock(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:2337:27: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘long unsigned int’ [-Wsign-compare]
   2337 |     if (SavedThread[a].id == id) {
        |         ~~~~~~~~~~~~~~~~~~^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: In function ‘int PIsGlutThread()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:2363:39: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare]
   2363 |   return (PyThread_get_thread_ident() == P_glut_thread_id);
        |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1783:13: warning: ‘void OrthoDrawFontTextureDebug(PyMOLGlobals*, CGO*)’ defined but not used [-Wunused-function]
   1783 | static void OrthoDrawFontTextureDebug(PyMOLGlobals* G, CGO* orthoCGO)
        |             ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:775:13: warning: ‘void OrthoKeyCmmd(PyMOLGlobals*, unsigned char)’ defined but not used [-Wunused-function]
    775 | static void OrthoKeyCmmd(PyMOLGlobals* G, unsigned char k)
        |             ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:2471:13: warning: ‘void PLockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function]
   2471 | static void PLockAPIWhileBlocked(PyMOLGlobals * G)
        |             ^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:2460:13: warning: ‘void PUnlockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function]
   2460 | static void PUnlockAPIWhileBlocked(PyMOLGlobals * G)
        |             ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: In function ‘PLabelAtomAlt(PyMOLGlobals*, AtomInfoType*, char const*, char const*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:323:12: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation]
    323 |     strncpy(label, origexpr, OrthoLineLength);
        |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /usr/include/string.h:548,
                   from /usr/include/python3.13/Python.h:39,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:24:
  In function ‘strcat’,
      inlined from ‘OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:340:13:
  /usr/include/bits/string_fortified.h:140:33: warning: ‘__strcat_chk’ accessing 4611686018427387981 or more bytes at offsets [76, 261196] and [-4611686018427387904, 4611686018427387903] may overlap 1 byte at offset [76, 9223372036854775807] [-Wrestrict]
    140 |   return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest));
        |          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In function ‘strcat’,
      inlined from ‘OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:357:13:
  /usr/include/bits/string_fortified.h:140:33: warning: ‘__strcat_chk’ accessing 4611686018427387981 or more bytes at offsets [76, 261196] and [-4611686018427387904, 4611686018427387903] may overlap 1 byte at offset [76, 9223372036854775807] [-Wrestrict]
    140 |   return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest));
        |          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 50%] Building CXX object CMakeFiles/_cmd.dir/layer1/PConv.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/PConv.cpp.o -MF CMakeFiles/_cmd.dir/layer1/PConv.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/PConv.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp
  [ 50%] Building CXX object CMakeFiles/_cmd.dir/layer1/Picking.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Picking.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Picking.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Picking.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Picking.cpp
  [ 51%] Building CXX object CMakeFiles/_cmd.dir/layer1/Pop.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Pop.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Pop.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Pop.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Pop.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp: In function ‘int PConvPyListToBitmask(PyObject*, int*, ov_size)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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++)
        |                  ~~^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp: In function ‘PyObject* PConvLabPosVecToPyList(const std::vector<LabPosType>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp:1194:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<LabPosType>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1194 |     for (int a = 0; a < vec.size(); a++) {
        |                     ~~^~~~~~~~~~~~
  [ 51%] Building CXX object CMakeFiles/_cmd.dir/layer1/PyMOLObject.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/PyMOLObject.cpp.o -MF CMakeFiles/_cmd.dir/layer1/PyMOLObject.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/PyMOLObject.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Pop.cpp:22:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Pop.cpp: In function ‘void PopFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CPop’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Pop.cpp:54:3: note: in expansion of macro ‘DeleteP’
     54 |   DeleteP(G->Pop);
        |   ^~~~~~~
  [ 52%] Building CXX object CMakeFiles/_cmd.dir/layer1/Ray.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Ray.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Ray.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Ray.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp
  [ 52%] Building CXX object CMakeFiles/_cmd.dir/layer1/Rep.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Rep.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Rep.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Rep.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Rep.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 52%] Building CXX object CMakeFiles/_cmd.dir/layer1/Scene.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Scene.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Scene.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Scene.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp: In function ‘int ObjectMotion(pymol::CObject*, MViewAction, int, int, float, float, int, float, int, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp:193:15: warning: ignoring return value of ‘constexpr const _Tp& std::max(const _Tp&, const _Tp&) [with _Tp = int]’, declared with attribute ‘nodiscard’ [-Wunused-result]
    193 |       std::max(0, first);
        |       ~~~~~~~~^~~~~~~~~~
  In file included from /usr/include/c++/15/bits/stl_uninitialized.h:63,
                   from /usr/include/c++/15/memory:71,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:23,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp:17:
  /usr/include/c++/15/bits/stl_algobase.h:258:5: note: declared here
    258 |     max(const _Tp& __a, const _Tp& __b)
        |     ^~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp: In function ‘void RayRender(CRay*, unsigned int*, double, float, int, unsigned int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6070:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6070 |       if(x_stop > width)
        |          ~~~~~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6072:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6072 |       if(y_stop > height)
        |          ~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6153:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6153 |       for(y = 0; y < height; y++)
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6154:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6154 |         for(x = 0; x < width; x++) {
        |                    ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6165:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6165 |           if(x < (width - 1)) {
        |              ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6176:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6176 |           if(y < (height - 1)) {
        |              ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6237:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6237 |             for(y = 0; y < height; y++)
        |                        ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6238:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6238 |               for(x = 0; x < width; x++) {
        |                          ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6248:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6248 |                   if(x < (width - 1)) {
        |                      ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6260:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6260 |                   if(y < (height - 1)) {
        |                      ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6311:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6311 |           for(y = 0; y < height; y++){
        |                      ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6331:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6331 |             for(x = 0; x < width; x++) {
        |                        ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6350:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6350 |                   if(x < (width - 1)) {
        |                      ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6364:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6364 |                   if(y < (height - 1)) {
        |                      ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6378:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6378 |                   if(x && (y < (height - 1))) {
        |                            ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6385:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6385 |                   if(y && (x < (width - 1))) {
        |                            ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6392:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6392 |                   if((y < (height - 1)) && (x < (width - 1))) {
        |                       ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6392:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6392 |                   if((y < (height - 1)) && (x < (width - 1))) {
        |                                             ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6548:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6548 |       for(y = 0; y < height; y++) {
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6549:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6549 |         for(x = 0; x < width; x++) {
        |                    ~~^~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Rep.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 53%] Building CXX object CMakeFiles/_cmd.dir/layer1/SceneMouse.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SceneMouse.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SceneMouse.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SceneMouse.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp: In function ‘int SceneViewEqual(float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp:134:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const std::size_t’ {aka ‘const long unsigned int’} [-Wsign-compare]
    134 |   for(i = 0; i < cSceneViewSize; i++) {
        |              ~~^~~~~~~~~~~~~~~~
  In file included from /usr/include/c++/15/bits/stl_algobase.h:64,
                   from /usr/include/c++/15/bits/specfun.h:43,
                   from /usr/include/c++/15/cmath:3913,
                   from /usr/include/c++/15/math.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_std.h:24,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp:18:
  /usr/include/c++/15/bits/stl_pair.h: In instantiation of ‘constexpr std::pair<typename std::__strip_reference_wrapper<typename std::decay<_Tp>::type>::__type, typename std::__strip_reference_wrapper<typename std::decay<_Tp2>::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper<typename decay<_Tp>::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper<typename decay<_Tp2>::type>::__type = float; typename decay<_Tp2>::type = float]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp:1469:24:   required from here
   1469 |   return std::make_pair(clip.m_front, clip.m_back);
        |          ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /usr/include/c++/15/bits/stl_pair.h:1146:5: note: parameter passing for argument of type ‘std::pair<float, float>’ when C++17 is enabled changed to match C++14 in GCC 10.1
   1146 |     make_pair(_T1&& __x, _T2&& __y)
        |     ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp: In function ‘void SceneFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp:4166:3: warning: deleting object of polymorphic class type ‘CScene’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   4166 |   delete G->Scene;
        |   ^~~~~~~~~~~~~~~
  [ 53%] Building CXX object CMakeFiles/_cmd.dir/layer1/ScenePicking.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/ScenePicking.cpp.o -MF CMakeFiles/_cmd.dir/layer1/ScenePicking.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/ScenePicking.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp: In function ‘RayTraceThread(_CRayThreadInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:3608:39: warning: ‘hl’ may be used uninitialized [-Wmaybe-uninitialized]
   3608 |           compute_background_for_pixel(bkrd_uc, isOutsideInY,
        |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
   3609 |               bg_image_mode, bg_image_tilesize, bg_rgb, bg_image_linear,
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   3610 |               (unsigned char*) T->bkrd_data, T->bgWidth, T->bgHeight,
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   3611 |               x, wr, hl, hpixelx, orig_opaque_back );
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:3269:9: note: ‘hl’ was declared here
   3269 |   float hl;
        |         ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp:4:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp: In function ‘void SceneClickPickBond(PyMOLGlobals*, int, int, int, const NamedPicking&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |         ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:4:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp: In function ‘void PickColorConverterSetRgbaBitsFromGL(PyMOLGlobals*, PickColorConverter&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:67:26: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
     67 |   if (currentFrameBuffer != G->ShaderMgr->defaultBackbuffer.framebuffer) {
        |       ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:80:26: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
     80 |   if (currentFrameBuffer != G->ShaderMgr->defaultBackbuffer.framebuffer) {
        |       ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In function ‘SceneRenderPickingMultiPick(PyMOLGlobals*, SceneUnitContext*, Multipick*, unsigned int)’,
      inlined from ‘SceneRenderPicking(PyMOLGlobals*, int, ClickSide, int, Picking*, int, int, Multipick*, SceneUnitContext*, unsigned int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:323:32:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:257:7: warning: ‘previous.src.index’ may be used uninitialized [-Wmaybe-uninitialized]
    257 |       if (pik->src.index != previous.src.index ||
        |       ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp: In function ‘SceneRenderPicking(PyMOLGlobals*, int, ClickSide, int, Picking*, int, int, Multipick*, SceneUnitContext*, unsigned int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:246:11: note: ‘previous.src.index’ was declared here
    246 |   Picking previous;
        |           ^~~~~~~~
  [ 54%] Building CXX object CMakeFiles/_cmd.dir/layer1/SceneRay.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SceneRay.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SceneRay.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SceneRay.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRay.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp: In function ‘SceneClickTransformObject(PyMOLGlobals*, pymol::CObject*, NamedPicking const&, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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:970,
                   from /usr/include/c++/15/cstdio:47,
                   from /usr/include/c++/15/ext/string_conversions.h:47,
                   from /usr/include/c++/15/bits/basic_string.h:4230,
                   from /usr/include/c++/15/string:56,
                   from /usr/include/c++/15/bits/locale_classes.h:42,
                   from /usr/include/c++/15/bits/ios_base.h:43,
                   from /usr/include/c++/15/ios:46,
                   from /usr/include/c++/15/bits/ostream.h:43,
                   from /usr/include/c++/15/ostream:42,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/pymol/zstring_view.h:12,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.h:4,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp:1:
  In function ‘snprintf’,
      inlined from ‘SceneClickTransformObject(PyMOLGlobals*, pymol::CObject*, NamedPicking const&, int, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp:454:11:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output 21 or more bytes (assuming 276) into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  [ 54%] Building CXX object CMakeFiles/_cmd.dir/layer1/SceneRender.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SceneRender.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SceneRender.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SceneRender.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRay.cpp:2:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 54%] Building CXX object CMakeFiles/_cmd.dir/layer1/SceneView.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SceneView.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SceneView.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SceneView.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneView.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:11:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp: In function ‘void DoRendering(PyMOLGlobals*, CScene*, GridInfo*, int, int, float*, SceneUnitContext*, float, bool, bool, SceneRenderWhich, SceneRenderOrder)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:946:32: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
    946 |     if (currentDrawFramebuffer == G->ShaderMgr->defaultBackbuffer.framebuffer) {
        |         ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:979:36: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
    979 |         if (currentDrawFramebuffer == G->ShaderMgr->defaultBackbuffer.framebuffer) {
        |             ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:1106:36: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
   1106 |         if (currentDrawFramebuffer ==
        |             ~~~~~~~~~~~~~~~~~~~~~~~^~
   1107 |             G->ShaderMgr
        |             ~~~~~~~~~~~~
   1108 |                 ->defaultBackbuffer.framebuffer) { // if rendering to screen, need to
        |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:1130:37: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
   1130 |         if ((currentDrawFramebuffer == G->ShaderMgr->defaultBackbuffer.framebuffer) &&
        |              ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp: In function ‘void SceneInitializeViewport(PyMOLGlobals*, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:1657:30: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
   1657 |       if (currentFrameBuffer ==
        |           ~~~~~~~~~~~~~~~~~~~^~
   1658 |           G->ShaderMgr->defaultBackbuffer.framebuffer) { // if writing to screen, then
        |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 55%] Building CXX object CMakeFiles/_cmd.dir/layer1/ScrollBar.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/ScrollBar.cpp.o -MF CMakeFiles/_cmd.dir/layer1/ScrollBar.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/ScrollBar.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScrollBar.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Seq.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Seq.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Seq.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp
  [ 55%] Building CXX object CMakeFiles/_cmd.dir/layer1/Setting.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Setting.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Setting.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Setting.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp
  [ 56%] Building CXX object CMakeFiles/_cmd.dir/layer1/Shaker.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Shaker.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Shaker.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Shaker.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Shaker.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: In function ‘int SeqFindRowCol(PyMOLGlobals*, int, int, int*, int*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)) {
        |                                ~~~~~~~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: In member function ‘virtual void CSeq::reshape(int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: In member function ‘virtual void CSeq::draw(CGO*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.h:21,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:22:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: In function ‘void SeqFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CSeq’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:731:3: note: in expansion of macro ‘DeleteP’
    731 |   DeleteP(G->Seq);
        |   ^~~~~~~
  [ 56%] Building CXX object CMakeFiles/_cmd.dir/layer1/SymOp.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SymOp.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SymOp.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SymOp.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp: In function ‘void SettingUniqueResetAll(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp:501:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<SettingUniqueEntry>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    501 |   for (int a = 2; a < I->entry.size(); a++) {
        |                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp: In function ‘void SettingGenerateSideEffects(PyMOLGlobals*, int, const char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp:2020:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
   2020 |     if (SettingGetGlobal_b(G, cSetting_precomputed_lighting))
        |     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp:2022:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
   2022 |       SceneInvalidate(G);
        |       ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:717:13: warning: ‘void SeqPurgeRowVLA(PyMOLGlobals*)’ defined but not used [-Wunused-function]
    717 | static void SeqPurgeRowVLA(PyMOLGlobals * G)
        |             ^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp: In member function ‘pymol::SymOp::to_string[abi:cxx11]() const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                                ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                          ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp:37:26: note: directive argument in the range [-123, 132]
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/c++/15/cstdio:47,
                   from /usr/include/c++/15/ext/string_conversions.h:47,
                   from /usr/include/c++/15/bits/basic_string.h:4230,
                   from /usr/include/c++/15/string:56,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.h:9,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp:7:
  In function ‘snprintf’,
      inlined from ‘pymol::SymOp::to_string[abi:cxx11]() const’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp:37:16:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 6 and 17 bytes into a destination of size 8
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  [ 57%] Building CXX object CMakeFiles/_cmd.dir/layer1/SymOpPConv.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SymOpPConv.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SymOpPConv.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SymOpPConv.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOpPConv.cpp
  [ 57%] Building CXX object CMakeFiles/_cmd.dir/layer1/SymOpTools.cpp.o
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Symmetry.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Symmetry.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Symmetry.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/TypeFace.cpp.o -MF CMakeFiles/_cmd.dir/layer1/TypeFace.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/TypeFace.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/TypeFace.cpp
  [ 59%] Building CXX object CMakeFiles/_cmd.dir/layer1/View.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/View.cpp.o -MF CMakeFiles/_cmd.dir/layer1/View.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/View.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/View.cpp
  [ 59%] Building CXX object CMakeFiles/_cmd.dir/layer1/Wizard.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Wizard.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Wizard.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Wizard.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Text.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 59%] Building CXX object CMakeFiles/_cmd.dir/layer2/AssemblyHelpers.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/AssemblyHelpers.cpp.o -MF CMakeFiles/_cmd.dir/layer2/AssemblyHelpers.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/AssemblyHelpers.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AssemblyHelpers.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp: In member function ‘virtual void CWizard::draw(CGO*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:727:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
    727 |     else
        |     ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp: In function ‘void WizardFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CWizard’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:845:3: note: in expansion of macro ‘DeleteP’
    845 |   DeleteP(G->Wizard);
        |   ^~~~~~~
  [ 60%] Building CXX object CMakeFiles/_cmd.dir/layer2/AtomInfo.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/AtomInfo.cpp.o -MF CMakeFiles/_cmd.dir/layer2/AtomInfo.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/AtomInfo.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp
  [ 60%] Building CXX object CMakeFiles/_cmd.dir/layer2/AtomInfoHistory.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/AtomInfoHistory.cpp.o -MF CMakeFiles/_cmd.dir/layer2/AtomInfoHistory.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/AtomInfoHistory.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfoHistory.cpp
  [ 60%] Building CXX object CMakeFiles/_cmd.dir/layer2/BondTypeHistory.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/BondTypeHistory.cpp.o -MF CMakeFiles/_cmd.dir/layer2/BondTypeHistory.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/BondTypeHistory.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/BondTypeHistory.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp:37:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp: In function ‘bool AtomResiFromResv(char*, size_t, int, char)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp:787:56: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    787 |     return snprintf(resi, size, "%d%c", resv, inscode) < size;
        |            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp:788:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    788 |   return snprintf(resi, size, "%d", resv) < size;
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
  [ 61%] Building CXX object CMakeFiles/_cmd.dir/layer2/CifFile.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/CifFile.cpp.o -MF CMakeFiles/_cmd.dir/layer2/CifFile.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/CifFile.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp
  [ 61%] Building CXX object CMakeFiles/_cmd.dir/layer2/CifMoleculeReader.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/CifMoleculeReader.cpp.o -MF CMakeFiles/_cmd.dir/layer2/CifMoleculeReader.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/CifMoleculeReader.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp: In function ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > pymol::integer_packing_decode(const std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >&, int, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp:585:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    585 |   for (int i = 0, j = 0; i < packedInts.size(); ++i, ++j) {
        |                          ~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp: In function ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > pymol::string_array_decode(const std::vector<unsigned char>&, std::vector<std::map<std::__cxx11::basic_string<char>, msgpack::v2::object> >&, const std::string&, const std::vector<unsigned char>&, std::vector<std::map<std::__cxx11::basic_string<char>, msgpack::v2::object> >&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp:668:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    668 |   for (int i = 1; i < decodedOffsets.size(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp:675:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    675 |   for (int i = 0; i < indices.size(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~
  [ 62%] Building CXX object CMakeFiles/_cmd.dir/layer2/CoordSet.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/CoordSet.cpp.o -MF CMakeFiles/_cmd.dir/layer2/CoordSet.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/CoordSet.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp: In member function ‘void seqvec_t::set(int, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:109:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    109 |     if (i > size())
        |         ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp: In member function ‘const char* seqvec_t::get(int) const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    115 |     if (i < 1 || i > size())
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp: In function ‘CoordSet** read_pdbx_struct_assembly(PyMOLGlobals*, const pymol::cif_data*, const AtomInfoType*, const CoordSet*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:801:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    801 |       while (j < c_src_len * c_it->size()) {
        |              ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp: In member function ‘int CoordSet::extendIndices(int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp:1599:18: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare]
   1599 |     if (NAtIndex < nAtom) {
        |         ~~~~~~~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp: In function ‘void CoordSetAtomToPDBStrVLA(PyMOLGlobals*, char**, int*, const AtomInfoType*, const float*, int, const PDBInfoRec*, const double*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp:1013:14: 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]
   1013 |       strncpy(anisoline, "ANISOU", 6);
        |       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
  [ 62%] Building CXX object CMakeFiles/_cmd.dir/layer2/DistSet.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/DistSet.cpp.o -MF CMakeFiles/_cmd.dir/layer2/DistSet.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/DistSet.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp
  [ 62%] Building CXX object CMakeFiles/_cmd.dir/layer2/GadgetSet.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/GadgetSet.cpp.o -MF CMakeFiles/_cmd.dir/layer2/GadgetSet.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/GadgetSet.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/GadgetSet.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp: In function ‘int DistSetGetLabelVertex(DistSet*, int, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp:43:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::array<float, 3> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     43 |   if (at >= 0 && at < I->LabCoord.size()) {
        |                  ~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp: In member function ‘pymol::Result<std::array<float, 3> > DistSet::getLabelOffset(int) const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp:59:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<LabPosType>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     59 |   if (atm < 0 || atm >= this->LabPos.size()) {
        |                  ~~~~^~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/GadgetSet.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 63%] Building CXX object CMakeFiles/_cmd.dir/layer2/HydrogenAdder.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/HydrogenAdder.cpp.o -MF CMakeFiles/_cmd.dir/layer2/HydrogenAdder.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/HydrogenAdder.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp
  [ 63%] Building CXX object CMakeFiles/_cmd.dir/layer2/MmodTyping.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/MmodTyping.cpp.o -MF CMakeFiles/_cmd.dir/layer2/MmodTyping.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/MmodTyping.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmodTyping.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:31:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h: In function ‘read_chem_comp_bond_dict(pymol::cif_data const*, bond_dict_t&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:93:12: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
     93 |     strncpy(s, s_, sizeof(s));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:41:12: warning: ‘strncpy’ specified bound 4 equals destination size [-Wstringop-truncation]
     41 |     strncpy(s, name, sizeof(halfkey_t));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:41:12: warning: ‘strncpy’ specified bound 4 equals destination size [-Wstringop-truncation]
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:93:12: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
     93 |     strncpy(s, s_, sizeof(s));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:41:12: warning: ‘strncpy’ specified bound 4 equals destination size [-Wstringop-truncation]
     41 |     strncpy(s, name, sizeof(halfkey_t));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:93:12: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
     93 |     strncpy(s, s_, sizeof(s));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h: In member function ‘bond_dict_t::get(PyMOLGlobals*, char const*, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:93:12: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
  [ 63%] Building CXX object CMakeFiles/_cmd.dir/layer2/MmtfMoleculeReader.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/MmtfMoleculeReader.cpp.o -MF CMakeFiles/_cmd.dir/layer2/MmtfMoleculeReader.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/MmtfMoleculeReader.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp
  [ 64%] Building CXX object CMakeFiles/_cmd.dir/layer2/Mol2Typing.cpp.o
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp: In function ‘int ObjectMoleculeAddSeleHydrogensRefactored(ObjectMolecule*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp:286:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
    286 |   for (unsigned atm = 0; atm < n_atom_old; atm++) {
        |                          ~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp:304:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
    304 |   for (unsigned atm = 0; atm < n_atom_old; ++atm) {
        |                          ~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp:352:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
    352 |     for (unsigned idx = 0; idx < cs->NIndex; ++idx) {
        |                            ~~~~^~~~~~~~~~~~
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/Mol2Typing.cpp.o -MF CMakeFiles/_cmd.dir/layer2/Mol2Typing.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/Mol2Typing.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/Mol2Typing.cpp
  [ 64%] Building CXX object CMakeFiles/_cmd.dir/layer2/MolV3000.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/MolV3000.cpp.o -MF CMakeFiles/_cmd.dir/layer2/MolV3000.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/MolV3000.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MolV3000.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp: In function ‘ObjectMolecule* ObjectMoleculeReadMmtfStr(PyMOLGlobals*, ObjectMolecule*, const char*, int, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp:183:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    183 |   for (int entityIndex = 0; entityIndex < container->entityListCount; ++entityIndex) {
        |                             ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp:186:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    186 |     for (int i = 0; i < entity->chainIndexListCount; ++i) {
        |                     ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp:240:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
    240 |         for (int l = 0, offset = atomIndex; l < group->bondAtomListCount / 2; ++l) {
        |                                             ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp:304:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    304 |   for (int l = 0; l < container->bondAtomListCount / 2; ++l) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 65%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectAlignment.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectAlignment.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectAlignment.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectAlignment.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp
  [ 65%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectCGO.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectCGO.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectCGO.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectCGO.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp
  [ 65%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectCallback.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectCallback.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectCallback.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectCallback.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCallback.cpp
  [ 66%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectCurve.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectCurve.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectCurve.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectCurve.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘PyObject* ObjectCGOAllStatesAsPyList(ObjectCGO*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:54:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     54 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘int ObjectCGOAllStatesFromPyList(ObjectCGO*, PyObject*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:105:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    105 |     for(a = 0; a < I->State.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In member function ‘virtual void ObjectCGO::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:206:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    206 |     if((state >= 0) && (state < I->State.size())) {
        |                         ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In member function ‘virtual void ObjectCGO::render(RenderInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:503:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
    503 |         if (!ray)
        |         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:505:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
    505 |           ObjectCGORenderState(G, pass, ray, I, info, sobj, color, ramp, use_shader, cgo_lighting);
        |           ^~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h: In copy constructor ‘ObjectCGOState::ObjectCGOState(const ObjectCGOState&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h:28:17: warning: ‘ObjectCGOState::G’ will be initialized after [-Wreorder]
     28 |   PyMOLGlobals* G;
        |                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h:27:25: warning:   ‘pymol::cache_ptr<CGO> ObjectCGOState::renderCGO’ [-Wreorder]
     27 |   pymol::cache_ptr<CGO> renderCGO;
        |                         ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:532:1: warning:   when initialized here [-Wreorder]
    532 | ObjectCGOState::ObjectCGOState(const ObjectCGOState& other)
        | ^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h:29:58: warning: ‘ObjectCGOState::hasOpaque’ will be initialized after [-Wreorder]
     29 |   bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque;
        |                                                          ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h:29:44: warning:   ‘bool ObjectCGOState::cgo_lighting’ [-Wreorder]
     29 |   bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque;
        |                                            ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:532:1: warning:   when initialized here [-Wreorder]
    532 | ObjectCGOState::ObjectCGOState(const ObjectCGOState& other)
        | ^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGOFromCGO(PyMOLGlobals*, ObjectCGO*, CGO*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:617:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    617 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCallback.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGODefine(PyMOLGlobals*, ObjectCGO*, PyObject*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:682:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    682 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:665:7: warning: variable ‘size_n’ set but not used [-Wunused-but-set-variable]
    665 |   int size_n;
        |       ^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGOFromFloatArray(PyMOLGlobals*, ObjectCGO*, float*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:740:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    740 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:6:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In member function ‘void ObjectCurveState::updateRawCGO()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:93:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSplinePoint>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     93 |   for (int i = 1; i < bezierPoints.size(); ++i) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:103:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSplinePoint>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    103 |   for (int i = 0; i < bezierPoints.size(); ++i) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:120:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSplinePoint>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    120 |     if (i != bezierPoints.size() - 1) {
        |         ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In member function ‘virtual void ObjectCurve::render(RenderInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:230:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCurveState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    230 |     if (state >= m_states.size()) {
        |         ~~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In function ‘PyObject* BezierSplineAsPyList(const pymol::BezierSpline&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:406:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSplinePoint>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    406 |   for (int i = 0; i < bezPts.size(); i++) {
        |                   ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In member function ‘PyObject* ObjectCurveState::asPyList() const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:415:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSpline>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    415 |   for (int i = 0; i < splines.size(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In member function ‘PyObject* ObjectCurve::statesAsPyList() const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:425:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCurveState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    425 |   for (int a = 0; a < m_states.size(); a++) {
        |                   ~~^~~~~~~~~~~~~~~~~
  [ 66%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectDist.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectDist.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectDist.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectDist.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:41:13: warning: ‘void ValidateCGO(CGO&, const ObjectCurveState&, float)’ defined but not used [-Wunused-function]
     41 | static void ValidateCGO(
        |             ^~~~~~~~~~~
  [ 67%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectGadget.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectGadget.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectGadget.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectGadget.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGadget.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp: In member function ‘ObjectAlignment::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp:975:25: warning: ‘MEM[(float *)&first]’ may be used uninitialized [-Wmaybe-uninitialized]
    975 |                   float first[3];
        |                         ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp:975:25: warning: ‘MEM[(float *)&first + 4B]’ may be used uninitialized [-Wmaybe-uninitialized]
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘int ObjectDistMoveWithObject(ObjectDist*, ObjectMolecule*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:111:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    111 |   for (int i=0; i<I->DSet.size(); i++) {
        |                 ~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘void ObjectDistUpdateExtents(ObjectDist*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:136:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    136 |   for(int a = 0; a < I->DSet.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘PyObject* ObjectDistDSetAsPyList(ObjectDist*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:148:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    148 |   for(int a = 0; a < I->DSet.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘int ObjectDistDSetFromPyList(ObjectDist*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:165:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    165 |     for(int a = 0; a < I->DSet.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In member function ‘virtual void ObjectDist::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:241:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    241 |   for(int a = 0; a < I->DSet.size(); a++)
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘void ObjectDistInvalidateRep(ObjectDist*, cRep_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:257:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    257 |   for(a = 0; a < I->DSet.size(); a++)
        |              ~~^~~~~~~~~~~~~~~~
  [ 67%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectGadgetRamp.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectGadgetRamp.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectGadgetRamp.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectGadgetRamp.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGadgetRamp.cpp
  [ 67%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectGroup.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectGroup.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectGroup.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectGroup.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGroup.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGadget.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 68%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMap.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMap.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMap.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMap.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGadgetRamp.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 68%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMesh.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMesh.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMesh.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMesh.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp
  [ 68%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMolecule.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMolecule.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMolecule.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMolecule.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:36:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 69%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMolecule2.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMolecule2.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMolecule2.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMolecule2.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapValidXtal(ObjectMap*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:134:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    134 |   if((state >= 0) && (state < I->State.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapTrim(ObjectMap*, int, float*, float*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:915:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    915 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
        |                              ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapDouble(ObjectMap*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:932:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    932 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
        |                              ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapHalve(ObjectMap*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:947:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    947 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
        |                              ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘void ObjectMapRegeneratePoints(ObjectMap*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1190:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1190 |   for (i=0; i<om->State.size();i++){
        |             ~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘PyObject* ObjectMapAllStatesAsPyList(ObjectMap*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1280:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1280 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapAllStatesFromPyList(ObjectMap*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1438:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1438 |     for(a = 0; a < I->State.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapNewCopy(PyMOLGlobals*, const ObjectMap*, ObjectMap**, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1510:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1510 |       for(state = 0; state < src->State.size(); state++) {
        |                      ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1519:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1519 |       if(source_state < src->State.size()) {
        |          ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapState* ObjectMapStatePrime(ObjectMap*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1536:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1536 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘void ObjectMapUpdateExtents(ObjectMap*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1549:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1549 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In member function ‘virtual void ObjectMap::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1675:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1675 |     for(a = 0; a < I->State.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapCCP4StrToMap(ObjectMap*, char*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2298:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
   2298 |   if(bytes < 256 * sizeof(int)) {
        |      ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2308:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2308 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2943:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2943 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapXPLORStrToMap(ObjectMap*, char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3217:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   3217 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapFLDStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3438:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   3438 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapBRIXStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3767:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   3767 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4173:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   4173 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadCCP4(PyMOLGlobals*, ObjectMap*, const char*, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4695:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4695 |       if(state < I->State.size()) {
        |          ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapACNTStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5246:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   5246 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadXPLOR(PyMOLGlobals*, ObjectMap*, const char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5558:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   5558 |         if(state < I->State.size()) {
        |            ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadChemPyBrick(PyMOLGlobals*, ObjectMap*, PyObject*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5713:24: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   5713 |     if(I->State.size() <= state) {
        |        ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadChemPyMap(PyMOLGlobals*, ObjectMap*, PyObject*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5811:24: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   5811 |     if(I->State.size() <= state) {
        |        ~~~~~~~~~~~~~~~~^~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:33:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘int ObjectMoleculeFillOpenValences(ObjectMolecule*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:3549:14: warning: comparison of integer expressions of different signedness: ‘const unsigned int’ and ‘signed char’ [-Wsign-compare]
   3549 |       if((nn >= ai->valence) || (!flag))
        |           ~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘pymol::Result<> ObjectMoleculeAddBondByIndices(ObjectMolecule*, unsigned int, unsigned int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:4346:12: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   4346 |   if (atm1 >= I->NAtom || atm2 >= I->NAtom) {
        |       ~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:4346:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   4346 |   if (atm1 >= I->NAtom || atm2 >= I->NAtom) {
        |                           ~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In member function ‘bool ObjectMolecule::atomHasAnyCoordinates(size_t) const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:11774:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
  11774 |   for (size_t i = 0; i < NCSet; ++i) {
        |                      ~~^~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:43:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp: In function ‘bool ObjectMoleculeConnect(ObjectMolecule*, int&, pymol::vla<BondType>&, CoordSet*, int, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3764:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   3764 |     for (unsigned i = 0; i < cs->NIndex; ++i) {
        |                          ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3793:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
   3793 |         if (i <= j && !symop)
        |             ~~^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp: In function ‘bool ObjectMoleculeConnect(ObjectMolecule*, int&, pymol::vla<BondType>&, CoordSet*, int, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3898:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   3898 |       for (unsigned i = 0; i < cs->NIndex; ++i) {
        |                            ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3914:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   3914 |     for (unsigned a = 0; a < cs->NTmpBond; ++a) {
        |                          ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3964:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   3964 |     for (unsigned a = 0; a < cs->NTmpLinkBond; ++a) {
        |                          ~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp: In member function ‘ObjectMesh::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:508:39: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=]
    508 |         "ObjectMeshUpdate-Error: map '%s' has been deleted.\n",
        |                                       ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:541:38: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=]
    541 |             " ObjectMesh: updating \"%s\".\n", I->Name ENDFB(G);
        |                                      ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp: In function ‘ObjectMeshDump(ObjectMesh*, char const*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:333:25: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=]
    333 |       " ObjectMeshDump: %s written to %s\n", I->Name, fname ENDFB(I->G);
        |                         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  [ 69%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMolecule3.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMolecule3.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMolecule3.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMolecule3.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule3.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeMOLStr2CoordSet(PyMOLGlobals*, char const*, AtomInfoType**, char const**) [clone .constprop.0]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:7597:37: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 224 [-Wformat-truncation=]
   7597 |     " ObjMolMOLStr2CoordSet: title '%s'\n", nameTmp ENDFB(G)
        |                                     ^~      ~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:49:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:7645:16: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation]
   7645 |         strncpy(atInfo[a].elem, cc, cElemNameLen);
        |         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapDump(ObjectMap const*, char const*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5984:24: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 239 [-Wformat-truncation=]
   5984 |       " ObjectMapDump: %s written to %s\n", om->Name, fname ENDFB(om->G);
        |                        ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/python3.13/Python.h:37,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:21:
  In function ‘snprintf’,
      inlined from ‘ObjectMapDump(ObjectMap const*, char const*, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5983:5:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output 30 or more bytes (assuming 285) into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule3.cpp: In function ‘std::vector<int> ObjectMoleculeGetMolMappingVec(const ObjectMolecule&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                      ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule3.cpp: In function ‘void ObjectMoleculePBCUnwrap(ObjectMolecule&, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                              ~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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:970,
                   from /usr/include/python3.13/Python.h:37,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:24:
  In function ‘snprintf’,
      inlined from ‘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)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:334:7:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 26 and 291 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeLoadRSTFile(PyMOLGlobals*, ObjectMolecule*, char const*, int, int, char)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:1407:10: warning: ‘buffer’ may be used uninitialized [-Wmaybe-uninitialized]
   1407 |     mfree(buffer);
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:1304:9: note: ‘buffer’ was declared here
   1304 |   char *buffer, *p;
        |         ^~~~~~
  [ 70%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectSlice.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectSlice.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectSlice.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectSlice.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In member function ‘ObjectMolecule::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:10623:82: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=]
  10623 |               " ObjectMolecule-DEBUG: updating representations for state %d of \"%s\".\n",
        |                                                                                  ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  [ 70%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectSurface.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectSurface.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectSurface.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectSurface.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4291:18: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=]
   4291 |     " ObjectMap: %s\n", cc ENDFB(I->G);
        |                  ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4290:3:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4291:18: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=]
   4291 |     " ObjectMap: %s\n", cc ENDFB(I->G);
        |                  ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4290:3:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, float const*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:10749:43: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=]
  10749 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
        |                                           ^~
  10750 |               buffer, v[0], v[1], v[2], state + 1, mode, 0);
        |               ~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:10749:21: note: directive argument in the range [-2147483647, 2147483647]
  10749 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:10749:14: note: ‘sprintf’ output between 78 and 2036 bytes into a destination of size 1024
  10749 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
        |       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  10750 |               buffer, v[0], v[1], v[2], state + 1, mode, 0);
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:33:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘PyObject* ObjectSliceAllStatesAsPyList(ObjectSlice*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:78:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     78 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:210:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    210 |   for(a = 0; a < State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:633:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    633 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘void ObjectSliceDrag(ObjectSlice*, int, int, float*, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:679:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    679 |     if(state < I->State.size())
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘int ObjectSliceGetVertex(ObjectSlice*, int, int, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:750:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    750 |     if(state < I->State.size())
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::render(RenderInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:925:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    925 |       if(state < I->State.size())
        |          ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:967:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    967 |         if(cur_state >= I->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:981:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    981 |     if(state < I->State.size())
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:1226:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1226 |     if(cur_state >= I->State.size())
        |        ~~~~~~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘ObjectSliceState* ObjectSliceStateGetActive(ObjectSlice*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:1244:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1244 |     if(state < I->State.size()) {
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘ObjectSlice* ObjectSliceFromMap(PyMOLGlobals*, ObjectSlice*, ObjectMap*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:1285:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1285 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘void ObjectSliceRecomputeExtent(ObjectSlice*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:1362:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1362 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2962:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
   2962 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
        |                      ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2961:5,
      inlined from ‘ObjectMapReadPHIStr(PyMOLGlobals*, ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4804:25,
      inlined from ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4836:28:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2971:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
   2971 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
        |                      ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2970:5,
      inlined from ‘ObjectMapReadPHIStr(PyMOLGlobals*, ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4804:25,
      inlined from ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4836:28:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2977:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
   2977 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
        |                      ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2976:5,
      inlined from ‘ObjectMapReadPHIStr(PyMOLGlobals*, ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4804:25,
      inlined from ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4836:28:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3059:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
   3059 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
        |                      ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3058:5,
      inlined from ‘ObjectMapReadPHIStr(PyMOLGlobals*, ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4804:25,
      inlined from ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4836:28:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:35:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:8569:43:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:2916:16: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation]
   2916 |         strncpy(ai->elem, cc, cElemNameLen);
        |         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘PyObject* ObjectSurfaceAllStatesAsPyList(ObjectSurface*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:84:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     84 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘void ObjectSurfaceDump(ObjectSurface*, const char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:237:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    237 |     if(state < I->State.size()) {
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In member function ‘virtual void ObjectSurface::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:282:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    282 |     for(int a = 0; a < I->State.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘int ObjectSurfaceInvalidateMapName(ObjectSurface*, const char*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:312:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    312 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘ObjectSurface* ObjectSurfaceFromBox(PyMOLGlobals*, ObjectSurface*, ObjectMap*, int, int, float*, float*, float, cIsosurfaceMode, float, pymol::vla<float>&&, cIsosurfaceSide, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:1042:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1042 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘int ObjectSurfaceSetLevel(ObjectSurface*, float, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:1138:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1138 |     for(int a = 0; a < I->State.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In member function ‘ObjectSlice::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:44:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                                       ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  [ 70%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectVolume.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectVolume.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectVolume.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectVolume.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp
  [ 71%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepAngle.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepAngle.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepAngle.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepAngle.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepAngle.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘ObjectSurfaceDump(ObjectSurface*, char const*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:269:30: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
    269 |         " ObjectSurfaceDump: %s written to %s\n", I->Name, fname ENDFB(I->G);
        |                              ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:45:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In member function ‘ObjectSurface::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:494:43: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=]
    494 |               " ObjectSurface: updating \"%s\".\n", I->Name ENDFB(I->G);
        |                                           ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘PyObject* ObjectVolumeAllStatesAsPyList(ObjectVolume*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:133:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    133 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘int ObjectVolumeAllStatesFromPyList(ObjectVolume*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:254:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    254 |     for(int a = 0; a < I->State.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘int ObjectVolumeInvalidateMapName(ObjectVolume*, const char*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:319:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    319 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:347:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    347 |     for(a = 0; a < I->State.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:408:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    408 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:446:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<float>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    446 |         for (i = 0; i < vs->Ramp.size(); i += 5) {
        |                     ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::render(RenderInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:765:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    765 |   for(a = 0; a < I->State.size(); ++a) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘ObjectVolume* ObjectVolumeFromXtalSym(PyMOLGlobals*, ObjectVolume*, ObjectMap*, CSymmetry*, int, int, float*, float*, float, int, float, float*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:1125:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1125 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘void ObjectVolumeRecomputeExtent(ObjectVolume*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:1226:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1226 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepAngle.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 71%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepCartoon.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepCartoon.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepCartoon.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepCartoon.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:663:15: warning: ‘size_t createPreintegrationTexture(PyMOLGlobals*, const float*, int)’ defined but not used [-Wunused-function]
    663 | static size_t createPreintegrationTexture(PyMOLGlobals * G, const float *Table, const int count)
        |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 72%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepCylBond.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepCylBond.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepCylBond.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepCylBond.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCylBond.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘ObjectVolumeStateGetMapState(ObjectVolumeState*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:80:33: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=]
     80 |       "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName
        |                                 ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/python3.13/Python.h:37,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:20:
  In function ‘snprintf’,
      inlined from ‘ObjectVolumeStateGetMapState(ObjectVolumeState*)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:79:5:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 46 and 301 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp: In function ‘Rep* RepCartoonNew(CoordSet*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:3746:11: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class CCInOut’; use assignment or value-initialization instead [-Wclass-memaccess]
   3746 |     memset(car,      0, sizeof(*car)      * nAtIndex);
        |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:45:7: note: ‘class CCInOut’ declared here
     45 | class CCInOut {
        |       ^~~~~~~
  [ 72%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepDihedral.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepDihedral.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepDihedral.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepDihedral.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDihedral.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCylBond.cpp:32:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:29:
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:338:23:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.h:25,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.h:25,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:36:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:339:23:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDihedral.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 72%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepDistDash.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepDistDash.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepDistDash.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepDistDash.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDistDash.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:1008:75: warning: ‘i’ may be used uninitialized [-Wmaybe-uninitialized]
   1008 |                     float ladder_alpha = 1.0f - AtomSettingGetWD(G, ai_i[i], cSetting_cartoon_transparency, 1.0f - alpha);
        |                                                                     ~~~~~~^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:462:11: note: ‘i’ was declared here
    462 |       int i;
        |           ^
  [ 73%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepDistLabel.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepDistLabel.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepDistLabel.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepDistLabel.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDistLabel.cpp
  [ 73%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepDot.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepDot.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepDot.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepDot.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDistDash.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDistLabel.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp:32:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 73%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepEllipsoid.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepEllipsoid.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepEllipsoid.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepEllipsoid.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepEllipsoid.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.h:22,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.h:21,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp: In function ‘RepDotDoNew(CoordSet*, cRepDot_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp:463:46: warning: ‘vn’ may be used uninitialized [-Wmaybe-uninitialized]
    463 |     I->VN = ReallocForSure(I->VN, float, (vn - I->VN));
        |                                           ~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp:263:14: note: ‘vn’ was declared here
    263 |   float *v, *vn;
        |              ^~
  [ 74%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepLabel.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepLabel.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepLabel.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepLabel.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepLabel.cpp
  [ 74%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepMesh.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepMesh.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepMesh.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepMesh.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp
  [ 75%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepNonbonded.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepNonbonded.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepNonbonded.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepNonbonded.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepNonbonded.cpp
  [ 75%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepNonbondedSphere.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepNonbondedSphere.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepNonbondedSphere.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepNonbondedSphere.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepNonbondedSphere.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepLabel.cpp:31:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepNonbonded.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 75%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepRibbon.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepRibbon.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepRibbon.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepRibbon.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepNonbondedSphere.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /usr/include/c++/15/memory:80,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:23,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp:17:
  In member function ‘std::unique_ptr<CField, std::default_delete<CField> >::~unique_ptr()’,
      inlined from ‘pymol::cache_ptr<CField, std::default_delete<CField> >::~cache_ptr()’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/pymol/memory.h:47:7,
      inlined from ‘Isofield::~Isofield()’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Isosurf.h:30:8,
      inlined from ‘RepMeshNew(CoordSet*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp:1063:5:
  /usr/include/c++/15/bits/unique_ptr.h:398:19: warning: ‘field’ may be used uninitialized [-Wmaybe-uninitialized]
    398 |         if (__ptr != nullptr)
        |             ~~~~~~^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp: In function ‘RepMeshNew(CoordSet*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp:725:13: note: ‘field’ was declared here
    725 |   Isofield *field;
        |             ^~~~~
  [ 76%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphere.cpp
  [ 76%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphereGenerate.cpp
  [ 77%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphereImmediate.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp: In function ‘RepRibbonNew(CoordSet*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp:422:15: warning: ‘MEM <vector(2) float> [(float *)_700]’ may be used uninitialized [-Wmaybe-uninitialized]
    422 |     *(v1++) = *(v++);           /* first segment */
        |               ^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp:424:15: warning: ‘MEM[(float *)_700 + 8B]’ may be used uninitialized [-Wmaybe-uninitialized]
    424 |     *(v1++) = *(v++);
        |               ^~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphere.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphereImmediate.cpp:20:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphereGenerate.cpp:20:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 77%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp
  [ 77%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepWireBond.cpp
  [ 78%] Building CXX object CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o -MF CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/Sculpt.cpp
  [ 78%] Building CXX object CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o -MF CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SculptCache.cpp
  [ 78%] Building CXX object CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o -MF CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp:35:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp: In function ‘void RepSurfaceSmoothEdges(RepSurface*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp:4701:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4701 |     for (auto j = 0; j < edges[i].size(); j += 3) {
        |                      ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp:4713:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4713 |     for (auto j = 0; j < edges[i].size(); j += 3) {
        |                      ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp:4724:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4724 |     for (auto i = 0; i < unique_edges.size(); i += 2) {
        |                      ~~^~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/Sculpt.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepWireBond.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:25,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.h:24,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.h:9,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:10:
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:57:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.h:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:55:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:49:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:47:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  [ 79%] Building CXX object CMakeFiles/_cmd.dir/layer2/VFont.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/VFont.cpp.o -MF CMakeFiles/_cmd.dir/layer2/VFont.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/VFont.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/VFont.cpp
  [ 79%] Building CXX object CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o -MF CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp
  [ 80%] Building CXX object CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o -MF CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/CifDataValueFormatter.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp: In member function ‘virtual bool SeleAtomIterator::next()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp:65:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     65 |   while ((++a) < I->Table.size()) {
        |          ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp: In member function ‘virtual bool SeleCoordIterator::next()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp:133:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    133 |   for (a++; a < I->Table.size(); a++) {
        |             ~~^~~~~~~~~~~~~~~~~
  [ 80%] Building CXX object CMakeFiles/_cmd.dir/layer3/Editor.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Editor.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Editor.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Editor.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp
  [ 80%] Building CXX object CMakeFiles/_cmd.dir/layer3/Executive.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Executive.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Executive.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Executive.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp
  [ 81%] Building CXX object CMakeFiles/_cmd.dir/layer3/ExecutivePython.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/ExecutivePython.cpp.o -MF CMakeFiles/_cmd.dir/layer3/ExecutivePython.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/ExecutivePython.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/ExecutivePython.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp: In function ‘pymol::Result<> EditorSelect(PyMOLGlobals*, const char*, const char*, const char*, const char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:778:7: warning: variable ‘result’ set but not used [-Wunused-but-set-variable]
    778 |   int result = false;
        |       ^~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsosurfaceEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:990:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    990 |         if(map_state >= mapObj->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/ExecutivePython.cpp:1:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsomeshEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, float)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:1136:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1136 |         if(map_state >= mapObj->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveVolume(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:1309:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1309 |         if(map_state >= mapObj->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/ExecutivePython.cpp: In function ‘pymol::Result<> ExecutiveSetRawAlignment(PyMOLGlobals*, pymol::zstring_view, PyObject*, pymol::zstring_view, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                     ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                       ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSmooth(PyMOLGlobals*, const char*, int, int, int, int, int, int, float, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:6186:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare]
   6186 |       for (int c = 0; c < n_atom; ++c) {
        |                       ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveMapSet(PyMOLGlobals*, const char*, int, const char*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:6356:34: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   6356 |             if(obj->State.size() > max_n_state)
        |                ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:6467:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6467 |                     if(src_state < obj->State.size()) {
        |                        ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘void ExecutiveRenderSelectionsFromTargets(PyMOLGlobals*, bool, int, int, int, GridInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:8341:33: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
   8341 |         if (I->selIndicatorsCGO = optimized) {
        |             ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘float ExecutiveRMSPairs(PyMOLGlobals*, const std::vector<SelectorTmp>&, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11154:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  11154 |   for(a = 0; a < pairs; a++) {
        |              ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11159:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  11159 |     if(a < (pairs - 1))
        |        ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveColor(PyMOLGlobals*, const char*, const char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12528:7: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable]
  12528 |   int ok = false;
        |       ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘void ExecutiveSymExp(PyMOLGlobals*, const char*, const char*, const char*, float, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14196:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  14196 |             for (unsigned idx = 0; idx < cs->NIndex; ++idx) {
        |                                    ~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14223:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  14223 |             for (unsigned atm = 0; atm < new_obj->NAtom; ++atm) {
        |                                    ~~~~^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:52:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:100:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
    100 |         else \
        |         ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
    141 |    ListDetach(List,copy,Link,ElemType); \
        |    ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14324:7: note: in expansion of macro ‘ListDelete’
  14324 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
        |       ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 = nullptr; \
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
    141 |    ListDetach(List,copy,Link,ElemType); \
        |    ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14324:7: note: in expansion of macro ‘ListDelete’
  14324 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
        |       ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:100:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
    100 |         else \
        |         ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
    141 |    ListDetach(List,copy,Link,ElemType); \
        |    ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14336:7: note: in expansion of macro ‘ListDelete’
  14336 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
        |       ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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 = nullptr; \
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
    141 |    ListDetach(List,copy,Link,ElemType); \
        |    ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14336:7: note: in expansion of macro ‘ListDelete’
  14336 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
        |       ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In member function ‘virtual int CExecutive::click(int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15027:68: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15027 |               if(((panel->is_group) && (((xx) - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
        |                                        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15028:69: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15028 |                  ((!panel->is_group) && (((xx) - 1) / DIP2PIXEL(8)) > panel->nest_level)) {
        |                                         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In member function ‘virtual int CExecutive::release(int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15316:65: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15316 |                (((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
        |                                       ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15317:66: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15317 |                 ((!panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > panel->nest_level))) {
        |                                        ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In member function ‘virtual int CExecutive::drag(int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15458:70: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15458 |                   if(((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
        |                                            ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15459:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15459 |                      ((!panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > panel->nest_level)) {
        |                                             ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15494:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15494 |                   if(!((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1))) {
        |                                             ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘void ExecutiveFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CExecutive’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:16446:3: note: in expansion of macro ‘DeleteP’
  16446 |   DeleteP(G->Executive);
        |   ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSliceNew(PyMOLGlobals*, const char*, const char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:16757:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  16757 |         if(map_state >= mapObj->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In instantiation of ‘ExecutiveUpdateObjectsImpl(PyMOLGlobals*, const pymol::CObject&, std::unordered_set<const pymol::CObject*>&)::<lambda(const auto:3&, const auto:4&)> [with auto:3 = ObjectMolecule*; auto:4 = const ObjectDist*]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17125:27:   required from here
  17125 |         if (is_mol_in_dist(mol, measure)) {
        |             ~~~~~~~~~~~~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17107:21: warning: loop variable ‘ds’ creates a copy from type ‘const pymol::copyable_ptr<DistSet>’ [-Wrange-loop-construct]
  17107 |     for (const auto ds : dist->DSet) {
        |                     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17107:21: note: use reference type to prevent copying
  17107 |     for (const auto ds : dist->DSet) {
        |                     ^~
        |                     &
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In instantiation of ‘ExecutiveUpdateObjectsImpl(PyMOLGlobals*, const pymol::CObject&, std::unordered_set<const pymol::CObject*>&)::<lambda(const auto:3&, const auto:4&)> [with auto:3 = const ObjectMolecule*; auto:4 = ObjectDist*]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17134:27:   required from here
  17134 |         if (is_mol_in_dist(mol, measure)) {
        |             ~~~~~~~~~~~~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17107:21: warning: loop variable ‘ds’ creates a copy from type ‘const pymol::copyable_ptr<DistSet>’ [-Wrange-loop-construct]
  17107 |     for (const auto ds : dist->DSet) {
        |                     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17107:21: note: use reference type to prevent copying
  17107 |     for (const auto ds : dist->DSet) {
        |                     ^~
        |                     &
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:39:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h: In instantiation of ‘pymol::TrackerAdapter<T>::TrackerAdapterIterator<IsConst>::TrackerAdapterIterator(CTracker*, int) [with bool IsConst = false; T = SpecRec]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h:99:29:   required from ‘pymol::TrackerAdapter<T>::iterator pymol::TrackerAdapter<T>::begin() [with T = SpecRec; iterator = pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>]’
     99 |   iterator begin() { return iterator(m_tracker, m_list_id); }
        |                             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:204:62:   required from here
    204 |   for (auto& rec : ExecutiveGetSpecRecsFromPattern(G, pattern)) {
        |                                                              ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h:80:15: warning: ‘pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>::m_tracker’ will be initialized after [-Wreorder]
     80 |     CTracker* m_tracker;
        |               ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h:79:9: warning:   ‘int pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>::m_iter_id’ [-Wreorder]
     79 |     int m_iter_id = -1;
        |         ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h:35:14: warning:   when initialized here [-Wreorder]
     35 |     explicit TrackerAdapterIterator(CTracker* tracker, int list_id)
        |              ^~~~~~~~~~~~~~~~~~~~~~
  [ 81%] Building CXX object CMakeFiles/_cmd.dir/layer3/Interactions.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Interactions.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Interactions.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Interactions.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Interactions.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp: In function ‘EditorPrepareDrag(PyMOLGlobals*, pymol::CObject*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:1935:29: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=]
   1935 |         " Editor: grabbing (%s).", name ENDFB(G);
        |                             ^~     ~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:27,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Result.h: In constructor ‘pymol::Result<ResultT>::Result(type) [with ResultT = std::pair<float, float>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Result.h:99:3: note: parameter passing for argument of type ‘std::pair<float, float>’ when C++17 is enabled changed to match C++14 in GCC 10.1
     99 |   Result(type r) : m_result(std::move(r)) {}
        |   ^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp: In function ‘EditorDefineExtraPks(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:337:29: warning: ‘%s’ directive writing up to 255 bytes into a region of size 249 [-Wformat-overflow=]
    337 |     sprintf(buffer, "(byres %s)", name);
        |                             ^~    ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:337:12: note: ‘sprintf’ output between 9 and 264 bytes into a destination of size 256
    337 |     sprintf(buffer, "(byres %s)", name);
        |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:339:31: warning: ‘%s’ directive writing up to 255 bytes into a region of size 247 [-Wformat-overflow=]
    339 |     sprintf(buffer, "(bychain %s)", name);
        |                               ^~    ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:339:12: note: ‘sprintf’ output between 11 and 266 bytes into a destination of size 256
    339 |     sprintf(buffer, "(bychain %s)", name);
        |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:341:32: warning: ‘%s’ directive writing up to 255 bytes into a region of size 246 [-Wformat-overflow=]
    341 |     sprintf(buffer, "(byobject %s)", name);
        |                                ^~    ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:341:12: note: ‘sprintf’ output between 12 and 267 bytes into a destination of size 256
    341 |     sprintf(buffer, "(byobject %s)", name);
        |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 81%] Building CXX object CMakeFiles/_cmd.dir/layer3/MaeExportHelpers.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/MaeExportHelpers.cpp.o -MF CMakeFiles/_cmd.dir/layer3/MaeExportHelpers.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/MaeExportHelpers.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Interactions.cpp: In function ‘int pymol::PrepareNeighborTables(PyMOLGlobals*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Interactions.cpp:708:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    708 |   for (int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                              ~~^~~~~~~~~~~~~~~~~
  [ 82%] Building CXX object CMakeFiles/_cmd.dir/layer3/MoleculeExporter.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/MoleculeExporter.cpp.o -MF CMakeFiles/_cmd.dir/layer3/MoleculeExporter.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/MoleculeExporter.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MoleculeExporter.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp:17:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:23,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp:11:
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SettingGet<bool>(PyMOLGlobals*, SeleCoordIterator const&, int)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp:26:26,
      inlined from ‘MaeExportGetAtomStyle(PyMOLGlobals*, SeleCoordIterator const&)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp:75:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘MaeExportGetAtomStyle(PyMOLGlobals*, SeleCoordIterator const&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  [ 82%] Building CXX object CMakeFiles/_cmd.dir/layer3/MovieScene.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/MovieScene.cpp.o -MF CMakeFiles/_cmd.dir/layer3/MovieScene.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/MovieScene.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MovieScene.cpp
  [ 83%] Building CXX object CMakeFiles/_cmd.dir/layer3/PlugIOManager.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/PlugIOManager.cpp.o -MF CMakeFiles/_cmd.dir/layer3/PlugIOManager.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/PlugIOManager.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MoleculeExporter.cpp:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Movie.h:24,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MovieScene.cpp:11:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In function ‘ExecutiveGetAdjustedSelectionWidth(PyMOLGlobals*, bool)’,
      inlined from ‘ExecutiveRenderSelections(PyMOLGlobals*, int, int, GridInfo*)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:8414:50:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:8192:36: warning: ‘width’ may be used uninitialized [-Wmaybe-uninitialized]
   8192 |     width = static_cast<int>(width * 1.44f);
        |                              ~~~~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveRenderSelections(PyMOLGlobals*, int, int, GridInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:8180:7: note: ‘width’ was declared here
   8180 |   int width;
        |       ^~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp: In function ‘ObjectMap* PlugIOManagerLoadVol(PyMOLGlobals*, ObjectMap*, const char*, int, int, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:411:34: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    411 |             if(obj->State.size() <= state) {
        |                ~~~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveRemoveAtoms(PyMOLGlobals*, char const*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:9120:58: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 207 and 217 [-Wformat-truncation=]
   9120 |                 " Remove: eliminated %d atoms in model \"%s\".\n",
        |                                                          ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:94:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetBondSettingFromString(PyMOLGlobals*, int, char const*, char const*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11551:28: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  11551 |                 " Setting: %s set for %d bonds in object \"%s\".\n",
        |                            ^~
  11552 |                 name, nSet, obj->Name ENDF(G);
        |                 ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11551:17: note: directive argument in the range [1, 2147483647]
  11551 |                 " Setting: %s set for %d bonds in object \"%s\".\n",
        |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveGetBondSetting(PyMOLGlobals*, int, char*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11632:26: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  11632 |               " Getting: %s for %d bonds in object \"%s\".\n",
        |                          ^~
  11633 |               name, nSet, obj->Name ENDF(G);
        |               ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11632:15: note: directive argument in the range [1, 2147483647]
  11632 |               " Getting: %s for %d bonds in object \"%s\".\n",
        |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetBondSetting(PyMOLGlobals*, int, _object*, char const*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11732:62: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 217 [-Wformat-truncation=]
  11732 |                   " Setting: %s set for %d bonds in object \"%s\".\n",
        |                                                              ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveUnsetBondSetting(PyMOLGlobals*, int, char const*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11811:26: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  11811 |               " Setting: %s unset for %d bonds in object \"%s\".\n",
        |                          ^~
  11812 |               name, nSet, rec->obj->Name ENDF(G);
        |               ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11811:15: note: directive argument in the range [1, 2147483647]
  11811 |               " Setting: %s unset for %d bonds in object \"%s\".\n",
        |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetObjSettingFromString(PyMOLGlobals*, int, char const*, pymol::CObject*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12353:30: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12353 |                   " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                              ^~
  12354 |                   name, value2, obj->Name, state + 1 ENDF(G);
        |                   ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12353:19: note: directive argument in the range [1, 2147483647]
  12353 |                   " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12345:30: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12345 |                   " Setting: %s set to %s in object \"%s\".\n",
        |                              ^~
  12346 |                   name, value2, obj->Name ENDF(G);
        |                   ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12324:29: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12324 |           PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G);
        |                             ^~                ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSettingFromString(PyMOLGlobals*, int, char const*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12256:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12256 |                         " Setting: %s set for %d atoms in object \"%s\".\n",
        |                                    ^~
  12257 |                         name, op.i4, rec->obj->Name ENDF(G);
        |                         ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12224:32: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12224 |                     " Setting: %s set to %s in %d objects, state %d.\n",
        |                                ^~
  12225 |                     name, value2, nObj, state + 1 ENDF(G);
        |                     ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12224:21: note: directive argument in the range [1, 2147483647]
  12224 |                     " Setting: %s set to %s in %d objects, state %d.\n",
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12224:21: note: directive argument in the range [1, 2147483647]
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12221:32: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12221 |                     " Setting: %s set to %s in %d objects.\n", name, value2, nObj ENDF(G);
        |                                ^~                              ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12221:21: note: directive argument in the range [1, 2147483647]
  12221 |                     " Setting: %s set to %s in %d objects.\n", name, value2, nObj ENDF(G);
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12288:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12288 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                                    ^~
  12289 |                         name, value2, rec->obj->Name, state + 1 ENDF(G);
        |                         ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12288:25: note: directive argument in the range [1, 2147483647]
  12288 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12280:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12280 |                         " Setting: %s set to %s in object \"%s\".\n",
        |                                    ^~
  12281 |                         name, value2, rec->obj->Name ENDF(G);
        |                         ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12184:29: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12184 |           PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G);
        |                             ^~                ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp: In function ‘PlugIOManagerLoad’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:941:65: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 200 [-Wformat-truncation=]
    941 |         " PlugIOManagerLoad: can't load trajectory into object '%s'\n", obj->Name ENDFB(G);
        |                                                                 ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/python3.13/Python.h:37,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:21:
  In function ‘snprintf’,
      inlined from ‘PlugIOManagerLoad’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:940:7:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 58 and 313 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  [ 83%] Building CXX object CMakeFiles/_cmd.dir/layer3/RingFinder.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/RingFinder.cpp.o -MF CMakeFiles/_cmd.dir/layer3/RingFinder.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/RingFinder.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/RingFinder.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSymmetry(PyMOLGlobals*, pymol::zstring_view, int, CSymmetry const&, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5973:46: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 199 [-Wformat-truncation=]
   5973 |       " %s-Warning: Cannot set symmetry for '%s' (type %s)\n", __func__,
        |                                              ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5982:43: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 202 [-Wformat-truncation=]
   5982 |       " %s-Details: Updated symmetry for '%s'\n", __func__, obj->Name ENDFB(G);
        |                                           ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5973:46: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 199 [-Wformat-truncation=]
   5973 |       " %s-Warning: Cannot set symmetry for '%s' (type %s)\n", __func__,
        |                                              ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/RingFinder.cpp: In member function ‘void AbstractRingFinder::recursion(int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/RingFinder.cpp:23:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     23 |     } else if (depth < m_indices.size() - 1) {
        |                ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
  [ 83%] Building CXX object CMakeFiles/_cmd.dir/layer3/Seeker.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Seeker.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Seeker.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Seeker.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveBond(PyMOLGlobals*, char const*, char const*, int, int, int, pymol::zstring_view)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:9484:67: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 200 and 210 [-Wformat-truncation=]
   9484 |                   " Valence: %d bond valences adjusted in model \"%s\".\n", cnt,
        |                                                                   ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:9496:59: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 218 [-Wformat-truncation=]
   9496 |                   " Unbond: %d bonds removed from model \"%s\".\n",
        |                                                           ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:9471:53: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 214 and 224 [-Wformat-truncation=]
   9471 |                   " Bond: %d bonds added to model \"%s\".\n", cnt, rec->obj->Name
        |                                                     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In function ‘void SeekerRefresh(PyMOLGlobals*, std::vector<CSeqRow>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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++) {
        |                  ~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In function ‘void SeekerUpdate(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |              ~~~~~~~~~^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |              ~~~~~~~~~^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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++){
        |                            ~~^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In function ‘void SeekerUpdate(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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)
        |              ~~~~~~~~~~~~~^~~~~~
  [ 84%] Building CXX object CMakeFiles/_cmd.dir/layer3/Selector.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Selector.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Selector.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Selector.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.h:21,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In function ‘void SeekerFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CSeeker’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:1964:3: note: in expansion of macro ‘DeleteP’
   1964 |   DeleteP(G->Seeker);
        |   ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSetting(PyMOLGlobals*, int, _object*, pymol::zstring_view, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12004:70: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 217 [-Wformat-truncation=]
  12004 |                           " Setting: %s set for %d atoms in object \"%s\".\n",
        |                                                                      ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11915:42: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  11915 |                     " Setting: %s set to %s in %d objects, state %d.\n",
        |                                          ^~
  11916 |                     name, value, nObj, state + 1 ENDF(G);
        |                           ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11915:21: note: directive argument in the range [1, 2147483647]
  11915 |                     " Setting: %s set to %s in %d objects, state %d.\n",
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11915:21: note: directive argument in the range [1, 2147483647]
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11912:42: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  11912 |                     " Setting: %s set to %s in %d objects.\n", name, value, nObj ENDF(G);
        |                                          ^~                          ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11912:21: note: directive argument in the range [1, 2147483647]
  11912 |                     " Setting: %s set to %s in %d objects.\n", name, value, nObj ENDF(G);
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12036:46: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  12036 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                                              ^~
  12037 |                         name, value, rec->obj->Name, state + 1 ENDF(G);
        |                               ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12036:25: note: directive argument in the range [1, 2147483647]
  12036 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12029:46: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  12029 |                         " Setting: %s set to %s in object \"%s\".\n",
        |                                              ^~
  12030 |                         name, value, rec->obj->Name ENDF(G);
        |                               ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11871:39: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  11871 |           PRINTF " Setting: %s set to %s.\n", name, value ENDF(G);
        |                                       ^~            ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveUnsetSetting(PyMOLGlobals*, int, pymol::zstring_view, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12465:68: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 215 [-Wformat-truncation=]
  12465 |                       " Setting: %s unset for %d atoms in object \"%s\".\n",
        |                                                                    ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12487:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=]
  12487 |                         " Setting: %s unset in object \"%s\", state %d.\n",
        |                                                         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12487:25: note: directive argument in the range [1, 2147483647]
  12487 |                         " Setting: %s unset in object \"%s\", state %d.\n",
        |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12481:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=]
  12481 |                         " Setting: %s unset in object \"%s\".\n",
        |                                                         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |                                                     ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:41:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In member function ‘virtual bool SelectorAtomIterator::next()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:180:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    180 |   if ((++a) >= selector->Table.size())
        |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘bool SelectorIsSelectionDiscrete(PyMOLGlobals*, SelectorID_t, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1023:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1023 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorClassifyAtoms(PyMOLGlobals*, int, int, ObjectMolecule*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1077:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1077 |   while(a < I->Table.size()) {
        |         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1101:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1101 |       while(a1 < I->Table.size()) {
        |             ~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘const char* SelectorGetNameFromIndex(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1514:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<SelectionInfoRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1514 |   for(int a = 1; a < I->Info.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1648:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1648 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1675:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1675 |             while(a1 < I->Table.size()) {
        |                   ~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1869:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1869 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                               ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘PyObject* SelectorColorectionGet(PyMOLGlobals*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2682:18: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2682 |     for(b = 0; b < n_used; b++) {
        |                ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2698:16: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2698 |   for(a = 0; a < n_used; a++) {
        |              ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2710:18: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2710 |     for(b = 0; b < n_used; b++) {
        |                ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorColorectionApply(PyMOLGlobals*, PyObject*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2758:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
   2758 |     for(b = 0; b < n_used; b++) {       /* update selection indices */
        |                ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2763:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   2763 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2767:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
   2767 |       for(b = 0; b < n_used; b++) {
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘PyObject* SelectorSecretsAsPyList(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2868:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<SelectionInfoRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   2868 |   for(int a = 0; a < I->Info.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘PyObject* SelectorAsPyList(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2947:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   2947 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorCountStates(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3441:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3441 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorCheckIntersection(PyMOLGlobals*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3465:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3465 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorCountAtoms(PyMOLGlobals*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3483:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3483 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘void SelectorSetDeleteFlagOnSelectionInObject(PyMOLGlobals*, int, ObjectMolecule*, signed char)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3498:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3498 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int* SelectorGetIndexVLAImpl(PyMOLGlobals*, CSelector*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3584:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3584 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘void SelectorLogSele(PyMOLGlobals*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3643:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3643 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘ObjectMolecule* SelectorGetSingleObjectMolecule(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3808:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3808 |   for (a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                          ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘ObjectMolecule* SelectorGetFirstObjectMolecule(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3838:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3838 |   for (a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                          ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘ObjectMolecule** SelectorGetObjectMoleculeVLA(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3862:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3862 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorSubdivide(PyMOLGlobals*, const char*, SelectorID_t, SelectorID_t, SelectorID_t, SelectorID_t, const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:4261:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4261 |       for(a = 0; a < I->Table.size(); a++)
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorGetSeleNCSet(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:4565:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4565 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorGetArrayNCSet(PyMOLGlobals*, const sele_array_t&, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:4595:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4595 |   for(a = start; a < I->Table.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorMapMaskVDW(PyMOLGlobals*, int, ObjectMapState*, float, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:4749:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4749 |   for(a = 0; a < I->Table.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorMapGaussian(PyMOLGlobals*, int, ObjectMapState*, float, int, int, int, int, float)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:5109:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   5109 |   for(a = 0; a < I->Table.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:5153:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   5153 |   for(a = 0; a < I->Table.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorMapCoulomb(PyMOLGlobals*, int, ObjectMapState*, float, int, int, int, float)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:5361:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   5361 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorCreateObjectMolecule(PyMOLGlobals*, SelectorID_t, const char*, int, int, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6050:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
   6050 |   if(ob)
        |   ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6054:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
   6054 |     SelectorUpdateTable(G, source, -1);
        |     ^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6065:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6065 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6091:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6091 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6121:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6121 |   for(a = cNDummyModels; a < I->Obj.size(); a++) {  /* find bonds wholly contained in the selection */
        |                          ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6147:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6147 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6188:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6188 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6212:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6212 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)  /* any selected atoms in this state? */
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorEmbedSelection(PyMOLGlobals*, const int*, pymol::zstring_view, ObjectMolecule*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6648:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6648 |   for(a = start; a < I->Table.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘sele_array_t SelectorSelectFromTagDict(PyMOLGlobals*, const std::unordered_map<int, int>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6743:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6743 |       for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                 ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorModulate1(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7281:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7281 |           for (a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7304:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7304 |                   for(a = 0; ok && a < I->Table.size(); a++) {
        |                                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7367:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7367 |       for(a = 0; a < I->Table.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7381:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7381 |           for(a = 0; a < I->Table.size(); a++) {
        |                      ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7404:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7404 |                   for(a = 0; ok && a < I->Table.size(); a++) {
        |                                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7445:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7445 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorSelect0(PyMOLGlobals*, EvalElem*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7478:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7478 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7489:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7489 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7494:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7494 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7501:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7501 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7505:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7505 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7509:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7509 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7513:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7513 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7517:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7517 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7526:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7526 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7543:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7543 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7548:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7548 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7553:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7553 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7558:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7558 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7563:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7563 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7568:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7568 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7573:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7573 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7577:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7577 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7581:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7581 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7586:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7586 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7591:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7591 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7598:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7598 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7614:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7614 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7620:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7620 |     for(a = 0; a < I->Table.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7629:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7629 |     for(a = 0; a < I->Table.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7641:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7641 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7661:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7661 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘pymol::Result<> SelectorSelect1(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8366:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8366 |           for(a = cNDummyModels; a < I->Obj.size(); a++)
        |                                  ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8376:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8376 |             else if(model > I->Obj.size())
        |                     ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorSelect2(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8458:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8458 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8462:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8462 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                               ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8510:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8510 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8521:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8521 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8532:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8532 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8543:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8543 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8558:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8558 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8569:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8569 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8580:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8580 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8591:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8591 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8606:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8606 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8617:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8617 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8628:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8628 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8639:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8639 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorLogic1(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9116:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9116 |           for(a = 0; a < I->Table.size(); a++) {
        |                      ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9145:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9145 |                   for(a = 0; a < I->Table.size(); a++) {
        |                              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorOperator22(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9404:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare]
   9404 |           for(a = 0; a < table_size; a++) {
        |                      ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9426:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9426 |                   for(a = 0; a < I->Table.size(); a++) {
        |                              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9456:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9456 |         for(a = 0; a < I->Table.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9461:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9461 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘pymol::Result<std::unique_ptr<int [], std::default_delete<int []> > > SelectorEvaluate(PyMOLGlobals*, std::vector<std::__cxx11::basic_string<char> >&, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9610:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9610 |   while(ok && c < word.size()) {
        |               ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘DistSet* SelectorGetDistSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, float, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10201:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10201 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘DistSet* SelectorGetAngleSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, int, int, float*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10483:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10483 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10507:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10507 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘DistSet* SelectorGetDihedralSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, int, int, int, int, float*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10712:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10712 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10789:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10789 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                               ~~^~~~~~~~~~~~~~~~~
  [ 84%] Building CXX object CMakeFiles/_cmd.dir/layer3/SelectorTmp.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/SelectorTmp.cpp.o -MF CMakeFiles/_cmd.dir/layer3/SelectorTmp.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/SelectorTmp.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/SelectorTmp.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSpectrum(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, float, float, int, int, pymol::zstring_view, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:4786:24: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   4786 |                 strncpy(value_s, raw_ptr, sizeof(value_e));
        |                 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In member function ‘CExecutive::drag(int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15625:55: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=]
  15625 |                   sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n",
        |                                                       ^~
  15626 |                           order_input, (location == -2) ? "upper" : "current");
        |                           ~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15625:26: note: ‘sprintf’ output between 32 and 1057 bytes into a destination of size 1024
  15625 |                   sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n",
        |                   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  15626 |                           order_input, (location == -2) ? "upper" : "current");
        |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 85%] Building CXX object CMakeFiles/_cmd.dir/layer3/SpecRec.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/SpecRec.cpp.o -MF CMakeFiles/_cmd.dir/layer3/SpecRec.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/SpecRec.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/SpecRec.cpp
  [ 85%] Building CXX object CMakeFiles/_cmd.dir/layer3/SpecRecSpecial.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/SpecRecSpecial.cpp.o -MF CMakeFiles/_cmd.dir/layer3/SpecRecSpecial.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/SpecRecSpecial.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/SpecRecSpecial.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveManageObject(PyMOLGlobals*, pymol::CObject*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14601:37: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=]
  14601 |         " Executive-Warning: name \"%s\" collides with a selection language keyword.\n",
        |                                     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14596:36: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=]
  14596 |         " Executive: object name \"%s\" is illegal -- renamed to 'all_'.\n", obj->Name
        |                                    ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14627:11: warning: ‘strcpy’ offset 0 is out of the bounds [0, 0] [-Warray-bounds=]
  14627 |     strcpy(rec->name, obj->Name);
        |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveGroup(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:2275:40: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
   2275 |                   " Executive: adding '%s' to group '%s'.\n", rec.name, rec.group_name
        |                                        ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  [ 85%] Building CXX object CMakeFiles/_cmd.dir/layer4/Cmd.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer4/Cmd.cpp.o -MF CMakeFiles/_cmd.dir/layer4/Cmd.cpp.o.d -o CMakeFiles/_cmd.dir/layer4/Cmd.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetName(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:3535:41: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 222 [-Wformat-truncation=]
   3535 |       " Warning: Invalid characters in '%s' have been replaced or stripped\n",
        |                                         ^~
   3536 |       name ENDFB(G);
        |       ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  [ 86%] Building CXX object CMakeFiles/_cmd.dir/layer4/Menu.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer4/Menu.cpp.o -MF CMakeFiles/_cmd.dir/layer4/Menu.cpp.o.d -o CMakeFiles/_cmd.dir/layer4/Menu.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Menu.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5097:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 213 [-Wformat-truncation=]
   5097 |             " Executive: skipping unrecognized object \"%s\" of type %d.\n",
        |                                                         ^~
  In function ‘ExecutiveSetNamedEntries(PyMOLGlobals*, _object*, int, int, int)’,
      inlined from ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5727:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5122:58: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 210 [-Wformat-truncation=]
   5122 |           "ExectiveSetNamedEntries-Error: after object \"%s\".\n", rec->name ENDFB(G);
        |                                                          ^~
  In function ‘ExecutiveSetNamedEntries(PyMOLGlobals*, _object*, int, int, int)’,
      inlined from ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5727:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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,
        |               ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:56:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 86%] Building CXX object CMakeFiles/_cmd.dir/layer4/PopUp.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer4/PopUp.cpp.o -MF CMakeFiles/_cmd.dir/layer4/PopUp.cpp.o.d -o CMakeFiles/_cmd.dir/layer4/PopUp.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/PopUp.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp: In function ‘PyObject* CmdPushUndo(PyObject*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:2199:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
   2199 |     if(ok)
        |     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:2201:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
   2201 |       if(s0[0])
        |       ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp: In function ‘PyObject* CmdGetMinMax(PyObject*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:4452:7: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable]
   4452 |   int ok = false;
        |       ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:65:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.h: In instantiation of ‘PyObject* PConvToPyObject(const std::array<_Tp, _Nm>&) [with T = float; long unsigned int N = 3; PyObject = _object]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:365:27:   required from ‘PyObject* APIResult(PyMOLGlobals*, pymol::Result<T>&) [with T = std::array<float, 3>; PyObject = _object]’
    365 |     return PConvToPyObject(res.result());
        |            ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:4017:19:   required from here
   4017 |   return APIResult(G, result);
        |          ~~~~~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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) {
        |                   ~~^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1717:70: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 207 [-Wformat-truncation=]
   1717 |                     " AssignSS-Warning: Ignoring incomplete residue /%s/%s/%s/%d%c ...\n",
        |                                                                      ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/c++/15/cstdio:47,
                   from /usr/include/c++/15/ext/string_conversions.h:47,
                   from /usr/include/c++/15/bits/basic_string.h:4230,
                   from /usr/include/c++/15/string:56,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:20:
  In function ‘snprintf’,
      inlined from ‘SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1716:19:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 59 and 324 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.h:24,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.h:22,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/PopUp.cpp:31:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/PopUp.cpp: In function ‘void PopUpFree(Block*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CPopUp’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/PopUp.cpp:402:3: note: in expansion of macro ‘DeleteP’
    402 |   DeleteP(I);
        |   ^~~~~~~
  [ 86%] Building CXX object CMakeFiles/_cmd.dir/layer5/PyMOL.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer5/PyMOL.cpp.o -MF CMakeFiles/_cmd.dir/layer5/PyMOL.cpp.o.d -o CMakeFiles/_cmd.dir/layer5/PyMOL.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp:35:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp: In function ‘PyMOLreturn_status Loader(CPyMOL*, const char*, const char*, int, const char*, const char*, int, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp:1586:27: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘long unsigned int’ [-Wsign-compare]
   1586 |         if((stop - start) >= sizeof(WordType))
        |            ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp:23:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp: In function ‘void PyMOL_Stop(CPyMOL*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CMovie’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp:2031:3: note: in expansion of macro ‘DeleteP’
   2031 |   DeleteP(G->Movie);
        |   ^~~~~~~
  [ 87%] Building CXX object CMakeFiles/_cmd.dir/layer5/TestPyMOL.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer5/TestPyMOL.cpp.o -MF CMakeFiles/_cmd.dir/layer5/TestPyMOL.cpp.o.d -o CMakeFiles/_cmd.dir/layer5/TestPyMOL.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/TestPyMOL.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/TestPyMOL.cpp:35:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 87%] Building CXX object CMakeFiles/_cmd.dir/layer5/main.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer5/main.cpp.o -MF CMakeFiles/_cmd.dir/layer5/main.cpp.o.d -o CMakeFiles/_cmd.dir/layer5/main.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/main.cpp
  [ 88%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/main.cpp:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 88%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test_Algorithm.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_Algorithm.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_Algorithm.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_Algorithm.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Algorithm.cpp
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  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Executive.cpp:3:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Image.cpp: In function ‘void C_A_T_C_H_T_E_S_T_32()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Image.cpp:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    187 |   for (int i = 0; i < img.getSizeInBytes(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~~
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  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_ShaderPreprocessor.cpp:5:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src/OVContext.cpp:21:13: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable]
     21 |     OVHeap *heap = I->heap;
        |             ^~~~
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CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o CMakeFiles/_cmd.dir/layer2/VFont.cpp.o CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o CMakeFiles/_cmd.dir/layer3/Editor.cpp.o CMakeFiles/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘recreate_command_line’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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';
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/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);
        |                          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveManageObject’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14627:11: warning: ‘strcpy’ writing between 1 and 256 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=]
  14627 |     strcpy(rec->name, obj->Name);
        |           ^
  lto1: note: destination object is likely at address zero
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [8, 12] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [16, 20] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [24, 28] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [32, 36] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [40, 44] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [48, 52] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [8, 12] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [16, 20] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [24, 28] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [32, 36] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [40, 44] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [48, 52] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [8, 12] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [16, 20] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [24, 28] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [32, 36] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [40, 44] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [48, 52] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [8, 12] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [16, 20] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [24, 28] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [32, 36] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [40, 44] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [48, 52] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [8, 12] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [16, 20] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [24, 28] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [32, 36] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [40, 44] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [48, 52] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [8, 12] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [16, 20] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [24, 28] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [32, 36] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [40, 44] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [48, 52] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In member function ‘set_’,
      inlined from ‘__ct ’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array1d.h:119:6,
      inlined from ‘findBest’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ccealignmodule.cpp:506:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array1d.h:283:20: warning: ‘__builtin_memset’ specified bound between 18446744056529682432 and 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]
    283 |                 *p = a;
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  running bdist_wheel
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  copying modules/pymol/wizard/annotation.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/appearance.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/benchmark.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/box.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/charge.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/cleanup.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/command.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/demo.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/density.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/distance.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/dragging.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/filter.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/label.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/measurement.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/message.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/mutagenesis.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/nucmutagenesis.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/openvr.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/pair_fit.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/pseudoatom.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/renaming.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/sculpting.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/security.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/stereodemo.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/toggle.py -> build/lib.linux-aarch64-cpython-313/pymol/wizard
  creating build/lib.linux-aarch64-cpython-313/web
  creating build/lib.linux-aarch64-cpython-313/web/examples
  copying modules/web/examples/__init__.py -> build/lib.linux-aarch64-cpython-313/web/examples
  copying modules/web/examples/justhttpd.py -> build/lib.linux-aarch64-cpython-313/web/examples
  creating build/lib.linux-aarch64-cpython-313/pymol_web
  creating build/lib.linux-aarch64-cpython-313/pymol_web/examples
  copying modules/pymol_web/examples/__init__.py -> build/lib.linux-aarch64-cpython-313/pymol_web/examples
  copying modules/pymol_web/examples/justhttpd.py -> build/lib.linux-aarch64-cpython-313/pymol_web/examples
  running egg_info
  creating modules/pymol.egg-info
  writing modules/pymol.egg-info/PKG-INFO
  /usr/lib/python3.13/site-packages/setuptools/_core_metadata.py:161: SetuptoolsDeprecationWarning: Invalid config.
  !!

          ********************************************************************************
          newlines are not allowed in `summary` and will break in the future
          ********************************************************************************

  !!
    write_field('Summary', single_line(summary))
  writing dependency_links to modules/pymol.egg-info/dependency_links.txt
  writing entry points to modules/pymol.egg-info/entry_points.txt
  writing requirements to modules/pymol.egg-info/requires.txt
  writing top-level names to modules/pymol.egg-info/top_level.txt
  writing manifest file 'modules/pymol.egg-info/SOURCES.txt'
  reading manifest file 'modules/pymol.egg-info/SOURCES.txt'
  adding license file 'LICENSE'
  adding license file 'AUTHORS'
  writing manifest file 'modules/pymol.egg-info/SOURCES.txt'
  copying modules/pmg_qt/forms/askpartial.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/change_confirm.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/colors.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/create_shortcut.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/fetch.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/help_shortcut.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_aln.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_mae.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_map.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_mtz.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_traj.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/movieexport.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/pluginitem.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/pluginmanager.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/png.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/props.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/render.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/save_molecule.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/save_object.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/shortcut_menu.ui -> build/lib.linux-aarch64-cpython-313/pmg_qt/forms
  running build_ext
  cmake /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 -DTARGET_NAME=_cmd -DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/lib.linux-aarch64-cpython-313/pymol -DCMAKE_BUILD_TYPE=Release -DALL_INC_DIR=include;contrib/uiuc/plugins/include;ov/src;layer0;layer1;layer2;layer3;layer4;layer5;build/generated;contrib/uiuc/plugins/molfile_plugin/src;contrib/mmtf-c;layerCTest;/usr/lib64/python3.13/site-packages/numpy/_core/include;/usr/include;/usr/include/freetype2;/usr/include/libxml2;/usr/include/python3.13;/usr/include/python3.13; -DALL_SRC=build/generated/ShaderText.cpp;contrib/mmtf-c/mmtf_parser.cpp;contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c;contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c;contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c;contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c;contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/carplugin.c;contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/corplugin.c;contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c;contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c;contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c;contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c;contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/hash.c;contrib/uiuc/plugins/molfile_plugin/src/inthash.c;contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c;contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c;contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c;contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c;contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c;contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c;contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c;contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c;layer0/Bezier.cpp;layer0/Block.cpp;layer0/CarveHelper.cpp;layer0/ContourSurf.cpp;layer0/Crystal.cpp;layer0/Err.cpp;layer0/Feedback.cpp;layer0/Field.cpp;layer0/File.cpp;layer0/GFXManager.cpp;layer0/GenericBuffer.cpp;layer0/GraphicsUtil.cpp;layer0/Isosurf.cpp;layer0/Map.cpp;layer0/Match.cpp;layer0/Matrix.cpp;layer0/MemoryDebug.cpp;layer0/MemoryUsage.cpp;layer0/MyPNG.cpp;layer0/Parse.cpp;layer0/Pixmap.cpp;layer0/PostProcess.cpp;layer0/PrintUtils.cpp;layer0/ShaderMgr.cpp;layer0/ShaderPreprocessor.cpp;layer0/ShaderPrg.cpp;layer0/Sphere.cpp;layer0/TTT.cpp;layer0/Tetsurf.cpp;layer0/Texture.cpp;layer0/Tracker.cpp;layer0/Triangle.cpp;layer0/Util.cpp;layer0/Util2.cpp;layer0/Vector.cpp;layer0/Word.cpp;layer0/ccealignmodule.cpp;layer0/marching_cubes.cpp;layer0/os_gl.cpp;layer1/Basis.cpp;layer1/ButMode.cpp;layer1/CGO.cpp;layer1/CGOGL.cpp;layer1/CGORenderer.cpp;layer1/COLLADA.cpp;layer1/Camera.cpp;layer1/Character.cpp;layer1/Color.cpp;layer1/Control.cpp;layer1/Extrude.cpp;layer1/Font.cpp;layer1/FontGLUT.cpp;layer1/FontGLUT8x13.cpp;layer1/FontGLUT9x15.cpp;layer1/FontGLUTHel10.cpp;layer1/FontGLUTHel12.cpp;layer1/FontGLUTHel18.cpp;layer1/FontType.cpp;layer1/ImageUtils.cpp;layer1/Movie.cpp;layer1/Ortho.cpp;layer1/P.cpp;layer1/PConv.cpp;layer1/Picking.cpp;layer1/Pop.cpp;layer1/PyMOLObject.cpp;layer1/Ray.cpp;layer1/Rep.cpp;layer1/Scene.cpp;layer1/SceneMouse.cpp;layer1/ScenePicking.cpp;layer1/SceneRay.cpp;layer1/SceneRender.cpp;layer1/SceneView.cpp;layer1/ScrollBar.cpp;layer1/Seq.cpp;layer1/Setting.cpp;layer1/Shaker.cpp;layer1/SymOp.cpp;layer1/SymOpPConv.cpp;layer1/SymOpTools.cpp;layer1/Symmetry.cpp;layer1/Text.cpp;layer1/TypeFace.cpp;layer1/View.cpp;layer1/Wizard.cpp;layer2/AssemblyHelpers.cpp;layer2/AtomInfo.cpp;layer2/AtomInfoHistory.cpp;layer2/BondTypeHistory.cpp;layer2/CifFile.cpp;layer2/CifMoleculeReader.cpp;layer2/CoordSet.cpp;layer2/DistSet.cpp;layer2/GadgetSet.cpp;layer2/HydrogenAdder.cpp;layer2/MmodTyping.cpp;layer2/MmtfMoleculeReader.cpp;layer2/Mol2Typing.cpp;layer2/MolV3000.cpp;layer2/ObjectAlignment.cpp;layer2/ObjectCGO.cpp;layer2/ObjectCallback.cpp;layer2/ObjectCurve.cpp;layer2/ObjectDist.cpp;layer2/ObjectGadget.cpp;layer2/ObjectGadgetRamp.cpp;layer2/ObjectGroup.cpp;layer2/ObjectMap.cpp;layer2/ObjectMesh.cpp;layer2/ObjectMolecule.cpp;layer2/ObjectMolecule2.cpp;layer2/ObjectMolecule3.cpp;layer2/ObjectSlice.cpp;layer2/ObjectSurface.cpp;layer2/ObjectVolume.cpp;layer2/RepAngle.cpp;layer2/RepCartoon.cpp;layer2/RepCylBond.cpp;layer2/RepDihedral.cpp;layer2/RepDistDash.cpp;layer2/RepDistLabel.cpp;layer2/RepDot.cpp;layer2/RepEllipsoid.cpp;layer2/RepLabel.cpp;layer2/RepMesh.cpp;layer2/RepNonbonded.cpp;layer2/RepNonbondedSphere.cpp;layer2/RepRibbon.cpp;layer2/RepSphere.cpp;layer2/RepSphereGenerate.cpp;layer2/RepSphereImmediate.cpp;layer2/RepSurface.cpp;layer2/RepWireBond.cpp;layer2/Sculpt.cpp;layer2/SculptCache.cpp;layer2/SideChainHelper.cpp;layer2/VFont.cpp;layer3/AtomIterators.cpp;layer3/CifDataValueFormatter.cpp;layer3/Editor.cpp;layer3/Executive.cpp;layer3/ExecutivePython.cpp;layer3/Interactions.cpp;layer3/MaeExportHelpers.cpp;layer3/MoleculeExporter.cpp;layer3/MovieScene.cpp;layer3/PlugIOManager.cpp;layer3/RingFinder.cpp;layer3/Seeker.cpp;layer3/Selector.cpp;layer3/SelectorTmp.cpp;layer3/SpecRec.cpp;layer3/SpecRecSpecial.cpp;layer4/Cmd.cpp;layer4/Menu.cpp;layer4/PopUp.cpp;layer5/PyMOL.cpp;layer5/TestPyMOL.cpp;layer5/main.cpp;layerCTest/Test.cpp;layerCTest/Test_Algorithm.cpp;layerCTest/Test_Bezier.cpp;layerCTest/Test_CCrystal.cpp;layerCTest/Test_CifFile.cpp;layerCTest/Test_Classic_VLA.cpp;layerCTest/Test_Event.cpp;layerCTest/Test_Executive.cpp;layerCTest/Test_Image.cpp;layerCTest/Test_List.cpp;layerCTest/Test_Picking.cpp;layerCTest/Test_Result.cpp;layerCTest/Test_ScrollBar.cpp;layerCTest/Test_ShaderPreprocessor.cpp;layerCTest/Test_SymOp.cpp;layerCTest/Test_TTT.cpp;layerCTest/Test_Test.cpp;layerCTest/Test_Util.cpp;layerCTest/Test_VLA.cpp;layerCTest/Test_cache_ptr.cpp;layerCTest/Test_copyable_ptr.cpp;layerCTest/Test_type_traits.cpp;layerCTest/Test_zstring_view.cpp;ov/src/OVContext.cpp;ov/src/OVHeap.cpp;ov/src/OVHeapArray.cpp;ov/src/OVLexicon.cpp;ov/src/OVOneToAny.cpp;ov/src/OVOneToOne.cpp;ov/src/OVRandom.cpp;ov/src/ov_utility.cpp; -DALL_DEF=_PYMOL_LIBPNG;_PYMOL_FREETYPE;PYMOL_OPENMP;_PYMOL_VMD_PLUGINS;_HAVE_LIBXML;MMTF_MSGPACK_USE_CPP11;MSGPACK_NO_BOOST;_PYMOL_NO_MAIN;_PYMOL_CTEST;_PYMOL_NUMPY; -DALL_LIB_DIR=/usr/lib64;/usr/lib; -DALL_LIB=png;freetype;xml2;GL;GLEW;netcdf; -DALL_COMP_ARGS=-Werror=return-type;-Wunused-variable;-Wno-switch;-Wno-narrowing;-Wno-char-subscripts;-O3;-fopenmp; -DALL_EXT_LINK=-fopenmp -DSHARED_SUFFIX=.cpython-313-aarch64-linux-gnu.so
  -- Configuring done (0.0s)
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  -- Build files have been written to: /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_cmd
  cmake --build . --config Release -j4
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  cmake /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 -DTARGET_NAME=_champ -DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/lib.linux-aarch64-cpython-313/chempy/champ -DCMAKE_BUILD_TYPE=Release -DALL_INC_DIR=contrib/champ;/usr/include/python3.13;/usr/include/python3.13; -DALL_SRC=contrib/champ/champ.c;contrib/champ/champ_module.c;contrib/champ/chiral.c;contrib/champ/err2.c;contrib/champ/feedback2.c;contrib/champ/list.c;contrib/champ/os_memory.c;contrib/champ/sort.c;contrib/champ/strblock.c;contrib/champ/vla.c; -DALL_DEF= -DALL_LIB_DIR=/usr/lib64;/usr/lib; -DALL_LIB= -DALL_COMP_ARGS= -DALL_EXT_LINK= -DSHARED_SUFFIX=.cpython-313-aarch64-linux-gnu.so
  -- Configuring done (0.0s)
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  /usr/bin/gmake  -f CMakeFiles/_champ.dir/build.make CMakeFiles/_champ.dir/depend
  gmake[2]: Entering directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ'
  cd /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ/CMakeFiles/_champ.dir/DependInfo.cmake "--color="
  gmake[2]: Leaving directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ'
  /usr/bin/gmake  -f CMakeFiles/_champ.dir/build.make CMakeFiles/_champ.dir/build
  gmake[2]: Entering directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ'
  gmake[2]: Nothing to be done for 'CMakeFiles/_champ.dir/build'.
  gmake[2]: Leaving directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ'
  [100%] Built target _champ
  gmake[1]: Leaving directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ'
  /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-aarch64-cpython-313/_champ/CMakeFiles 0
  installing to build/bdist.linux-aarch64/wheel
  running install
  running install_lib
  creating build/bdist.linux-aarch64
  creating build/bdist.linux-aarch64/wheel
  creating build/bdist.linux-aarch64/wheel/pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/_cmd.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/__init__.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/__main__.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/_gui.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/api.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/callback.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/cgo.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/cgobuilder.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/checking.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/cmd.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/colorprinting.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/colorramping.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/commanding.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/completing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/computing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/constants.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/constants_palette.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/controlling.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/creating.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/diagnosing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/editing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/editor.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/experimenting.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/exporting.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/externing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/feedingback.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/fitting.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/gui.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/headering.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/helping.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/importing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/internal.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/invocation.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/keyboard.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/keywords.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/lazyio.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/locking.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/menu.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/monitoring.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/morphing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/movie.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/moving.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/mpeg_encode.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/parser.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/parsing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/povray.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/preset.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/pymolhttpd.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/querying.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/rpc.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/save_shortcut.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/selecting.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/selector.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/seqalign.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/setting.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/shortcut.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/shortcut_dict.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/shortcut_manager.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/util.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/vfont.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/viewing.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/wizarding.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/xray.py -> build/bdist.linux-aarch64/wheel/./pymol
  copying build/lib.linux-aarch64-cpython-313/pymol/xwin.py -> build/bdist.linux-aarch64/wheel/./pymol
  creating build/bdist.linux-aarch64/wheel/pymol/Qt
  copying build/lib.linux-aarch64-cpython-313/pymol/Qt/__init__.py -> build/bdist.linux-aarch64/wheel/./pymol/Qt
  copying build/lib.linux-aarch64-cpython-313/pymol/Qt/utils.py -> build/bdist.linux-aarch64/wheel/./pymol/Qt
  creating build/bdist.linux-aarch64/wheel/pymol/plugins
  copying build/lib.linux-aarch64-cpython-313/pymol/plugins/__init__.py -> build/bdist.linux-aarch64/wheel/./pymol/plugins
  copying build/lib.linux-aarch64-cpython-313/pymol/plugins/installation.py -> build/bdist.linux-aarch64/wheel/./pymol/plugins
  copying build/lib.linux-aarch64-cpython-313/pymol/plugins/legacysupport.py -> build/bdist.linux-aarch64/wheel/./pymol/plugins
  copying build/lib.linux-aarch64-cpython-313/pymol/plugins/managergui.py -> build/bdist.linux-aarch64/wheel/./pymol/plugins
  copying build/lib.linux-aarch64-cpython-313/pymol/plugins/managergui_qt.py -> build/bdist.linux-aarch64/wheel/./pymol/plugins
  copying build/lib.linux-aarch64-cpython-313/pymol/plugins/repository.py -> build/bdist.linux-aarch64/wheel/./pymol/plugins
  creating build/bdist.linux-aarch64/wheel/pymol/stereochemistry
  copying build/lib.linux-aarch64-cpython-313/pymol/stereochemistry/__init__.py -> build/bdist.linux-aarch64/wheel/./pymol/stereochemistry
  creating build/bdist.linux-aarch64/wheel/pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/__init__.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/annotation.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/appearance.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/benchmark.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/box.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/charge.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/cleanup.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/command.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/demo.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/density.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/distance.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/dragging.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/filter.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/label.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/measurement.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/message.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/mutagenesis.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/nucmutagenesis.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/openvr.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/pair_fit.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/pseudoatom.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/renaming.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/sculpting.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/security.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/stereodemo.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  copying build/lib.linux-aarch64-cpython-313/pymol/wizard/toggle.py -> build/bdist.linux-aarch64/wheel/./pymol/wizard
  creating build/bdist.linux-aarch64/wheel/chempy
  creating build/bdist.linux-aarch64/wheel/chempy/champ
  copying build/lib.linux-aarch64-cpython-313/chempy/champ/_champ.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./chempy/champ
  copying build/lib.linux-aarch64-cpython-313/chempy/champ/__init__.py -> build/bdist.linux-aarch64/wheel/./chempy/champ
  copying build/lib.linux-aarch64-cpython-313/chempy/champ/amber99.py -> build/bdist.linux-aarch64/wheel/./chempy/champ
  copying build/lib.linux-aarch64-cpython-313/chempy/champ/assign.py -> build/bdist.linux-aarch64/wheel/./chempy/champ
  copying build/lib.linux-aarch64-cpython-313/chempy/champ/formal_charges.py -> build/bdist.linux-aarch64/wheel/./chempy/champ
  copying build/lib.linux-aarch64-cpython-313/chempy/__init__.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/arc.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/bond_amber.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/bond_mmff.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/bonds.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/brick.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/cc1.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/charge.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/cif.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/cpv.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/dictdb.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/gamess1.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/gms.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/hetatm.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/io.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/lst.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/mae.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/map.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/mass.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/mmd.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/models.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/mol.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/mol2.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/neighbor.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/pdb.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/pkl.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/place.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/protein.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/protein_amber.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/protein_amber99.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/protein_mmff.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/protein_residues.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/sdf.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/solvate.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/water_amber.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/water_residues.py -> build/bdist.linux-aarch64/wheel/./chempy
  copying build/lib.linux-aarch64-cpython-313/chempy/xyz.py -> build/bdist.linux-aarch64/wheel/./chempy
  creating build/bdist.linux-aarch64/wheel/chempy/bmin
  copying build/lib.linux-aarch64-cpython-313/chempy/bmin/__init__.py -> build/bdist.linux-aarch64/wheel/./chempy/bmin
  copying build/lib.linux-aarch64-cpython-313/chempy/bmin/commands.py -> build/bdist.linux-aarch64/wheel/./chempy/bmin
  copying build/lib.linux-aarch64-cpython-313/chempy/bmin/realtime.py -> build/bdist.linux-aarch64/wheel/./chempy/bmin
  copying build/lib.linux-aarch64-cpython-313/chempy/bmin/state.py -> build/bdist.linux-aarch64/wheel/./chempy/bmin
  copying build/lib.linux-aarch64-cpython-313/chempy/bmin/util.py -> build/bdist.linux-aarch64/wheel/./chempy/bmin
  creating build/bdist.linux-aarch64/wheel/chempy/fast
  copying build/lib.linux-aarch64-cpython-313/chempy/fast/__init__.py -> build/bdist.linux-aarch64/wheel/./chempy/fast
  creating build/bdist.linux-aarch64/wheel/chempy/fragments
  copying build/lib.linux-aarch64-cpython-313/chempy/fragments/__init__.py -> build/bdist.linux-aarch64/wheel/./chempy/fragments
  creating build/bdist.linux-aarch64/wheel/chempy/mmtf
  copying build/lib.linux-aarch64-cpython-313/chempy/mmtf/__init__.py -> build/bdist.linux-aarch64/wheel/./chempy/mmtf
  copying build/lib.linux-aarch64-cpython-313/chempy/mmtf/io.py -> build/bdist.linux-aarch64/wheel/./chempy/mmtf
  creating build/bdist.linux-aarch64/wheel/chempy/tinker
  copying build/lib.linux-aarch64-cpython-313/chempy/tinker/__init__.py -> build/bdist.linux-aarch64/wheel/./chempy/tinker
  copying build/lib.linux-aarch64-cpython-313/chempy/tinker/amber.py -> build/bdist.linux-aarch64/wheel/./chempy/tinker
  copying build/lib.linux-aarch64-cpython-313/chempy/tinker/keyword.py -> build/bdist.linux-aarch64/wheel/./chempy/tinker
  copying build/lib.linux-aarch64-cpython-313/chempy/tinker/realtime.py -> build/bdist.linux-aarch64/wheel/./chempy/tinker
  copying build/lib.linux-aarch64-cpython-313/chempy/tinker/state.py -> build/bdist.linux-aarch64/wheel/./chempy/tinker
  creating build/bdist.linux-aarch64/wheel/pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/TextEditor.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/__init__.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/advanced_settings_gui.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/builder.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/file_dialogs.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/keymapping.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/mimic_pmg_tk.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/mimic_tk.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/properties_dialog.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/pymol_gl_widget.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/pymol_qt_gui.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/scene_bin_gui.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/shortcut_menu_gui.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/volume.py -> build/bdist.linux-aarch64/wheel/./pmg_qt
  creating build/bdist.linux-aarch64/wheel/pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/__init__.py -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/askpartial.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/change_confirm.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/colors.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/create_shortcut.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/fetch.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/help_shortcut.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/load_aln.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/load_mae.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/load_map.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/load_mtz.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/load_traj.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/movieexport.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/pluginitem.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/pluginmanager.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/png.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/props.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/render.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/save_molecule.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/save_object.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/forms/shortcut_menu.ui -> build/bdist.linux-aarch64/wheel/./pmg_qt/forms
  creating build/bdist.linux-aarch64/wheel/pmg_qt/syntax
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/syntax/__init__.py -> build/bdist.linux-aarch64/wheel/./pmg_qt/syntax
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/syntax/pml.py -> build/bdist.linux-aarch64/wheel/./pmg_qt/syntax
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/syntax/pmlparser.py -> build/bdist.linux-aarch64/wheel/./pmg_qt/syntax
  copying build/lib.linux-aarch64-cpython-313/pmg_qt/syntax/python.py -> build/bdist.linux-aarch64/wheel/./pmg_qt/syntax
  creating build/bdist.linux-aarch64/wheel/pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/ColorEditor.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/Demo.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/PMGApp.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/PyMOLMapLoad.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/SetEditor.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/Setting.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/TextEditor.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/__init__.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/volume.py -> build/bdist.linux-aarch64/wheel/./pmg_tk
  creating build/bdist.linux-aarch64/wheel/pmg_tk/skins
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/skins/__init__.py -> build/bdist.linux-aarch64/wheel/./pmg_tk/skins
  creating build/bdist.linux-aarch64/wheel/pmg_tk/skins/demo
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/skins/demo/__init__.py -> build/bdist.linux-aarch64/wheel/./pmg_tk/skins/demo
  creating build/bdist.linux-aarch64/wheel/pmg_tk/skins/normal
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/skins/normal/ModalWindow.py -> build/bdist.linux-aarch64/wheel/./pmg_tk/skins/normal
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/skins/normal/__init__.py -> build/bdist.linux-aarch64/wheel/./pmg_tk/skins/normal
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/skins/normal/builder.py -> build/bdist.linux-aarch64/wheel/./pmg_tk/skins/normal
  creating build/bdist.linux-aarch64/wheel/pmg_tk/startup
  copying build/lib.linux-aarch64-cpython-313/pmg_tk/startup/__init__.py -> build/bdist.linux-aarch64/wheel/./pmg_tk/startup
  creating build/bdist.linux-aarch64/wheel/pymol2
  copying build/lib.linux-aarch64-cpython-313/pymol2/__init__.py -> build/bdist.linux-aarch64/wheel/./pymol2
  copying build/lib.linux-aarch64-cpython-313/pymol2/cmd2.py -> build/bdist.linux-aarch64/wheel/./pymol2
  creating build/bdist.linux-aarch64/wheel/web
  creating build/bdist.linux-aarch64/wheel/web/examples
  copying build/lib.linux-aarch64-cpython-313/web/examples/__init__.py -> build/bdist.linux-aarch64/wheel/./web/examples
  copying build/lib.linux-aarch64-cpython-313/web/examples/justhttpd.py -> build/bdist.linux-aarch64/wheel/./web/examples
  creating build/bdist.linux-aarch64/wheel/pymol_web
  creating build/bdist.linux-aarch64/wheel/pymol_web/examples
  copying build/lib.linux-aarch64-cpython-313/pymol_web/examples/__init__.py -> build/bdist.linux-aarch64/wheel/./pymol_web/examples
  copying build/lib.linux-aarch64-cpython-313/pymol_web/examples/justhttpd.py -> build/bdist.linux-aarch64/wheel/./pymol_web/examples
  running install_egg_info
  Copying modules/pymol.egg-info to build/bdist.linux-aarch64/wheel/./pymol-3.1.0-py3.13.egg-info
  running install_scripts
  creating build/bdist.linux-aarch64/wheel/pymol/pymol_path
  copying LICENSE -> build/bdist.linux-aarch64/wheel/./pymol/pymol_path
  copying data -> build/bdist.linux-aarch64/wheel/./pymol/pymol_path/data
  copying test -> build/bdist.linux-aarch64/wheel/./pymol/pymol_path/test
  copying examples -> build/bdist.linux-aarch64/wheel/./pymol/pymol_path/examples
  creating build/bdist.linux-aarch64/wheel/pymol-3.1.0.data
  creating build/bdist.linux-aarch64/wheel/pymol-3.1.0.data/scripts
  creating build/bdist.linux-aarch64/wheel/pymol-3.1.0.dist-info/WHEEL
  creating '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir/pip-modern-metadata-ouw_4k5q/.tmp-9xx8hwyk/pymol-3.1.0-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it
  adding 'chempy/__init__.py'
  adding 'chempy/arc.py'
  adding 'chempy/bond_amber.py'
  adding 'chempy/bond_mmff.py'
  adding 'chempy/bonds.py'
  adding 'chempy/brick.py'
  adding 'chempy/cc1.py'
  adding 'chempy/charge.py'
  adding 'chempy/cif.py'
  adding 'chempy/cpv.py'
  adding 'chempy/dictdb.py'
  adding 'chempy/gamess1.py'
  adding 'chempy/gms.py'
  adding 'chempy/hetatm.py'
  adding 'chempy/io.py'
  adding 'chempy/lst.py'
  adding 'chempy/mae.py'
  adding 'chempy/map.py'
  adding 'chempy/mass.py'
  adding 'chempy/mmd.py'
  adding 'chempy/models.py'
  adding 'chempy/mol.py'
  adding 'chempy/mol2.py'
  adding 'chempy/neighbor.py'
  adding 'chempy/pdb.py'
  adding 'chempy/pkl.py'
  adding 'chempy/place.py'
  adding 'chempy/protein.py'
  adding 'chempy/protein_amber.py'
  adding 'chempy/protein_amber99.py'
  adding 'chempy/protein_mmff.py'
  adding 'chempy/protein_residues.py'
  adding 'chempy/sdf.py'
  adding 'chempy/solvate.py'
  adding 'chempy/water_amber.py'
  adding 'chempy/water_residues.py'
  adding 'chempy/xyz.py'
  adding 'chempy/bmin/__init__.py'
  adding 'chempy/bmin/commands.py'
  adding 'chempy/bmin/realtime.py'
  adding 'chempy/bmin/state.py'
  adding 'chempy/bmin/util.py'
  adding 'chempy/champ/__init__.py'
  adding 'chempy/champ/_champ.cpython-313-aarch64-linux-gnu.so'
  adding 'chempy/champ/amber99.py'
  adding 'chempy/champ/assign.py'
  adding 'chempy/champ/formal_charges.py'
  adding 'chempy/fast/__init__.py'
  adding 'chempy/fragments/__init__.py'
  adding 'chempy/mmtf/__init__.py'
  adding 'chempy/mmtf/io.py'
  adding 'chempy/tinker/__init__.py'
  adding 'chempy/tinker/amber.py'
  adding 'chempy/tinker/keyword.py'
  adding 'chempy/tinker/realtime.py'
  adding 'chempy/tinker/state.py'
  adding 'pmg_qt/TextEditor.py'
  adding 'pmg_qt/__init__.py'
  adding 'pmg_qt/advanced_settings_gui.py'
  adding 'pmg_qt/builder.py'
  adding 'pmg_qt/file_dialogs.py'
  adding 'pmg_qt/keymapping.py'
  adding 'pmg_qt/mimic_pmg_tk.py'
  adding 'pmg_qt/mimic_tk.py'
  adding 'pmg_qt/properties_dialog.py'
  adding 'pmg_qt/pymol_gl_widget.py'
  adding 'pmg_qt/pymol_qt_gui.py'
  adding 'pmg_qt/scene_bin_gui.py'
  adding 'pmg_qt/shortcut_menu_gui.py'
  adding 'pmg_qt/volume.py'
  adding 'pmg_qt/forms/__init__.py'
  adding 'pmg_qt/forms/askpartial.ui'
  adding 'pmg_qt/forms/change_confirm.ui'
  adding 'pmg_qt/forms/colors.ui'
  adding 'pmg_qt/forms/create_shortcut.ui'
  adding 'pmg_qt/forms/fetch.ui'
  adding 'pmg_qt/forms/help_shortcut.ui'
  adding 'pmg_qt/forms/load_aln.ui'
  adding 'pmg_qt/forms/load_mae.ui'
  adding 'pmg_qt/forms/load_map.ui'
  adding 'pmg_qt/forms/load_mtz.ui'
  adding 'pmg_qt/forms/load_traj.ui'
  adding 'pmg_qt/forms/movieexport.ui'
  adding 'pmg_qt/forms/pluginitem.ui'
  adding 'pmg_qt/forms/pluginmanager.ui'
  adding 'pmg_qt/forms/png.ui'
  adding 'pmg_qt/forms/props.ui'
  adding 'pmg_qt/forms/render.ui'
  adding 'pmg_qt/forms/save_molecule.ui'
  adding 'pmg_qt/forms/save_object.ui'
  adding 'pmg_qt/forms/shortcut_menu.ui'
  adding 'pmg_qt/syntax/__init__.py'
  adding 'pmg_qt/syntax/pml.py'
  adding 'pmg_qt/syntax/pmlparser.py'
  adding 'pmg_qt/syntax/python.py'
  adding 'pmg_tk/ColorEditor.py'
  adding 'pmg_tk/Demo.py'
  adding 'pmg_tk/PMGApp.py'
  adding 'pmg_tk/PyMOLMapLoad.py'
  adding 'pmg_tk/SetEditor.py'
  adding 'pmg_tk/Setting.py'
  adding 'pmg_tk/TextEditor.py'
  adding 'pmg_tk/__init__.py'
  adding 'pmg_tk/volume.py'
  adding 'pmg_tk/skins/__init__.py'
  adding 'pmg_tk/skins/demo/__init__.py'
  adding 'pmg_tk/skins/normal/ModalWindow.py'
  adding 'pmg_tk/skins/normal/__init__.py'
  adding 'pmg_tk/skins/normal/builder.py'
  adding 'pmg_tk/startup/__init__.py'
  adding 'pymol/__init__.py'
  adding 'pymol/__main__.py'
  adding 'pymol/_cmd.cpython-313-aarch64-linux-gnu.so'
  adding 'pymol/_gui.py'
  adding 'pymol/api.py'
  adding 'pymol/callback.py'
  adding 'pymol/cgo.py'
  adding 'pymol/cgobuilder.py'
  adding 'pymol/checking.py'
  adding 'pymol/cmd.py'
  adding 'pymol/colorprinting.py'
  adding 'pymol/colorramping.py'
  adding 'pymol/commanding.py'
  adding 'pymol/completing.py'
  adding 'pymol/computing.py'
  adding 'pymol/constants.py'
  adding 'pymol/constants_palette.py'
  adding 'pymol/controlling.py'
  adding 'pymol/creating.py'
  adding 'pymol/diagnosing.py'
  adding 'pymol/editing.py'
  adding 'pymol/editor.py'
  adding 'pymol/experimenting.py'
  adding 'pymol/exporting.py'
  adding 'pymol/externing.py'
  adding 'pymol/feedingback.py'
  adding 'pymol/fitting.py'
  adding 'pymol/gui.py'
  adding 'pymol/headering.py'
  adding 'pymol/helping.py'
  adding 'pymol/importing.py'
  adding 'pymol/internal.py'
  adding 'pymol/invocation.py'
  adding 'pymol/keyboard.py'
  adding 'pymol/keywords.py'
  adding 'pymol/lazyio.py'
  adding 'pymol/locking.py'
  adding 'pymol/menu.py'
  adding 'pymol/monitoring.py'
  adding 'pymol/morphing.py'
  adding 'pymol/movie.py'
  adding 'pymol/moving.py'
  adding 'pymol/mpeg_encode.py'
  adding 'pymol/parser.py'
  adding 'pymol/parsing.py'
  adding 'pymol/povray.py'
  adding 'pymol/preset.py'
  adding 'pymol/pymolhttpd.py'
  adding 'pymol/querying.py'
  adding 'pymol/rpc.py'
  adding 'pymol/save_shortcut.py'
  adding 'pymol/selecting.py'
  adding 'pymol/selector.py'
  adding 'pymol/seqalign.py'
  adding 'pymol/setting.py'
  adding 'pymol/shortcut.py'
  adding 'pymol/shortcut_dict.py'
  adding 'pymol/shortcut_manager.py'
  adding 'pymol/util.py'
  adding 'pymol/vfont.py'
  adding 'pymol/viewing.py'
  adding 'pymol/wizarding.py'
  adding 'pymol/xray.py'
  adding 'pymol/xwin.py'
  adding 'pymol/Qt/__init__.py'
  adding 'pymol/Qt/utils.py'
  adding 'pymol/plugins/__init__.py'
  adding 'pymol/plugins/installation.py'
  adding 'pymol/plugins/legacysupport.py'
  adding 'pymol/plugins/managergui.py'
  adding 'pymol/plugins/managergui_qt.py'
  adding 'pymol/plugins/repository.py'
  adding 'pymol/pymol_path/LICENSE'
  adding 'pymol/pymol_path/data/chem_comp_bond-top100.cif'
  adding 'pymol/pymol_path/data/setting_help.csv'
  adding 'pymol/pymol_path/data/chempy/water.pdb'
  adding 'pymol/pymol_path/data/chempy/fragments/ace.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/acetylene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ala.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/arg.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/argn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/asn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/asp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/asph.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atp_ttpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atp_ttpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/benzene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/benzocycloheptane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/butane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_ala.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_arg.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_argn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_asn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_asp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_asph.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_cys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_gln.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_glu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_gluh.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_gly.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_hid.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_hie.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_hip.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_his.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_ile.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_leu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_lys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_lysn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_met.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_phe.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_pro.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_ser.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_thr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_trp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_tyr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_val.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctp_gtpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctp_gtpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyanide.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclobutane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cycloheptane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclohexane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclopentadiene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclopentane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclopropane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ethylene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/formaldehyde.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/formamide.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/formic.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gln.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/glu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gluh.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gly.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtp_ctpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtp_ctpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/hid.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/hie.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/hip.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/his.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ile.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/indane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/leu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/lys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/lysn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/met.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/methane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/methanol.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/napthylene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nhh.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nitro.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nme.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_ala.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_arg.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_argn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_asn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_asp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_asph.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_cys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_gln.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_glu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_gluh.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_gly.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_hid.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_hie.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_hip.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_his.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_ile.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_leu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_lys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_lysn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_met.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_phe.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_pro.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_ser.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_thr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_trp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_tyr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_val.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/peptide.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/phe.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/phosphite.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/pro.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/realtime.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ser.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/sulfone.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/thr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/trifluoromethane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/trp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttp_atpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttp_atpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/tyr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/utp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/utpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/val.pkl'
  adding 'pymol/pymol_path/data/chempy/sidechains/generate1.py'
  adding 'pymol/pymol_path/data/chempy/sidechains/generate2.py'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_bb_dep.pkl'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_bb_dep.py'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_bb_ind.pkl'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_bb_ind.py'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_library.pkl'
  adding 'pymol/pymol_path/data/chempy/tinker/Makefile.delsci'
  adding 'pymol/pymol_path/data/chempy/tinker/chempy.prm'
  adding 'pymol/pymol_path/data/chempy/tinker/make99_simple.py'
  adding 'pymol/pymol_path/data/chempy/tinker/make_simple.py'
  adding 'pymol/pymol_path/data/chempy/tinker/parm94.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm94_rsm.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm96.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm96_rsm.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm99.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm99_simple.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm99_wld.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm_simple.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm_simple.inp'
  adding 'pymol/pymol_path/data/demo/1hpv.r3d'
  adding 'pymol/pymol_path/data/demo/1tii.pdb'
  adding 'pymol/pymol_path/data/demo/cgo03.py'
  adding 'pymol/pymol_path/data/demo/il2.pdb'
  adding 'pymol/pymol_path/data/demo/pept.pdb'
  adding 'pymol/pymol_path/data/demo/pept.pkl'
  adding 'pymol/pymol_path/data/openvr/actions.json'
  adding 'pymol/pymol_path/data/openvr/bindings_vive_controller.json'
  adding 'pymol/pymol_path/data/openvr/hints_vive_controller.png'
  adding 'pymol/pymol_path/data/openvr/hints_vive_controller.svg'
  adding 'pymol/pymol_path/data/openvr/menu_splash.png'
  adding 'pymol/pymol_path/data/openvr/menu_splash.svg'
  adding 'pymol/pymol_path/data/pmg_qt/icons/refresh.svg'
  adding 'pymol/pymol_path/data/pmg_qt/styles/pymol.sty'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro5.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro5.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro6.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro6.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro65.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro65.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro66.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro66.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro67.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro67.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc3.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc3.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc4.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc4.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc5.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc5.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc6.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc6.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc7.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc7.xbm'
  adding 'pymol/pymol_path/data/pymol/cmyk.png'
  adding 'pymol/pymol_path/data/pymol/hsv.ppm'
  adding 'pymol/pymol_path/data/pymol/splash.png'
  adding 'pymol/pymol_path/data/pymol/icons/icon2.svg'
  adding 'pymol/pymol_path/data/pymol/matrices/BLOSUM62'
  adding 'pymol/pymol_path/data/shaders/anaglyph_header.fs'
  adding 'pymol/pymol_path/data/shaders/bezier.fs'
  adding 'pymol/pymol_path/data/shaders/bezier.tsc'
  adding 'pymol/pymol_path/data/shaders/bezier.tse'
  adding 'pymol/pymol_path/data/shaders/bezier.vs'
  adding 'pymol/pymol_path/data/shaders/bg.fs'
  adding 'pymol/pymol_path/data/shaders/bg.vs'
  adding 'pymol/pymol_path/data/shaders/call_compute_color_for_light.fs'
  adding 'pymol/pymol_path/data/shaders/compute_color_for_light.fs'
  adding 'pymol/pymol_path/data/shaders/compute_fog_color.fs'
  adding 'pymol/pymol_path/data/shaders/connector.fs'
  adding 'pymol/pymol_path/data/shaders/connector.gs'
  adding 'pymol/pymol_path/data/shaders/connector.shared'
  adding 'pymol/pymol_path/data/shaders/connector.vs'
  adding 'pymol/pymol_path/data/shaders/copy.fs'
  adding 'pymol/pymol_path/data/shaders/copy.vs'
  adding 'pymol/pymol_path/data/shaders/cylinder.fs'
  adding 'pymol/pymol_path/data/shaders/cylinder.vs'
  adding 'pymol/pymol_path/data/shaders/default.fs'
  adding 'pymol/pymol_path/data/shaders/default.vs'
  adding 'pymol/pymol_path/data/shaders/indicator.fs'
  adding 'pymol/pymol_path/data/shaders/indicator.vs'
  adding 'pymol/pymol_path/data/shaders/label.fs'
  adding 'pymol/pymol_path/data/shaders/label.vs'
  adding 'pymol/pymol_path/data/shaders/line.fs'
  adding 'pymol/pymol_path/data/shaders/line.vs'
  adding 'pymol/pymol_path/data/shaders/oit.fs'
  adding 'pymol/pymol_path/data/shaders/oit.vs'
  adding 'pymol/pymol_path/data/shaders/ramp.fs'
  adding 'pymol/pymol_path/data/shaders/ramp.vs'
  adding 'pymol/pymol_path/data/shaders/screen.fs'
  adding 'pymol/pymol_path/data/shaders/screen.vs'
  adding 'pymol/pymol_path/data/shaders/sphere.fs'
  adding 'pymol/pymol_path/data/shaders/sphere.vs'
  adding 'pymol/pymol_path/data/shaders/surface.fs'
  adding 'pymol/pymol_path/data/shaders/surface.vs'
  adding 'pymol/pymol_path/data/shaders/trilines.fs'
  adding 'pymol/pymol_path/data/shaders/trilines.vs'
  adding 'pymol/pymol_path/data/shaders/volume.fs'
  adding 'pymol/pymol_path/data/shaders/volume.vs'
  adding 'pymol/pymol_path/data/shaders/vrcontroller.fs'
  adding 'pymol/pymol_path/data/shaders/vrcontroller.vs'
  adding 'pymol/pymol_path/data/shaders/webgl_header.fs'
  adding 'pymol/pymol_path/data/shaders/webgl_header.vs'
  adding 'pymol/pymol_path/data/startup/README.txt'
  adding 'pymol/pymol_path/data/startup/apbs_gui/__init__.py'
  adding 'pymol/pymol_path/data/startup/apbs_gui/apbs.ui'
  adding 'pymol/pymol_path/data/startup/apbs_gui/creating.py'
  adding 'pymol/pymol_path/data/startup/apbs_gui/electrostatics.py'
  adding 'pymol/pymol_path/data/startup/apbs_gui/qtwidgets.py'
  adding 'pymol/pymol_path/data/startup/lightingsettings_gui/__init__.py'
  adding 'pymol/pymol_path/data/startup/lightingsettings_gui/main.py'
  adding 'pymol/pymol_path/data/test/double.png'
  adding 'pymol/pymol_path/data/test/single-right.png'
  adding 'pymol/pymol_path/data/test/single.png'
  adding 'pymol/pymol_path/data/tut/1hpv.pdb'
  adding 'pymol/pymol_path/examples/chempy/generate_amber.py'
  adding 'pymol/pymol_path/examples/chempy/generate_mmff.py'
  adding 'pymol/pymol_path/examples/cookbook/area_diff.pml'
  adding 'pymol/pymol_path/examples/cookbook/build_peptide.py'
  adding 'pymol/pymol_path/examples/cookbook/contact.pml'
  adding 'pymol/pymol_path/examples/cookbook/dali.py'
  adding 'pymol/pymol_path/examples/cookbook/density.pml'
  adding 'pymol/pymol_path/examples/cookbook/groel_es.pml'
  adding 'pymol/pymol_path/examples/cookbook/multiclip_ray.pml'
  adding 'pymol/pymol_path/examples/cookbook/packing.pml'
  adding 'pymol/pymol_path/examples/cookbook/packsurf.pml'
  adding 'pymol/pymol_path/examples/cookbook/ref_frame.pml'
  adding 'pymol/pymol_path/examples/cookbook/ribosome.pml'
  adding 'pymol/pymol_path/examples/cookbook/scenes2movie.pml'
  adding 'pymol/pymol_path/examples/cookbook/seq_match_sele.pml'
  adding 'pymol/pymol_path/examples/cookbook/ss_xfer.pml'
  adding 'pymol/pymol_path/examples/cookbook/symsph.py'
  adding 'pymol/pymol_path/examples/devel/brick01.py'
  adding 'pymol/pymol_path/examples/devel/cam2crd.pym'
  adding 'pymol/pymol_path/examples/devel/cgo01.py'
  adding 'pymol/pymol_path/examples/devel/cgo02.py'
  adding 'pymol/pymol_path/examples/devel/cgo03.py'
  adding 'pymol/pymol_path/examples/devel/cgo04.py'
  adding 'pymol/pymol_path/examples/devel/cgo05.py'
  adding 'pymol/pymol_path/examples/devel/cgo06.py'
  adding 'pymol/pymol_path/examples/devel/cgo07.py'
  adding 'pymol/pymol_path/examples/devel/cgo08.py'
  adding 'pymol/pymol_path/examples/devel/cgo_3Dtext01.py'
  adding 'pymol/pymol_path/examples/devel/cgo_axes.py'
  adding 'pymol/pymol_path/examples/devel/cgo_label_hack.py'
  adding 'pymol/pymol_path/examples/devel/cgo_plane.py'
  adding 'pymol/pymol_path/examples/devel/chempy_model01.py'
  adding 'pymol/pymol_path/examples/devel/chempy_model02.py'
  adding 'pymol/pymol_path/examples/devel/chempy_model03.py'
  adding 'pymol/pymol_path/examples/devel/click_ordered_list.py'
  adding 'pymol/pymol_path/examples/devel/count_molecules.py'
  adding 'pymol/pymol_path/examples/devel/demo.sdf'
  adding 'pymol/pymol_path/examples/devel/extend_demo01.py'
  adding 'pymol/pymol_path/examples/devel/gl01.py'
  adding 'pymol/pymol_path/examples/devel/gl02.py'
  adding 'pymol/pymol_path/examples/devel/gl03.py'
  adding 'pymol/pymol_path/examples/devel/hole_vmd_tri.pym'
  adding 'pymol/pymol_path/examples/devel/importing.py'
  adding 'pymol/pymol_path/examples/devel/link_demo.py'
  adding 'pymol/pymol_path/examples/devel/membrane.py'
  adding 'pymol/pymol_path/examples/devel/mutate01.pml'
  adding 'pymol/pymol_path/examples/devel/mutate02.py'
  adding 'pymol/pymol_path/examples/devel/my_ext_gui.py'
  adding 'pymol/pymol_path/examples/devel/particle01.py'
  adding 'pymol/pymol_path/examples/devel/particle02.py'
  adding 'pymol/pymol_path/examples/devel/pick_wiz.py'
  adding 'pymol/pymol_path/examples/devel/povray01.py'
  adding 'pymol/pymol_path/examples/devel/scenes_to_movie01.pml'
  adding 'pymol/pymol_path/examples/devel/sd_annotate.pml'
  adding 'pymol/pymol_path/examples/devel/sele_wiz.py'
  adding 'pymol/pymol_path/examples/devel/start_pymol.py'
  adding 'pymol/pymol_path/examples/devel/syncmol.py'
  adding 'pymol/pymol_path/examples/devel/tkwindow.py'
  adding 'pymol/pymol_path/examples/devel/webgui01.py'
  adding 'pymol/pymol_path/examples/devel/webgui02.py'
  adding 'pymol/pymol_path/examples/devel/xmlrpc01.py'
  adding 'pymol/pymol_path/examples/devel/xmlrpc02.py'
  adding 'pymol/pymol_path/examples/launching/README'
  adding 'pymol/pymol_path/examples/launching/launch_demo.py'
  adding 'pymol/pymol_path/examples/launching/launch_viewer1.py'
  adding 'pymol/pymol_path/examples/launching/launch_viewer2.py'
  adding 'pymol/pymol_path/test/dat/1tii.pdb'
  adding 'pymol/pymol_path/test/dat/3al1.pdb'
  adding 'pymol/pymol_path/test/dat/3al1.r3d'
  adding 'pymol/pymol_path/test/dat/embed01.p1m'
  adding 'pymol/pymol_path/test/dat/embed02.p1m'
  adding 'pymol/pymol_path/test/dat/embed03.p1m'
  adding 'pymol/pymol_path/test/dat/embed04.p1m'
  adding 'pymol/pymol_path/test/dat/embed05.p1m'
  adding 'pymol/pymol_path/test/dat/embed06.p1m'
  adding 'pymol/pymol_path/test/dat/helix_amber.pdb'
  adding 'pymol/pymol_path/test/dat/il2.pdb'
  adding 'pymol/pymol_path/test/dat/ligs3d.sdf'
  adding 'pymol/pymol_path/test/dat/names.pdb'
  adding 'pymol/pymol_path/test/dat/odd01.pdb'
  adding 'pymol/pymol_path/test/dat/odd02.pdb'
  adding 'pymol/pymol_path/test/dat/pept.pdb'
  adding 'pymol/pymol_path/test/dat/pept.pkl'
  adding 'pymol/pymol_path/test/dat/pept.r3d'
  adding 'pymol/pymol_path/test/dat/small01.mol'
  adding 'pymol/pymol_path/test/dat/small02.pdb'
  adding 'pymol/pymol_path/test/dat/small03.mol2'
  adding 'pymol/pymol_path/test/dat/tiny.pdb'
  adding 'pymol/pymol_path/test/dat/water.pdb'
  adding 'pymol/stereochemistry/__init__.py'
  adding 'pymol/wizard/__init__.py'
  adding 'pymol/wizard/annotation.py'
  adding 'pymol/wizard/appearance.py'
  adding 'pymol/wizard/benchmark.py'
  adding 'pymol/wizard/box.py'
  adding 'pymol/wizard/charge.py'
  adding 'pymol/wizard/cleanup.py'
  adding 'pymol/wizard/command.py'
  adding 'pymol/wizard/demo.py'
  adding 'pymol/wizard/density.py'
  adding 'pymol/wizard/distance.py'
  adding 'pymol/wizard/dragging.py'
  adding 'pymol/wizard/filter.py'
  adding 'pymol/wizard/label.py'
  adding 'pymol/wizard/measurement.py'
  adding 'pymol/wizard/message.py'
  adding 'pymol/wizard/mutagenesis.py'
  adding 'pymol/wizard/nucmutagenesis.py'
  adding 'pymol/wizard/openvr.py'
  adding 'pymol/wizard/pair_fit.py'
  adding 'pymol/wizard/pseudoatom.py'
  adding 'pymol/wizard/renaming.py'
  adding 'pymol/wizard/sculpting.py'
  adding 'pymol/wizard/security.py'
  adding 'pymol/wizard/stereodemo.py'
  adding 'pymol/wizard/toggle.py'
  adding 'pymol-3.1.0.data/scripts/pymol'
  adding 'pymol2/__init__.py'
  adding 'pymol2/cmd2.py'
  adding 'pymol_web/examples/__init__.py'
  adding 'pymol_web/examples/justhttpd.py'
  adding 'web/examples/__init__.py'
  adding 'web/examples/justhttpd.py'
  adding 'pymol-3.1.0.dist-info/AUTHORS'
  adding 'pymol-3.1.0.dist-info/LICENSE'
  adding 'pymol-3.1.0.dist-info/METADATA'
  adding 'pymol-3.1.0.dist-info/WHEEL'
  adding 'pymol-3.1.0.dist-info/entry_points.txt'
  adding 'pymol-3.1.0.dist-info/top_level.txt'
  adding 'pymol-3.1.0.dist-info/RECORD'
  removing build/bdist.linux-aarch64/wheel
  Preparing metadata (pyproject.toml): finished with status 'done'
Building wheels for collected packages: pymol
  Building wheel for pymol (pyproject.toml): started
  Running command Building wheel for pymol (pyproject.toml)
  Building wheel for pymol (pyproject.toml): finished with status 'done'
  Created wheel for pymol: filename=pymol-3.1.0-cp313-cp313-linux_aarch64.whl size=43367154 sha256=b7cc69df20d28832c323b5c1daef3e2f8ebad5d445f95b4590fd4d6757c8202e
  Stored in directory: /builddir/.cache/pip/wheels/76/31/1e/6f5cd56105c073bb26575f1dca286d4ddf8f22443b89981604
Successfully built pymol
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.ThGlsP
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ '[' /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT '!=' / ']'
+ rm -rf /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
++ dirname /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build
+ mkdir /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd pymol-open-source-3.1.0
++ ls /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir/pymol-3.1.0-cp313-cp313-linux_aarch64.whl
++ xargs basename --multiple
++ sed -E 's/([^-]+)-([^-]+)-.+\.whl/\1==\2/'
+ specifier=pymol==3.1.0
+ '[' -z pymol==3.1.0 ']'
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ /usr/bin/python3 -m pip install --root /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT --prefix /usr --no-deps --disable-pip-version-check --progress-bar off --verbose --ignore-installed --no-warn-script-location --no-index --no-cache-dir --find-links /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir pymol==3.1.0
Using pip 24.3.1 from /usr/lib/python3.13/site-packages/pip (python 3.13)
Looking in links: /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir
Processing ./pyproject-wheeldir/pymol-3.1.0-cp313-cp313-linux_aarch64.whl
Installing collected packages: pymol
  Creating /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin
  changing mode of /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/pymol to 755
Successfully installed pymol-3.1.0
+ '[' -d /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin ']'
+ '[' -z sP ']'
+ shebang_flags=-kasP
+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pathfix.py -pni /usr/bin/python3 -kasP /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/pymol
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/pymol: updating
+ rm -rfv /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/__pycache__
+ rm -f /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-ghost-distinfo
+ site_dirs=()
+ '[' -d /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/python3.13/site-packages ']'
+ '[' /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages '!=' /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/python3.13/site-packages ']'
+ '[' -d /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages ']'
+ site_dirs+=("/usr/lib64/python3.13/site-packages")
+ for site_dir in ${site_dirs[@]}
+ for distinfo in /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT$site_dir/*.dist-info
+ echo '%ghost /usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info'
+ sed -i s/pip/rpm/ /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/INSTALLER
+ PYTHONPATH=/usr/lib/rpm/redhat
+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pyproject_preprocess_record.py --buildroot /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT --record /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/RECORD --output /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-record
+ rm -fv /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/RECORD
removed '/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/RECORD'
+ rm -fv /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/REQUESTED
removed '/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/REQUESTED'
++ wc -l /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-ghost-distinfo
++ cut -f1 '-d '
+ lines=1
+ '[' 1 -ne 1 ']'
+ RPM_FILES_ESCAPE=4.19
+ /usr/bin/python3 /usr/lib/rpm/redhat/pyproject_save_files.py --output-files /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-files --output-modules /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-modules --buildroot /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT --sitelib /usr/lib/python3.13/site-packages --sitearch /usr/lib64/python3.13/site-packages --python-version 3.13 --pyproject-record /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-3.fc42.aarch64-pyproject-record --prefix /usr pymol chempy web pymol2 pymol_web pmg_tk pmg_qt
+ cp -a testing /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/
+ '[' -z sP ']'
+ shebang_flags=-kasP
+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pathfix.py -pni /usr/bin/python3 -kasP /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/modules/xmlrunner/tests/testsuite.py
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/modules/xmlrunner/tests/testsuite.py: updating
+ echo '#!/bin/sh'
+ echo 'export PYMOL_PATH=/usr/lib64/python3.13/site-packages/pymol'
+ echo 'exec /usr/bin/python3 /usr/lib64/python3.13/site-packages/pymol/__init__.py "$@"'
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/data/pymol/icons
+ touch /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/data/pymol/icons/icon2.svg
+ ln -sfr /usr/lib64/python3.13/site-packages/pymol/pymol_path/data/pymol/icons/icon2.svg /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/data/pymol/icons/icon2.svg
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin
+ install -p -m 755 pymol /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/
+ desktop-file-install --vendor= --dir=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/applications /builddir/build/SOURCES/pymol.desktop
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/pixmaps
+ install -p -m 644 /builddir/build/SOURCES/pymol.png /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/pixmaps/
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/metainfo
+ install -p -m 644 /builddir/build/SOURCES/pymol.appdata.xml /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/metainfo/
+ appstream-util validate-relax --nonet /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT//usr/share/metainfo/pymol.appdata.xml
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT//usr/share/metainfo/pymol.appdata.xml: OK
+ /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 3.1.0-3.fc42 --unique-debug-suffix -3.1.0-3.fc42.aarch64 --unique-debug-src-base pymol-3.1.0-3.fc42.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0
find-debuginfo: starting
Extracting debug info from 2 files
DWARF-compressing 2 files
sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match.
Creating .debug symlinks for symlinks to ELF files
Copying sources found by 'debugedit -l' to /usr/src/debug/pymol-3.1.0-3.fc42.aarch64
find-debuginfo: done
+ /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/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
mangling shebang in /usr/bin/pymol from /bin/sh to #!/usr/bin/sh
*** WARNING: ./usr/src/debug/pymol-3.1.0-3.fc42.aarch64/layer0/GraphicsUtil.cpp is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-3.1.0-3.fc42.aarch64/layer0/GraphicsUtil.h is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-3.1.0-3.fc42.aarch64/layer3/MaeExportHelpers.cpp is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-3.1.0-3.fc42.aarch64/layer3/MaeExportHelpers.h is executable but has no shebang, removing executable bit
+ /usr/lib/rpm/brp-remove-la-files
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j4
Bytecompiling .py files below /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13 using python3.13
/usr/lib64/python3.13/site-packages/pymol/pymol_path/data/chempy/tinker/make_simple.py:147: SyntaxWarning: invalid escape sequence '\*'
/usr/lib64/python3.13/site-packages/pymol/pymol_path/data/chempy/tinker/make_simple.py:151: SyntaxWarning: invalid escape sequence '\*'
/usr/lib64/python3.13/site-packages/pymol/pymol_path/data/chempy/tinker/make_simple.py:147: SyntaxWarning: invalid escape sequence '\*'
/usr/lib64/python3.13/site-packages/pymol/pymol_path/data/chempy/tinker/make_simple.py:151: SyntaxWarning: invalid escape sequence '\*'
/usr/lib64/python3.13/site-packages/pymol/pymol_path/examples/devel/webgui02.py:156: SyntaxWarning: invalid escape sequence '\='
/usr/lib64/python3.13/site-packages/pymol/pymol_path/examples/devel/webgui02.py:156: SyntaxWarning: invalid escape sequence '\='
Bytecompiling .py files below /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/debug/usr/lib64/python3.13 using python3.13
+ /usr/lib/rpm/redhat/brp-python-hardlink
+ /usr/bin/add-determinism --brp -j4 /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/commands.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/util.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/realtime.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/state.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/champ/__pycache__/assign.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/champ/__pycache__/formal_charges.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/champ/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/fast/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/fragments/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/tinker/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/mmtf/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/tinker/__pycache__/keyword.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/tinker/__pycache__/realtime.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/mmtf/__pycache__/io.cpython-313.pyc: rewriting with normalized contents
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Scanned 193 directories and 2222 files,
               processed 443 inodes,
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Reading /builddir/build/BUILD/pymol-3.1.0-build/SPECPARTS/rpm-debuginfo.specpart
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.T0JNVL
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd pymol-open-source-3.1.0
+ PATH=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin
+ PYTHONPATH=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages:/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/python3.13/site-packages
+ _PYTHONSITE=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages:/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/python3.13/site-packages
+ PYTHONDONTWRITEBYTECODE=1
+ /usr/bin/python3 -sP /usr/lib/rpm/redhat/import_all_modules.py -t pymol chempy web pymol2 pymol_web pmg_tk pmg_qt
Check import: pymol
Check import: chempy
Check import: web
Check import: pymol2
Check import: pymol_web
Check import: pmg_tk
Check import: pmg_qt
+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: pymol-3.1.0-3.fc42.aarch64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.JDDInr
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd pymol-open-source-3.1.0
+ DOCDIR=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ cp -pr /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/AUTHORS /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ cp -pr /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/DEVELOPERS /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ cp -pr /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/README.md /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ cp -pr /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ChangeLog /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: PyMOL = 3.1.0-3.fc42 application() application(pymol.desktop) metainfo() metainfo(pymol.appdata.xml) pymol = 3.1.0-3.fc42 pymol(aarch-64) = 3.1.0-3.fc42 python-pymol = 3.1.0-3.fc42 python3-pymol = 3.1.0-3.fc42 python3.13-pymol = 3.1.0-3.fc42 python3.13dist(pymol) = 3.1 python3dist(pymol) = 3.1
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: (python3.13dist(numpy) < 3~~ with python3.13dist(numpy) >= 1.26.4) /usr/bin/sh ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libGL.so.1()(64bit) libGLEW.so.2.2()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(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_2.17)(64bit) libm.so.6(GLIBC_2.27)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.35)(64bit) libm.so.6(GLIBC_2.38)(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_1.3.13)(64bit) libstdc++.so.6(CXXABI_1.3.15)(64bit) libstdc++.so.6(CXXABI_1.3.3)(64bit) libstdc++.so.6(CXXABI_1.3.5)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(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_3.4.19)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.22)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(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) = 3.13 rtld(GNU_HASH)
Processing files: pymol+tests-3.1.0-3.fc42.aarch64
Provides: pymol+tests = 3.1.0-3.fc42 pymol+tests(aarch-64) = 3.1.0-3.fc42
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/python3 python(abi) = 3.13
Processing files: pymol-debugsource-3.1.0-3.fc42.aarch64
Provides: pymol-debugsource = 3.1.0-3.fc42 pymol-debugsource(aarch-64) = 3.1.0-3.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: pymol-debuginfo-3.1.0-3.fc42.aarch64
Provides: debuginfo(build-id) = 18518611c0c945eaff2b482c2d5dbfb0d21173b5 debuginfo(build-id) = abc7ad38f5d3f1aa1a2f5a42c223673e30d6db5a pymol-debuginfo = 3.1.0-3.fc42 pymol-debuginfo(aarch-64) = 3.1.0-3.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: pymol-debugsource(aarch-64) = 3.1.0-3.fc42
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
Wrote: /builddir/build/SRPMS/pymol-3.1.0-3.fc42.src.rpm
Wrote: /builddir/build/RPMS/pymol-3.1.0-3.fc42.aarch64.rpm
Wrote: /builddir/build/RPMS/pymol+tests-3.1.0-3.fc42.aarch64.rpm
Wrote: /builddir/build/RPMS/pymol-debugsource-3.1.0-3.fc42.aarch64.rpm
Wrote: /builddir/build/RPMS/pymol-debuginfo-3.1.0-3.fc42.aarch64.rpm
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.pT6J35
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ test -d /builddir/build/BUILD/pymol-3.1.0-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/pymol-3.1.0-build
+ rm -rf /builddir/build/BUILD/pymol-3.1.0-build
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild pymol-3.1.0-3.fc42.src.rpm
Finish: build phase for pymol-3.1.0-3.fc42.src.rpm
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-41-aarch64-1738674682.583297/root/var/log/dnf5.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
INFO: Done(/var/lib/copr-rpmbuild/results/pymol-3.1.0-3.fc42.src.rpm) Config(child) 4 minutes 50 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
Package info:
{
    "packages": [
        {
            "name": "pymol",
            "epoch": null,
            "version": "3.1.0",
            "release": "3.fc42",
            "arch": "src"
        },
        {
            "name": "pymol",
            "epoch": null,
            "version": "3.1.0",
            "release": "3.fc42",
            "arch": "aarch64"
        },
        {
            "name": "pymol+tests",
            "epoch": null,
            "version": "3.1.0",
            "release": "3.fc42",
            "arch": "aarch64"
        },
        {
            "name": "pymol-debuginfo",
            "epoch": null,
            "version": "3.1.0",
            "release": "3.fc42",
            "arch": "aarch64"
        },
        {
            "name": "pymol-debugsource",
            "epoch": null,
            "version": "3.1.0",
            "release": "3.fc42",
            "arch": "aarch64"
        }
    ]
}
RPMResults finished