Warning: Permanently added '3.233.220.249' (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/10406440-epel-9-x86_64 --chroot epel-9-x86_64


Version: 1.8
PID: 14134
Logging PID: 14136
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': False,
 'build_id': 10406440,
 'buildroot_pkgs': [],
 'chroot': 'epel-9-x86_64',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': '742d4e7e9e5f0ebfc588ee20a30f9a0224ed93e1',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/wibi-sk/pymol/pymol',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'pymol',
 'package_version': '2.5.0-7',
 'project_dirname': 'pymol',
 'project_name': 'pymol',
 'project_owner': 'wibi-sk',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/wibi-sk/pymol/epel-9-x86_64/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None}],
 'sandbox': 'wibi-sk/pymol--wibi-sk',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'storage': 0,
 'submitter': 'wibi-sk',
 'tags': [],
 'task_id': '10406440-epel-9-x86_64',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/wibi-sk/pymol/pymol /var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/wibi-sk/pymol/pymol', '/var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol'...

Running: git checkout 742d4e7e9e5f0ebfc588ee20a30f9a0224ed93e1 --

cmd: ['git', 'checkout', '742d4e7e9e5f0ebfc588ee20a30f9a0224ed93e1', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol
rc: 0
stdout: 
stderr: Note: switching to '742d4e7e9e5f0ebfc588ee20a30f9a0224ed93e1'.

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 742d4e7 automatic import of pymol

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol
rc: 0
stdout: 
stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD
INFO: Reading stdout from command: git rev-parse HEAD
INFO: Reading sources specification file: sources
INFO: Downloading pymol-open-source-2.5.0.tar.gz
INFO: Reading stdout from command: curl --help all
INFO: Calling: curl -H Pragma: -H 'Accept-Encoding: identity' -o pymol-open-source-2.5.0.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/wibi-sk/pymol/pymol/pymol-open-source-2.5.0.tar.gz/md5/1c2d43789dd5580958fd75672ecfd8e7/pymol-open-source-2.5.0.tar.gz
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100  9.9M  100  9.9M    0     0   265M      0 --:--:-- --:--:-- --:--:--  269M
INFO: Reading stdout from command: md5sum pymol-open-source-2.5.0.tar.gz
INFO: Downloading pymol.png
INFO: Calling: curl -H Pragma: -H 'Accept-Encoding: identity' -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/wibi-sk/pymol/pymol/pymol.png/md5/3bbd85dbd40f588f505ad988b6df2933/pymol.png
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 19466  100 19466    0     0  1640k      0 --:--:-- --:--:-- --:--:-- 1728k
INFO: Reading stdout from command: md5sum pymol.png

tail: /var/lib/copr-rpmbuild/main.log: file truncated
Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol/pymol.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1777473279.065068 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 6.7 starting (python version = 3.14.2, NVR = mock-6.7-1.fc43), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol/pymol.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-0i8glcdd/pymol --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1777473279.065068 -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-0i8glcdd/pymol/pymol.spec)  Config(rhel+epel-9-x86_64)
Start: clean chroot
Finish: clean chroot
Mock Version: 6.7
INFO: Mock Version: 6.7
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1777473279.065068/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.access.redhat.com/ubi9/ubi
INFO: Pulling image: registry.access.redhat.com/ubi9/ubi
INFO: Tagging container image as mock-bootstrap-1dabf26b-22e9-4252-bd97-518fea10fbcb
INFO: Checking that 65c11561cbd77edee1d126ac5e9059d967c4c904def3a7d7e35916e015444b80 image matches host's architecture
INFO: Copy content of container 65c11561cbd77edee1d126ac5e9059d967c4c904def3a7d7e35916e015444b80 to /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1777473279.065068/root
INFO: mounting 65c11561cbd77edee1d126ac5e9059d967c4c904def3a7d7e35916e015444b80 with podman image mount
INFO: image 65c11561cbd77edee1d126ac5e9059d967c4c904def3a7d7e35916e015444b80 as /var/lib/containers/storage/overlay/b168845e6147289c9d85c718427076cbfbfeaed86bf486b7e7d0d0464a80ee3c/merged
INFO: umounting image 65c11561cbd77edee1d126ac5e9059d967c4c904def3a7d7e35916e015444b80 (/var/lib/containers/storage/overlay/b168845e6147289c9d85c718427076cbfbfeaed86bf486b7e7d0d0464a80ee3c/merged) with podman image umount
INFO: Removing image mock-bootstrap-1dabf26b-22e9-4252-bd97-518fea10fbcb
INFO: Package manager dnf4 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/rhel+epel-9-x86_64-1777473279.065068/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 dnf4 detected and used (direct choice)
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.16.1.3-39.el9.x86_64
  python3-dnf-4.14.0-31.el9.noarch
  python3-dnf-plugins-core-4.3.0-24.el9_7.noarch
  yum-4.14.0-31.el9.noarch
Start: installing minimal buildroot with dnf
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

This system is not registered with an entitlement server. You can use subscription-manager to register.

Copr repository                                 301 kB/s |  17 kB     00:00    
Red Hat Enterprise Linux - BaseOS               135 MB/s | 111 MB     00:00    
Red Hat Enterprise Linux - AppStream            125 MB/s |  88 MB     00:00    
Red Hat Enterprise Linux - CodeReady Linux Buil  23 MB/s |  17 MB     00:00    
Extra Packages for Enterprise Linux 9 - x86_64  121 MB/s |  21 MB     00:00    
Dependencies resolved.
================================================================================
 Package                     Arch   Version                     Repo       Size
================================================================================
Installing:
 bash                        x86_64 5.1.8-9.el9                 baseos    1.7 M
 bzip2                       x86_64 1.0.8-10.el9_5              baseos     60 k
 coreutils                   x86_64 8.32-39.el9                 baseos    1.2 M
 cpio                        x86_64 2.13-16.el9                 baseos    279 k
 diffutils                   x86_64 3.7-12.el9                  baseos    402 k
 epel-rpm-macros             noarch 9-18.el9                    epel       15 k
 findutils                   x86_64 1:4.8.0-7.el9               baseos    550 k
 gawk                        x86_64 5.1.0-6.el9                 baseos    1.0 M
 glibc-minimal-langpack      x86_64 2.34-231.el9_7.10           baseos     28 k
 grep                        x86_64 3.6-5.el9                   baseos    273 k
 gzip                        x86_64 1.12-1.el9                  baseos    167 k
 info                        x86_64 6.7-15.el9                  baseos    228 k
 patch                       x86_64 2.7.6-16.el9                appstream 130 k
 redhat-release              x86_64 9.7-0.7.el9                 baseos     53 k
 redhat-rpm-config           noarch 210-1.el9                   appstream  70 k
 rpm-build                   x86_64 4.16.1.3-39.el9             appstream  66 k
 sed                         x86_64 4.8-9.el9                   baseos    309 k
 tar                         x86_64 2:1.34-9.el9_7              baseos    885 k
 unzip                       x86_64 6.0-59.el9                  baseos    182 k
 util-linux                  x86_64 2.37.4-21.el9_7             baseos    2.3 M
 which                       x86_64 2.21-30.el9_6               baseos     41 k
 xz                          x86_64 5.2.5-8.el9_0               baseos    230 k
Installing dependencies:
 R-srpm-macros               noarch 1.3.7-1.el9                 epel       11 k
 alternatives                x86_64 1.24-2.el9                  baseos     42 k
 ansible-srpm-macros         noarch 1-16.el9                    epel       21 k
 audit-libs                  x86_64 3.1.5-7.el9                 baseos    119 k
 basesystem                  noarch 11-13.el9                   baseos    8.0 k
 binutils                    x86_64 2.35.2-67.el9_7.1           baseos    4.6 M
 binutils-gold               x86_64 2.35.2-67.el9_7.1           baseos    734 k
 bzip2-libs                  x86_64 1.0.8-10.el9_5              baseos     42 k
 ca-certificates             noarch 2025.2.80_v9.0.305-91.el9   baseos    1.0 M
 coreutils-common            x86_64 8.32-39.el9                 baseos    2.0 M
 cracklib                    x86_64 2.9.6-27.el9                baseos     99 k
 cracklib-dicts              x86_64 2.9.6-27.el9                baseos    3.6 M
 crypto-policies             noarch 20250905-1.git377cc42.el9_7 baseos     90 k
 curl                        x86_64 7.76.1-35.el9_7.3           baseos    292 k
 cyrus-sasl-lib              x86_64 2.1.27-22.el9               baseos    768 k
 debugedit                   x86_64 5.0-11.el9                  appstream  77 k
 dwz                         x86_64 0.16-1.el9                  appstream 134 k
 ed                          x86_64 1.14.2-12.el9               baseos     78 k
 efi-srpm-macros             noarch 6-4.el9                     appstream  21 k
 elfutils                    x86_64 0.193-1.el9                 baseos    598 k
 elfutils-debuginfod-client  x86_64 0.193-1.el9                 baseos     44 k
 elfutils-default-yama-scope noarch 0.193-1.el9                 baseos    9.7 k
 elfutils-libelf             x86_64 0.193-1.el9                 baseos    205 k
 elfutils-libs               x86_64 0.193-1.el9                 baseos    268 k
 file                        x86_64 5.39-16.el9                 baseos     52 k
 file-libs                   x86_64 5.39-16.el9                 baseos    593 k
 filesystem                  x86_64 3.16-5.el9                  baseos    4.8 M
 fonts-srpm-macros           noarch 1:2.0.5-7.el9.1             appstream  29 k
 forge-srpm-macros           noarch 0.4.0-1.el9                 epel       19 k
 fpc-srpm-macros             noarch 1.3-7.el9                   epel      7.5 k
 gdb-minimal                 x86_64 16.3-2.el9                  appstream 4.4 M
 gdbm-libs                   x86_64 1:1.23-1.el9                baseos     59 k
 ghc-srpm-macros             noarch 1.5.0-6.el9                 appstream 9.0 k
 ghc-srpm-macros-epel        noarch 1.9.1-1.el9                 epel      7.5 k
 glibc                       x86_64 2.34-231.el9_7.10           baseos    2.0 M
 glibc-common                x86_64 2.34-231.el9_7.10           baseos    312 k
 glibc-gconv-extra           x86_64 2.34-231.el9_7.10           baseos    1.7 M
 gmp                         x86_64 1:6.2.0-13.el9              baseos    319 k
 go-srpm-macros              noarch 3.6.0-14.el9_7              appstream  33 k
 go-srpm-macros-epel         noarch 3.8.0-1.el9                 epel       26 k
 groff-base                  x86_64 1.22.4-10.el9               baseos    1.1 M
 json-c                      x86_64 0.14-11.el9                 baseos     45 k
 kernel-srpm-macros          noarch 1.0-14.el9                  appstream  14 k
 keyutils-libs               x86_64 1.6.3-1.el9                 baseos     34 k
 krb5-libs                   x86_64 1.21.1-9.el9_7              baseos    772 k
 libacl                      x86_64 2.3.1-4.el9                 baseos     24 k
 libarchive                  x86_64 3.5.3-9.el9_7               baseos    393 k
 libattr                     x86_64 2.5.1-3.el9                 baseos     20 k
 libblkid                    x86_64 2.37.4-21.el9_7             baseos    111 k
 libbrotli                   x86_64 1.0.9-9.el9_7               baseos    319 k
 libcap                      x86_64 2.48-10.el9                 baseos     70 k
 libcap-ng                   x86_64 0.8.2-7.el9                 baseos     36 k
 libcom_err                  x86_64 1.46.5-8.el9                baseos     26 k
 libcurl                     x86_64 7.76.1-35.el9_7.3           baseos    283 k
 libdb                       x86_64 5.3.28-57.el9_6             baseos    737 k
 libeconf                    x86_64 0.4.1-4.el9                 baseos     30 k
 libevent                    x86_64 2.1.12-8.el9_4              baseos    266 k
 libfdisk                    x86_64 2.37.4-21.el9_7             baseos    158 k
 libffi                      x86_64 3.4.2-8.el9                 baseos     40 k
 libgcc                      x86_64 11.5.0-11.el9               baseos     85 k
 libgcrypt                   x86_64 1.10.0-11.el9               baseos    510 k
 libgomp                     x86_64 11.5.0-11.el9               baseos    257 k
 libgpg-error                x86_64 1.42-5.el9                  baseos    220 k
 libidn2                     x86_64 2.3.0-7.el9                 baseos    105 k
 libmount                    x86_64 2.37.4-21.el9_7             baseos    138 k
 libnghttp2                  x86_64 1.43.0-6.el9_7.1            baseos     78 k
 libpkgconf                  x86_64 1.7.3-10.el9                baseos     37 k
 libpsl                      x86_64 0.21.1-5.el9                baseos     66 k
 libpwquality                x86_64 1.4.4-8.el9                 baseos    123 k
 libselinux                  x86_64 3.6-3.el9                   baseos     88 k
 libsemanage                 x86_64 3.6-5.el9_6                 baseos    121 k
 libsepol                    x86_64 3.6-3.el9                   baseos    331 k
 libsigsegv                  x86_64 2.13-4.el9                  baseos     30 k
 libsmartcols                x86_64 2.37.4-21.el9_7             baseos     67 k
 libssh                      x86_64 0.10.4-17.el9_7             baseos    214 k
 libssh-config               noarch 0.10.4-17.el9_7             baseos    8.1 k
 libstdc++                   x86_64 11.5.0-11.el9               baseos    742 k
 libtasn1                    x86_64 4.16.0-9.el9                baseos     77 k
 libtool-ltdl                x86_64 2.4.6-46.el9                baseos     37 k
 libunistring                x86_64 0.9.10-15.el9               baseos    499 k
 libutempter                 x86_64 1.2.1-6.el9                 baseos     30 k
 libuuid                     x86_64 2.37.4-21.el9_7             baseos     32 k
 libverto                    x86_64 0.3.2-3.el9                 baseos     24 k
 libxcrypt                   x86_64 4.4.18-3.el9                baseos    120 k
 libxml2                     x86_64 2.9.13-14.el9_7             baseos    747 k
 libzstd                     x86_64 1.5.5-1.el9                 baseos    297 k
 lua-libs                    x86_64 5.4.4-4.el9                 baseos    132 k
 lua-srpm-macros             noarch 1-6.el9                     appstream  10 k
 lz4-libs                    x86_64 1.9.3-5.el9                 baseos     69 k
 mpfr                        x86_64 4.1.0-7.el9                 baseos    329 k
 ncurses                     x86_64 6.2-12.20210508.el9         baseos    406 k
 ncurses-base                noarch 6.2-12.20210508.el9         baseos     96 k
 ncurses-libs                x86_64 6.2-12.20210508.el9         baseos    328 k
 ocaml-srpm-macros           noarch 6-6.el9                     appstream 9.1 k
 openblas-srpm-macros        noarch 2-11.el9                    appstream 8.6 k
 openldap                    x86_64 2.6.8-4.el9                 baseos    290 k
 openssl                     x86_64 1:3.5.1-7.el9_7             baseos    1.5 M
 openssl-fips-provider       x86_64 3.0.7-8.el9                 baseos    9.2 k
 openssl-fips-provider-so    x86_64 3.0.7-8.el9                 baseos    576 k
 openssl-libs                x86_64 1:3.5.1-7.el9_7             baseos    2.3 M
 p11-kit                     x86_64 0.25.3-3.el9_5              baseos    536 k
 p11-kit-trust               x86_64 0.25.3-3.el9_5              baseos    144 k
 pam                         x86_64 1.5.1-26.el9_6              baseos    622 k
 pcre                        x86_64 8.44-4.el9                  baseos    200 k
 pcre2                       x86_64 10.40-6.el9                 baseos    236 k
 pcre2-syntax                noarch 10.40-6.el9                 baseos    144 k
 perl-AutoLoader             noarch 5.74-481.1.el9_6            appstream  21 k
 perl-B                      x86_64 1.80-481.1.el9_6            appstream 180 k
 perl-Carp                   noarch 1.50-460.el9                appstream  31 k
 perl-Class-Struct           noarch 0.66-481.1.el9_6            appstream  22 k
 perl-Data-Dumper            x86_64 2.174-462.el9               appstream  59 k
 perl-Digest                 noarch 1.19-4.el9                  appstream  29 k
 perl-Digest-MD5             x86_64 2.58-4.el9                  appstream  39 k
 perl-Encode                 x86_64 4:3.08-462.el9              appstream 1.7 M
 perl-Errno                  x86_64 1.30-481.1.el9_6            appstream  15 k
 perl-Exporter               noarch 5.74-461.el9                appstream  34 k
 perl-Fcntl                  x86_64 1.13-481.1.el9_6            appstream  20 k
 perl-File-Basename          noarch 2.85-481.1.el9_6            appstream  17 k
 perl-File-Path              noarch 2.18-4.el9                  appstream  38 k
 perl-File-Temp              noarch 1:0.231.100-4.el9           appstream  63 k
 perl-File-stat              noarch 1.09-481.1.el9_6            appstream  17 k
 perl-FileHandle             noarch 2.03-481.1.el9_6            appstream  15 k
 perl-Getopt-Long            noarch 1:2.52-4.el9                appstream  64 k
 perl-Getopt-Std             noarch 1.12-481.1.el9_6            appstream  15 k
 perl-HTTP-Tiny              noarch 0.076-462.el9               appstream  57 k
 perl-IO                     x86_64 1.43-481.1.el9_6            appstream  88 k
 perl-IO-Socket-IP           noarch 0.41-5.el9                  appstream  45 k
 perl-IO-Socket-SSL          noarch 2.073-2.el9                 appstream 221 k
 perl-IPC-Open3              noarch 1.21-481.1.el9_6            appstream  22 k
 perl-MIME-Base64            x86_64 3.16-4.el9                  appstream  34 k
 perl-Mozilla-CA             noarch 20200520-6.el9              appstream  14 k
 perl-Net-SSLeay             x86_64 1.94-3.el9                  appstream 414 k
 perl-POSIX                  x86_64 1.94-481.1.el9_6            appstream  96 k
 perl-PathTools              x86_64 3.78-461.el9                appstream  92 k
 perl-Pod-Escapes            noarch 1:1.07-460.el9              appstream  22 k
 perl-Pod-Perldoc            noarch 3.28.01-461.el9             appstream  92 k
 perl-Pod-Simple             noarch 1:3.42-4.el9                appstream 229 k
 perl-Pod-Usage              noarch 4:2.01-4.el9                appstream  43 k
 perl-Scalar-List-Utils      x86_64 4:1.56-462.el9              appstream  75 k
 perl-SelectSaver            noarch 1.02-481.1.el9_6            appstream  11 k
 perl-Socket                 x86_64 4:2.031-4.el9               appstream  58 k
 perl-Storable               x86_64 1:3.21-460.el9              appstream  98 k
 perl-Symbol                 noarch 1.08-481.1.el9_6            appstream  14 k
 perl-Term-ANSIColor         noarch 5.01-461.el9                appstream  51 k
 perl-Term-Cap               noarch 1.17-460.el9                appstream  24 k
 perl-Text-ParseWords        noarch 3.30-460.el9                appstream  18 k
 perl-Text-Tabs+Wrap         noarch 2013.0523-460.el9           appstream  25 k
 perl-Time-Local             noarch 2:1.300-7.el9               appstream  37 k
 perl-URI                    noarch 5.09-3.el9                  appstream 125 k
 perl-base                   noarch 2.27-481.1.el9_6            appstream  16 k
 perl-constant               noarch 1.33-461.el9                appstream  25 k
 perl-if                     noarch 0.60.800-481.1.el9_6        appstream  14 k
 perl-interpreter            x86_64 4:5.32.1-481.1.el9_6        appstream  70 k
 perl-libnet                 noarch 3.13-4.el9                  appstream 134 k
 perl-libs                   x86_64 4:5.32.1-481.1.el9_6        appstream 2.2 M
 perl-mro                    x86_64 1.23-481.1.el9_6            appstream  28 k
 perl-overload               noarch 1.31-481.1.el9_6            appstream  45 k
 perl-overloading            noarch 0.02-481.1.el9_6            appstream  12 k
 perl-parent                 noarch 1:0.238-460.el9             appstream  16 k
 perl-podlators              noarch 1:4.14-460.el9              appstream 118 k
 perl-srpm-macros            noarch 1-41.el9                    appstream 9.4 k
 perl-subs                   noarch 1.03-481.1.el9_6            appstream  11 k
 perl-vars                   noarch 1.05-481.1.el9_6            appstream  13 k
 pkgconf                     x86_64 1.7.3-10.el9                baseos     45 k
 pkgconf-m4                  noarch 1.7.3-10.el9                baseos     16 k
 pkgconf-pkg-config          x86_64 1.7.3-10.el9                baseos     12 k
 popt                        x86_64 1.18-8.el9                  baseos     69 k
 publicsuffix-list-dafsa     noarch 20210518-3.el9              baseos     59 k
 pyproject-srpm-macros       noarch 1.16.2-1.el9                appstream  14 k
 python-srpm-macros          noarch 3.9-54.el9                  appstream  18 k
 qt5-srpm-macros             noarch 5.15.9-1.el9                appstream 9.1 k
 qt6-srpm-macros             noarch 6.6.2-1.el9                 epel      8.7 k
 readline                    x86_64 8.1-4.el9                   baseos    215 k
 rpm                         x86_64 4.16.1.3-39.el9             baseos    535 k
 rpm-build-libs              x86_64 4.16.1.3-39.el9             baseos     88 k
 rpm-libs                    x86_64 4.16.1.3-39.el9             baseos    307 k
 rpmautospec-rpm-macros      noarch 0.8.4-1.el9                 epel       10 k
 rust-srpm-macros            noarch 17-4.el9                    appstream  11 k
 rust-srpm-macros-epel       noarch 26.3-1.el9                  epel       10 k
 setup                       noarch 2.13.7-10.el9               baseos    150 k
 shadow-utils                x86_64 2:4.9-15.el9                baseos    1.2 M
 sqlite-libs                 x86_64 3.34.1-9.el9_7              baseos    642 k
 systemd-libs                x86_64 252-55.el9_7.8              baseos    662 k
 tzdata                      noarch 2026a-1.el9                 baseos    911 k
 util-linux-core             x86_64 2.37.4-21.el9_7             baseos    464 k
 xz-libs                     x86_64 5.2.5-8.el9_0               baseos     94 k
 zip                         x86_64 3.0-35.el9                  baseos    270 k
 zlib                        x86_64 1.2.11-40.el9               baseos     93 k
 zstd                        x86_64 1.5.5-1.el9                 baseos    468 k

Transaction Summary
================================================================================
Install  211 Packages

Total download size: 70 M
Installed size: 222 M
Downloading Packages:
(1/211): basesystem-11-13.el9.noarch.rpm         40 kB/s | 8.0 kB     00:00    
(2/211): cpio-2.13-16.el9.x86_64.rpm            1.1 MB/s | 279 kB     00:00    
(3/211): ed-1.14.2-12.el9.x86_64.rpm            523 kB/s |  78 kB     00:00    
(4/211): cracklib-2.9.6-27.el9.x86_64.rpm       272 kB/s |  99 kB     00:00    
(5/211): grep-3.6-5.el9.x86_64.rpm              2.3 MB/s | 273 kB     00:00    
(6/211): json-c-0.14-11.el9.x86_64.rpm          441 kB/s |  45 kB     00:00    
(7/211): groff-base-1.22.4-10.el9.x86_64.rpm    7.1 MB/s | 1.1 MB     00:00    
(8/211): libattr-2.5.1-3.el9.x86_64.rpm         248 kB/s |  20 kB     00:00    
(9/211): info-6.7-15.el9.x86_64.rpm             1.1 MB/s | 228 kB     00:00    
(10/211): libcap-ng-0.8.2-7.el9.x86_64.rpm      334 kB/s |  36 kB     00:00    
(11/211): libgpg-error-1.42-5.el9.x86_64.rpm    2.6 MB/s | 220 kB     00:00    
(12/211): libidn2-2.3.0-7.el9.x86_64.rpm        990 kB/s | 105 kB     00:00    
(13/211): libpsl-0.21.1-5.el9.x86_64.rpm        774 kB/s |  66 kB     00:00    
(14/211): libpwquality-1.4.4-8.el9.x86_64.rpm   1.2 MB/s | 123 kB     00:00    
(15/211): libsigsegv-2.13-4.el9.x86_64.rpm      331 kB/s |  30 kB     00:00    
(16/211): libverto-0.3.2-3.el9.x86_64.rpm       256 kB/s |  24 kB     00:00    
(17/211): libunistring-0.9.10-15.el9.x86_64.rpm 3.1 MB/s | 499 kB     00:00    
(18/211): libutempter-1.2.1-6.el9.x86_64.rpm    174 kB/s |  30 kB     00:00    
(19/211): lz4-libs-1.9.3-5.el9.x86_64.rpm       933 kB/s |  69 kB     00:00    
(20/211): libxcrypt-4.4.18-3.el9.x86_64.rpm     1.3 MB/s | 120 kB     00:00    
(21/211): popt-1.18-8.el9.x86_64.rpm            949 kB/s |  69 kB     00:00    
(22/211): mpfr-4.1.0-7.el9.x86_64.rpm           3.1 MB/s | 329 kB     00:00    
(23/211): publicsuffix-list-dafsa-20210518-3.el 494 kB/s |  59 kB     00:00    
(24/211): readline-8.1-4.el9.x86_64.rpm         2.5 MB/s | 215 kB     00:00    
(25/211): sed-4.8-9.el9.x86_64.rpm              2.6 MB/s | 309 kB     00:00    
(26/211): cracklib-dicts-2.9.6-27.el9.x86_64.rp  35 MB/s | 3.6 MB     00:00    
(27/211): diffutils-3.7-12.el9.x86_64.rpm       2.6 MB/s | 402 kB     00:00    
(28/211): gawk-5.1.0-6.el9.x86_64.rpm           8.9 MB/s | 1.0 MB     00:00    
(29/211): xz-5.2.5-8.el9_0.x86_64.rpm           2.1 MB/s | 230 kB     00:00    
(30/211): xz-libs-5.2.5-8.el9_0.x86_64.rpm      898 kB/s |  94 kB     00:00    
(31/211): gzip-1.12-1.el9.x86_64.rpm            1.3 MB/s | 167 kB     00:00    
(32/211): keyutils-libs-1.6.3-1.el9.x86_64.rpm  223 kB/s |  34 kB     00:00    
(33/211): libpkgconf-1.7.3-10.el9.x86_64.rpm    410 kB/s |  37 kB     00:00    
(34/211): pkgconf-1.7.3-10.el9.x86_64.rpm       605 kB/s |  45 kB     00:00    
(35/211): pkgconf-pkg-config-1.7.3-10.el9.x86_6 144 kB/s |  12 kB     00:00    
(36/211): zip-3.0-35.el9.x86_64.rpm             3.0 MB/s | 270 kB     00:00    
(37/211): libffi-3.4.2-8.el9.x86_64.rpm         382 kB/s |  40 kB     00:00    
(38/211): pkgconf-m4-1.7.3-10.el9.noarch.rpm     72 kB/s |  16 kB     00:00    
(39/211): gmp-6.2.0-13.el9.x86_64.rpm           1.6 MB/s | 319 kB     00:00    
(40/211): zlib-1.2.11-40.el9.x86_64.rpm         747 kB/s |  93 kB     00:00    
(41/211): lua-libs-5.4.4-4.el9.x86_64.rpm       968 kB/s | 132 kB     00:00    
(42/211): bash-5.1.8-9.el9.x86_64.rpm            14 MB/s | 1.7 MB     00:00    
(43/211): file-5.39-16.el9.x86_64.rpm           520 kB/s |  52 kB     00:00    
(44/211): file-libs-5.39-16.el9.x86_64.rpm      4.2 MB/s | 593 kB     00:00    
(45/211): libacl-2.3.1-4.el9.x86_64.rpm         149 kB/s |  24 kB     00:00    
(46/211): setup-2.13.7-10.el9.noarch.rpm        948 kB/s | 150 kB     00:00    
(47/211): filesystem-3.16-5.el9.x86_64.rpm       46 MB/s | 4.8 MB     00:00    
(48/211): libevent-2.1.12-8.el9_4.x86_64.rpm    1.1 MB/s | 266 kB     00:00    
(49/211): gdbm-libs-1.23-1.el9.x86_64.rpm       492 kB/s |  59 kB     00:00    
(50/211): findutils-4.8.0-7.el9.x86_64.rpm      2.7 MB/s | 550 kB     00:00    
(51/211): libeconf-0.4.1-4.el9.x86_64.rpm       326 kB/s |  30 kB     00:00    
(52/211): libgcrypt-1.10.0-11.el9.x86_64.rpm    6.5 MB/s | 510 kB     00:00    
(53/211): pcre-8.44-4.el9.x86_64.rpm            2.6 MB/s | 200 kB     00:00    
(54/211): pcre2-syntax-10.40-6.el9.noarch.rpm   2.0 MB/s | 144 kB     00:00    
(55/211): bzip2-1.0.8-10.el9_5.x86_64.rpm       780 kB/s |  60 kB     00:00    
(56/211): p11-kit-0.25.3-3.el9_5.x86_64.rpm     6.6 MB/s | 536 kB     00:00    
(57/211): pcre2-10.40-6.el9.x86_64.rpm          1.0 MB/s | 236 kB     00:00    
(58/211): bzip2-libs-1.0.8-10.el9_5.x86_64.rpm  481 kB/s |  42 kB     00:00    
(59/211): alternatives-1.24-2.el9.x86_64.rpm    514 kB/s |  42 kB     00:00    
(60/211): coreutils-8.32-39.el9.x86_64.rpm      8.9 MB/s | 1.2 MB     00:00    
(61/211): p11-kit-trust-0.25.3-3.el9_5.x86_64.r 1.0 MB/s | 144 kB     00:00    
(62/211): coreutils-common-8.32-39.el9.x86_64.r  17 MB/s | 2.0 MB     00:00    
(63/211): libselinux-3.6-3.el9.x86_64.rpm       899 kB/s |  88 kB     00:00    
(64/211): libsemanage-3.6-5.el9_6.x86_64.rpm    1.3 MB/s | 121 kB     00:00    
(65/211): libtool-ltdl-2.4.6-46.el9.x86_64.rpm  401 kB/s |  37 kB     00:00    
(66/211): libtasn1-4.16.0-9.el9.x86_64.rpm      606 kB/s |  77 kB     00:00    
(67/211): zstd-1.5.5-1.el9.x86_64.rpm           4.6 MB/s | 468 kB     00:00    
(68/211): openldap-2.6.8-4.el9.x86_64.rpm       2.8 MB/s | 290 kB     00:00    
(69/211): libzstd-1.5.5-1.el9.x86_64.rpm        1.2 MB/s | 297 kB     00:00    
(70/211): elfutils-0.193-1.el9.x86_64.rpm       6.2 MB/s | 598 kB     00:00    
(71/211): elfutils-libs-0.193-1.el9.x86_64.rpm  3.6 MB/s | 268 kB     00:00    
(72/211): libdb-5.3.28-57.el9_6.x86_64.rpm      3.8 MB/s | 737 kB     00:00    
(73/211): libgcc-11.5.0-11.el9.x86_64.rpm       806 kB/s |  85 kB     00:00    
(74/211): ncurses-libs-6.2-12.20210508.el9.x86_ 3.3 MB/s | 328 kB     00:00    
(75/211): pam-1.5.1-26.el9_6.x86_64.rpm         8.3 MB/s | 622 kB     00:00    
(76/211): rpm-build-libs-4.16.1.3-39.el9.x86_64 1.0 MB/s |  88 kB     00:00    
(77/211): unzip-6.0-59.el9.x86_64.rpm           2.4 MB/s | 182 kB     00:00    
(78/211): audit-libs-3.1.5-7.el9.x86_64.rpm     1.6 MB/s | 119 kB     00:00    
(79/211): crypto-policies-20250905-1.git377cc42 1.1 MB/s |  90 kB     00:00    
(80/211): which-2.21-30.el9_6.x86_64.rpm        333 kB/s |  41 kB     00:00    
(81/211): elfutils-debuginfod-client-0.193-1.el 585 kB/s |  44 kB     00:00    
(82/211): elfutils-default-yama-scope-0.193-1.e 105 kB/s | 9.7 kB     00:00    
(83/211): libcap-2.48-10.el9.x86_64.rpm         423 kB/s |  70 kB     00:00    
(84/211): elfutils-libelf-0.193-1.el9.x86_64.rp 973 kB/s | 205 kB     00:00    
(85/211): cyrus-sasl-lib-2.1.27-22.el9.x86_64.r 2.0 MB/s | 768 kB     00:00    
(86/211): libgomp-11.5.0-11.el9.x86_64.rpm      3.0 MB/s | 257 kB     00:00    
(87/211): libcom_err-1.46.5-8.el9.x86_64.rpm    237 kB/s |  26 kB     00:00    
(88/211): libsepol-3.6-3.el9.x86_64.rpm         4.4 MB/s | 331 kB     00:00    
(89/211): libstdc++-11.5.0-11.el9.x86_64.rpm    9.1 MB/s | 742 kB     00:00    
(90/211): ncurses-6.2-12.20210508.el9.x86_64.rp 5.2 MB/s | 406 kB     00:00    
(91/211): ncurses-base-6.2-12.20210508.el9.noar 1.0 MB/s |  96 kB     00:00    
(92/211): openssl-fips-provider-3.0.7-8.el9.x86  81 kB/s | 9.2 kB     00:00    
(93/211): openssl-fips-provider-so-3.0.7-8.el9. 4.9 MB/s | 576 kB     00:00    
(94/211): rpm-4.16.1.3-39.el9.x86_64.rpm        6.7 MB/s | 535 kB     00:00    
(95/211): shadow-utils-4.9-15.el9.x86_64.rpm     15 MB/s | 1.2 MB     00:00    
(96/211): rpm-libs-4.16.1.3-39.el9.x86_64.rpm   3.4 MB/s | 307 kB     00:00    
(97/211): redhat-release-9.7-0.7.el9.x86_64.rpm 738 kB/s |  53 kB     00:00    
(98/211): sqlite-libs-3.34.1-9.el9_7.x86_64.rpm 7.9 MB/s | 642 kB     00:00    
(99/211): libxml2-2.9.13-14.el9_7.x86_64.rpm    9.7 MB/s | 747 kB     00:00    
(100/211): ca-certificates-2025.2.80_v9.0.305-9  10 MB/s | 1.0 MB     00:00    
(101/211): libssh-config-0.10.4-17.el9_7.noarch 108 kB/s | 8.1 kB     00:00    
(102/211): binutils-gold-2.35.2-67.el9_7.1.x86_ 9.5 MB/s | 734 kB     00:00    
(103/211): libssh-0.10.4-17.el9_7.x86_64.rpm    1.2 MB/s | 214 kB     00:00    
(104/211): binutils-2.35.2-67.el9_7.1.x86_64.rp  24 MB/s | 4.6 MB     00:00    
(105/211): tar-1.34-9.el9_7.x86_64.rpm           11 MB/s | 885 kB     00:00    
(106/211): curl-7.76.1-35.el9_7.3.x86_64.rpm    2.2 MB/s | 292 kB     00:00    
(107/211): openssl-3.5.1-7.el9_7.x86_64.rpm      18 MB/s | 1.5 MB     00:00    
(108/211): libcurl-7.76.1-35.el9_7.3.x86_64.rpm 1.7 MB/s | 283 kB     00:00    
(109/211): openssl-libs-3.5.1-7.el9_7.x86_64.rp  22 MB/s | 2.3 MB     00:00    
(110/211): libfdisk-2.37.4-21.el9_7.x86_64.rpm  1.8 MB/s | 158 kB     00:00    
(111/211): libmount-2.37.4-21.el9_7.x86_64.rpm  1.6 MB/s | 138 kB     00:00    
(112/211): libblkid-2.37.4-21.el9_7.x86_64.rpm  488 kB/s | 111 kB     00:00    
(113/211): libsmartcols-2.37.4-21.el9_7.x86_64. 791 kB/s |  67 kB     00:00    
(114/211): libuuid-2.37.4-21.el9_7.x86_64.rpm   267 kB/s |  32 kB     00:00    
(115/211): util-linux-2.37.4-21.el9_7.x86_64.rp  21 MB/s | 2.3 MB     00:00    
(116/211): util-linux-core-2.37.4-21.el9_7.x86_ 4.0 MB/s | 464 kB     00:00    
(117/211): libbrotli-1.0.9-9.el9_7.x86_64.rpm   3.2 MB/s | 319 kB     00:00    
(118/211): glibc-2.34-231.el9_7.10.x86_64.rpm    25 MB/s | 2.0 MB     00:00    
(119/211): glibc-minimal-langpack-2.34-231.el9_ 331 kB/s |  28 kB     00:00    
(120/211): glibc-gconv-extra-2.34-231.el9_7.10.  11 MB/s | 1.7 MB     00:00    
(121/211): tzdata-2026a-1.el9.noarch.rpm         11 MB/s | 911 kB     00:00    
(122/211): libnghttp2-1.43.0-6.el9_7.1.x86_64.r 949 kB/s |  78 kB     00:00    
(123/211): glibc-common-2.34-231.el9_7.10.x86_6 850 kB/s | 312 kB     00:00    
(124/211): systemd-libs-252-55.el9_7.8.x86_64.r 3.8 MB/s | 662 kB     00:00    
(125/211): libarchive-3.5.3-9.el9_7.x86_64.rpm  5.3 MB/s | 393 kB     00:00    
(126/211): krb5-libs-1.21.1-9.el9_7.x86_64.rpm  7.9 MB/s | 772 kB     00:00    
(127/211): lua-srpm-macros-1-6.el9.noarch.rpm   138 kB/s |  10 kB     00:00    
(128/211): perl-Digest-MD5-2.58-4.el9.x86_64.rp 426 kB/s |  39 kB     00:00    
(129/211): ghc-srpm-macros-1.5.0-6.el9.noarch.r  46 kB/s | 9.0 kB     00:00    
(130/211): perl-Data-Dumper-2.174-462.el9.x86_6 545 kB/s |  59 kB     00:00    
(131/211): perl-Encode-3.08-462.el9.x86_64.rpm   21 MB/s | 1.7 MB     00:00    
(132/211): perl-Pod-Simple-3.42-4.el9.noarch.rp 2.3 MB/s | 229 kB     00:00    
(133/211): perl-Mozilla-CA-20200520-6.el9.noarc 133 kB/s |  14 kB     00:00    
(134/211): perl-Term-Cap-1.17-460.el9.noarch.rp 245 kB/s |  24 kB     00:00    
(135/211): perl-Time-Local-1.300-7.el9.noarch.r 391 kB/s |  37 kB     00:00    
(136/211): rust-srpm-macros-17-4.el9.noarch.rpm  57 kB/s |  11 kB     00:00    
(137/211): perl-Pod-Escapes-1.07-460.el9.noarch 176 kB/s |  22 kB     00:00    
(138/211): perl-Storable-3.21-460.el9.x86_64.rp 518 kB/s |  98 kB     00:00    
(139/211): perl-podlators-4.14-460.el9.noarch.r 899 kB/s | 118 kB     00:00    
(140/211): perl-File-Temp-0.231.100-4.el9.noarc 488 kB/s |  63 kB     00:00    
(141/211): perl-Getopt-Long-2.52-4.el9.noarch.r 588 kB/s |  64 kB     00:00    
(142/211): perl-MIME-Base64-3.16-4.el9.x86_64.r 255 kB/s |  34 kB     00:00    
(143/211): perl-Exporter-5.74-461.el9.noarch.rp  97 kB/s |  34 kB     00:00    
(144/211): perl-Text-Tabs+Wrap-2013.0523-460.el 218 kB/s |  25 kB     00:00    
(145/211): perl-parent-0.238-460.el9.noarch.rpm 200 kB/s |  16 kB     00:00    
(146/211): perl-srpm-macros-1-41.el9.noarch.rpm 106 kB/s | 9.4 kB     00:00    
(147/211): perl-Digest-1.19-4.el9.noarch.rpm    283 kB/s |  29 kB     00:00    
(148/211): openblas-srpm-macros-2-11.el9.noarch  51 kB/s | 8.6 kB     00:00    
(149/211): perl-File-Path-2.18-4.el9.noarch.rpm 301 kB/s |  38 kB     00:00    
(150/211): perl-IO-Socket-IP-0.41-5.el9.noarch. 311 kB/s |  45 kB     00:00    
(151/211): perl-Socket-2.031-4.el9.x86_64.rpm   374 kB/s |  58 kB     00:00    
(152/211): perl-Text-ParseWords-3.30-460.el9.no 222 kB/s |  18 kB     00:00    
(153/211): perl-Pod-Usage-2.01-4.el9.noarch.rpm 148 kB/s |  43 kB     00:00    
(154/211): perl-URI-5.09-3.el9.noarch.rpm       1.6 MB/s | 125 kB     00:00    
(155/211): perl-Term-ANSIColor-5.01-461.el9.noa 247 kB/s |  51 kB     00:00    
(156/211): perl-constant-1.33-461.el9.noarch.rp 156 kB/s |  25 kB     00:00    
(157/211): ocaml-srpm-macros-6-6.el9.noarch.rpm  59 kB/s | 9.1 kB     00:00    
(158/211): fonts-srpm-macros-2.0.5-7.el9.1.noar 119 kB/s |  29 kB     00:00    
(159/211): patch-2.7.6-16.el9.x86_64.rpm        898 kB/s | 130 kB     00:00    
(160/211): perl-Carp-1.50-460.el9.noarch.rpm    269 kB/s |  31 kB     00:00    
(161/211): perl-Pod-Perldoc-3.28.01-461.el9.noa 392 kB/s |  92 kB     00:00    
(162/211): perl-libnet-3.13-4.el9.noarch.rpm    778 kB/s | 134 kB     00:00    
(163/211): perl-PathTools-3.78-461.el9.x86_64.r 796 kB/s |  92 kB     00:00    
(164/211): qt5-srpm-macros-5.15.9-1.el9.noarch.  69 kB/s | 9.1 kB     00:00    
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(168/211): perl-Scalar-List-Utils-1.56-462.el9. 420 kB/s |  75 kB     00:00    
(169/211): perl-AutoLoader-5.74-481.1.el9_6.noa 115 kB/s |  21 kB     00:00    
(170/211): perl-B-1.80-481.1.el9_6.x86_64.rpm   2.1 MB/s | 180 kB     00:00    
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(195/211): efi-srpm-macros-6-4.el9.noarch.rpm   131 kB/s |  21 kB     00:00    
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(202/211): epel-rpm-macros-9-18.el9.noarch.rpm  5.0 MB/s |  15 kB     00:00    
(203/211): forge-srpm-macros-0.4.0-1.el9.noarch 8.2 MB/s |  19 kB     00:00    
(204/211): fpc-srpm-macros-1.3-7.el9.noarch.rpm 3.5 MB/s | 7.5 kB     00:00    
(205/211): ghc-srpm-macros-epel-1.9.1-1.el9.noa 2.8 MB/s | 7.5 kB     00:00    
(206/211): go-srpm-macros-epel-3.8.0-1.el9.noar 8.8 MB/s |  26 kB     00:00    
(207/211): qt6-srpm-macros-6.6.2-1.el9.noarch.r 5.1 MB/s | 8.7 kB     00:00    
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(209/211): rust-srpm-macros-epel-26.3-1.el9.noa 5.9 MB/s |  10 kB     00:00    
(210/211): rpm-build-4.16.1.3-39.el9.x86_64.rpm 841 kB/s |  66 kB     00:00    
(211/211): go-srpm-macros-3.6.0-14.el9_7.noarch 423 kB/s |  33 kB     00:00    
--------------------------------------------------------------------------------
Total                                           8.1 MB/s |  70 MB     00:08     
Red Hat Enterprise Linux - BaseOS               3.5 MB/s | 3.6 kB     00:00    
Importing GPG key 0xFD431D51:
 Userid     : "Red Hat, Inc. (release key 2) <security@redhat.com>"
 Fingerprint: 567E 347A D004 4ADE 55BA 8A5F 199E 2F91 FD43 1D51
 From       : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release
Key imported successfully
Importing GPG key 0x5A6340B3:
 Userid     : "Red Hat, Inc. (auxiliary key 3) <security@redhat.com>"
 Fingerprint: 7E46 2425 8C40 6535 D56D 6F13 5054 E4A4 5A63 40B3
 From       : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release
Key imported successfully
Red Hat Enterprise Linux - BaseOS                16 MB/s |  16 kB     00:00    
Extra Packages for Enterprise Linux 9 - x86_64  1.6 MB/s | 1.6 kB     00:00    
Importing GPG key 0x3228467C:
 Userid     : "Fedora (epel9) <epel@fedoraproject.org>"
 Fingerprint: FF8A D134 4597 106E CE81 3B91 8A38 72BF 3228 467C
 From       : /usr/share/distribution-gpg-keys/epel/RPM-GPG-KEY-EPEL-9
Key imported successfully
Running transaction check
Transaction check succeeded.
Running transaction test
Transaction test succeeded.
Running transaction
  Running scriptlet: filesystem-3.16-5.el9.x86_64                           1/1 
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warning: /etc/hosts created as /etc/hosts.rpmnew

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  Verifying        : ansible-srpm-macros-1-16.el9.noarch                203/211 
  Verifying        : epel-rpm-macros-9-18.el9.noarch                    204/211 
  Verifying        : forge-srpm-macros-0.4.0-1.el9.noarch               205/211 
  Verifying        : fpc-srpm-macros-1.3-7.el9.noarch                   206/211 
  Verifying        : ghc-srpm-macros-epel-1.9.1-1.el9.noarch            207/211 
  Verifying        : go-srpm-macros-epel-3.8.0-1.el9.noarch             208/211 
  Verifying        : qt6-srpm-macros-6.6.2-1.el9.noarch                 209/211 
  Verifying        : rpmautospec-rpm-macros-0.8.4-1.el9.noarch          210/211 
  Verifying        : rust-srpm-macros-epel-26.3-1.el9.noarch            211/211 
Installed products updated.

Installed:
  R-srpm-macros-1.3.7-1.el9.noarch                                              
  alternatives-1.24-2.el9.x86_64                                                
  ansible-srpm-macros-1-16.el9.noarch                                           
  audit-libs-3.1.5-7.el9.x86_64                                                 
  basesystem-11-13.el9.noarch                                                   
  bash-5.1.8-9.el9.x86_64                                                       
  binutils-2.35.2-67.el9_7.1.x86_64                                             
  binutils-gold-2.35.2-67.el9_7.1.x86_64                                        
  bzip2-1.0.8-10.el9_5.x86_64                                                   
  bzip2-libs-1.0.8-10.el9_5.x86_64                                              
  ca-certificates-2025.2.80_v9.0.305-91.el9.noarch                              
  coreutils-8.32-39.el9.x86_64                                                  
  coreutils-common-8.32-39.el9.x86_64                                           
  cpio-2.13-16.el9.x86_64                                                       
  cracklib-2.9.6-27.el9.x86_64                                                  
  cracklib-dicts-2.9.6-27.el9.x86_64                                            
  crypto-policies-20250905-1.git377cc42.el9_7.noarch                            
  curl-7.76.1-35.el9_7.3.x86_64                                                 
  cyrus-sasl-lib-2.1.27-22.el9.x86_64                                           
  debugedit-5.0-11.el9.x86_64                                                   
  diffutils-3.7-12.el9.x86_64                                                   
  dwz-0.16-1.el9.x86_64                                                         
  ed-1.14.2-12.el9.x86_64                                                       
  efi-srpm-macros-6-4.el9.noarch                                                
  elfutils-0.193-1.el9.x86_64                                                   
  elfutils-debuginfod-client-0.193-1.el9.x86_64                                 
  elfutils-default-yama-scope-0.193-1.el9.noarch                                
  elfutils-libelf-0.193-1.el9.x86_64                                            
  elfutils-libs-0.193-1.el9.x86_64                                              
  epel-rpm-macros-9-18.el9.noarch                                               
  file-5.39-16.el9.x86_64                                                       
  file-libs-5.39-16.el9.x86_64                                                  
  filesystem-3.16-5.el9.x86_64                                                  
  findutils-1:4.8.0-7.el9.x86_64                                                
  fonts-srpm-macros-1:2.0.5-7.el9.1.noarch                                      
  forge-srpm-macros-0.4.0-1.el9.noarch                                          
  fpc-srpm-macros-1.3-7.el9.noarch                                              
  gawk-5.1.0-6.el9.x86_64                                                       
  gdb-minimal-16.3-2.el9.x86_64                                                 
  gdbm-libs-1:1.23-1.el9.x86_64                                                 
  ghc-srpm-macros-1.5.0-6.el9.noarch                                            
  ghc-srpm-macros-epel-1.9.1-1.el9.noarch                                       
  glibc-2.34-231.el9_7.10.x86_64                                                
  glibc-common-2.34-231.el9_7.10.x86_64                                         
  glibc-gconv-extra-2.34-231.el9_7.10.x86_64                                    
  glibc-minimal-langpack-2.34-231.el9_7.10.x86_64                               
  gmp-1:6.2.0-13.el9.x86_64                                                     
  go-srpm-macros-3.6.0-14.el9_7.noarch                                          
  go-srpm-macros-epel-3.8.0-1.el9.noarch                                        
  grep-3.6-5.el9.x86_64                                                         
  groff-base-1.22.4-10.el9.x86_64                                               
  gzip-1.12-1.el9.x86_64                                                        
  info-6.7-15.el9.x86_64                                                        
  json-c-0.14-11.el9.x86_64                                                     
  kernel-srpm-macros-1.0-14.el9.noarch                                          
  keyutils-libs-1.6.3-1.el9.x86_64                                              
  krb5-libs-1.21.1-9.el9_7.x86_64                                               
  libacl-2.3.1-4.el9.x86_64                                                     
  libarchive-3.5.3-9.el9_7.x86_64                                               
  libattr-2.5.1-3.el9.x86_64                                                    
  libblkid-2.37.4-21.el9_7.x86_64                                               
  libbrotli-1.0.9-9.el9_7.x86_64                                                
  libcap-2.48-10.el9.x86_64                                                     
  libcap-ng-0.8.2-7.el9.x86_64                                                  
  libcom_err-1.46.5-8.el9.x86_64                                                
  libcurl-7.76.1-35.el9_7.3.x86_64                                              
  libdb-5.3.28-57.el9_6.x86_64                                                  
  libeconf-0.4.1-4.el9.x86_64                                                   
  libevent-2.1.12-8.el9_4.x86_64                                                
  libfdisk-2.37.4-21.el9_7.x86_64                                               
  libffi-3.4.2-8.el9.x86_64                                                     
  libgcc-11.5.0-11.el9.x86_64                                                   
  libgcrypt-1.10.0-11.el9.x86_64                                                
  libgomp-11.5.0-11.el9.x86_64                                                  
  libgpg-error-1.42-5.el9.x86_64                                                
  libidn2-2.3.0-7.el9.x86_64                                                    
  libmount-2.37.4-21.el9_7.x86_64                                               
  libnghttp2-1.43.0-6.el9_7.1.x86_64                                            
  libpkgconf-1.7.3-10.el9.x86_64                                                
  libpsl-0.21.1-5.el9.x86_64                                                    
  libpwquality-1.4.4-8.el9.x86_64                                               
  libselinux-3.6-3.el9.x86_64                                                   
  libsemanage-3.6-5.el9_6.x86_64                                                
  libsepol-3.6-3.el9.x86_64                                                     
  libsigsegv-2.13-4.el9.x86_64                                                  
  libsmartcols-2.37.4-21.el9_7.x86_64                                           
  libssh-0.10.4-17.el9_7.x86_64                                                 
  libssh-config-0.10.4-17.el9_7.noarch                                          
  libstdc++-11.5.0-11.el9.x86_64                                                
  libtasn1-4.16.0-9.el9.x86_64                                                  
  libtool-ltdl-2.4.6-46.el9.x86_64                                              
  libunistring-0.9.10-15.el9.x86_64                                             
  libutempter-1.2.1-6.el9.x86_64                                                
  libuuid-2.37.4-21.el9_7.x86_64                                                
  libverto-0.3.2-3.el9.x86_64                                                   
  libxcrypt-4.4.18-3.el9.x86_64                                                 
  libxml2-2.9.13-14.el9_7.x86_64                                                
  libzstd-1.5.5-1.el9.x86_64                                                    
  lua-libs-5.4.4-4.el9.x86_64                                                   
  lua-srpm-macros-1-6.el9.noarch                                                
  lz4-libs-1.9.3-5.el9.x86_64                                                   
  mpfr-4.1.0-7.el9.x86_64                                                       
  ncurses-6.2-12.20210508.el9.x86_64                                            
  ncurses-base-6.2-12.20210508.el9.noarch                                       
  ncurses-libs-6.2-12.20210508.el9.x86_64                                       
  ocaml-srpm-macros-6-6.el9.noarch                                              
  openblas-srpm-macros-2-11.el9.noarch                                          
  openldap-2.6.8-4.el9.x86_64                                                   
  openssl-1:3.5.1-7.el9_7.x86_64                                                
  openssl-fips-provider-3.0.7-8.el9.x86_64                                      
  openssl-fips-provider-so-3.0.7-8.el9.x86_64                                   
  openssl-libs-1:3.5.1-7.el9_7.x86_64                                           
  p11-kit-0.25.3-3.el9_5.x86_64                                                 
  p11-kit-trust-0.25.3-3.el9_5.x86_64                                           
  pam-1.5.1-26.el9_6.x86_64                                                     
  patch-2.7.6-16.el9.x86_64                                                     
  pcre-8.44-4.el9.x86_64                                                        
  pcre2-10.40-6.el9.x86_64                                                      
  pcre2-syntax-10.40-6.el9.noarch                                               
  perl-AutoLoader-5.74-481.1.el9_6.noarch                                       
  perl-B-1.80-481.1.el9_6.x86_64                                                
  perl-Carp-1.50-460.el9.noarch                                                 
  perl-Class-Struct-0.66-481.1.el9_6.noarch                                     
  perl-Data-Dumper-2.174-462.el9.x86_64                                         
  perl-Digest-1.19-4.el9.noarch                                                 
  perl-Digest-MD5-2.58-4.el9.x86_64                                             
  perl-Encode-4:3.08-462.el9.x86_64                                             
  perl-Errno-1.30-481.1.el9_6.x86_64                                            
  perl-Exporter-5.74-461.el9.noarch                                             
  perl-Fcntl-1.13-481.1.el9_6.x86_64                                            
  perl-File-Basename-2.85-481.1.el9_6.noarch                                    
  perl-File-Path-2.18-4.el9.noarch                                              
  perl-File-Temp-1:0.231.100-4.el9.noarch                                       
  perl-File-stat-1.09-481.1.el9_6.noarch                                        
  perl-FileHandle-2.03-481.1.el9_6.noarch                                       
  perl-Getopt-Long-1:2.52-4.el9.noarch                                          
  perl-Getopt-Std-1.12-481.1.el9_6.noarch                                       
  perl-HTTP-Tiny-0.076-462.el9.noarch                                           
  perl-IO-1.43-481.1.el9_6.x86_64                                               
  perl-IO-Socket-IP-0.41-5.el9.noarch                                           
  perl-IO-Socket-SSL-2.073-2.el9.noarch                                         
  perl-IPC-Open3-1.21-481.1.el9_6.noarch                                        
  perl-MIME-Base64-3.16-4.el9.x86_64                                            
  perl-Mozilla-CA-20200520-6.el9.noarch                                         
  perl-Net-SSLeay-1.94-3.el9.x86_64                                             
  perl-POSIX-1.94-481.1.el9_6.x86_64                                            
  perl-PathTools-3.78-461.el9.x86_64                                            
  perl-Pod-Escapes-1:1.07-460.el9.noarch                                        
  perl-Pod-Perldoc-3.28.01-461.el9.noarch                                       
  perl-Pod-Simple-1:3.42-4.el9.noarch                                           
  perl-Pod-Usage-4:2.01-4.el9.noarch                                            
  perl-Scalar-List-Utils-4:1.56-462.el9.x86_64                                  
  perl-SelectSaver-1.02-481.1.el9_6.noarch                                      
  perl-Socket-4:2.031-4.el9.x86_64                                              
  perl-Storable-1:3.21-460.el9.x86_64                                           
  perl-Symbol-1.08-481.1.el9_6.noarch                                           
  perl-Term-ANSIColor-5.01-461.el9.noarch                                       
  perl-Term-Cap-1.17-460.el9.noarch                                             
  perl-Text-ParseWords-3.30-460.el9.noarch                                      
  perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch                                  
  perl-Time-Local-2:1.300-7.el9.noarch                                          
  perl-URI-5.09-3.el9.noarch                                                    
  perl-base-2.27-481.1.el9_6.noarch                                             
  perl-constant-1.33-461.el9.noarch                                             
  perl-if-0.60.800-481.1.el9_6.noarch                                           
  perl-interpreter-4:5.32.1-481.1.el9_6.x86_64                                  
  perl-libnet-3.13-4.el9.noarch                                                 
  perl-libs-4:5.32.1-481.1.el9_6.x86_64                                         
  perl-mro-1.23-481.1.el9_6.x86_64                                              
  perl-overload-1.31-481.1.el9_6.noarch                                         
  perl-overloading-0.02-481.1.el9_6.noarch                                      
  perl-parent-1:0.238-460.el9.noarch                                            
  perl-podlators-1:4.14-460.el9.noarch                                          
  perl-srpm-macros-1-41.el9.noarch                                              
  perl-subs-1.03-481.1.el9_6.noarch                                             
  perl-vars-1.05-481.1.el9_6.noarch                                             
  pkgconf-1.7.3-10.el9.x86_64                                                   
  pkgconf-m4-1.7.3-10.el9.noarch                                                
  pkgconf-pkg-config-1.7.3-10.el9.x86_64                                        
  popt-1.18-8.el9.x86_64                                                        
  publicsuffix-list-dafsa-20210518-3.el9.noarch                                 
  pyproject-srpm-macros-1.16.2-1.el9.noarch                                     
  python-srpm-macros-3.9-54.el9.noarch                                          
  qt5-srpm-macros-5.15.9-1.el9.noarch                                           
  qt6-srpm-macros-6.6.2-1.el9.noarch                                            
  readline-8.1-4.el9.x86_64                                                     
  redhat-release-9.7-0.7.el9.x86_64                                             
  redhat-rpm-config-210-1.el9.noarch                                            
  rpm-4.16.1.3-39.el9.x86_64                                                    
  rpm-build-4.16.1.3-39.el9.x86_64                                              
  rpm-build-libs-4.16.1.3-39.el9.x86_64                                         
  rpm-libs-4.16.1.3-39.el9.x86_64                                               
  rpmautospec-rpm-macros-0.8.4-1.el9.noarch                                     
  rust-srpm-macros-17-4.el9.noarch                                              
  rust-srpm-macros-epel-26.3-1.el9.noarch                                       
  sed-4.8-9.el9.x86_64                                                          
  setup-2.13.7-10.el9.noarch                                                    
  shadow-utils-2:4.9-15.el9.x86_64                                              
  sqlite-libs-3.34.1-9.el9_7.x86_64                                             
  systemd-libs-252-55.el9_7.8.x86_64                                            
  tar-2:1.34-9.el9_7.x86_64                                                     
  tzdata-2026a-1.el9.noarch                                                     
  unzip-6.0-59.el9.x86_64                                                       
  util-linux-2.37.4-21.el9_7.x86_64                                             
  util-linux-core-2.37.4-21.el9_7.x86_64                                        
  which-2.21-30.el9_6.x86_64                                                    
  xz-5.2.5-8.el9_0.x86_64                                                       
  xz-libs-5.2.5-8.el9_0.x86_64                                                  
  zip-3.0-35.el9.x86_64                                                         
  zlib-1.2.11-40.el9.x86_64                                                     
  zstd-1.5.5-1.el9.x86_64                                                       

Complete!
Finish: installing minimal buildroot with dnf
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: R-srpm-macros-1.3.7-1.el9.noarch
alternatives-1.24-2.el9.x86_64
ansible-srpm-macros-1-16.el9.noarch
audit-libs-3.1.5-7.el9.x86_64
basesystem-11-13.el9.noarch
bash-5.1.8-9.el9.x86_64
binutils-2.35.2-67.el9_7.1.x86_64
binutils-gold-2.35.2-67.el9_7.1.x86_64
bzip2-1.0.8-10.el9_5.x86_64
bzip2-libs-1.0.8-10.el9_5.x86_64
ca-certificates-2025.2.80_v9.0.305-91.el9.noarch
coreutils-8.32-39.el9.x86_64
coreutils-common-8.32-39.el9.x86_64
cpio-2.13-16.el9.x86_64
cracklib-2.9.6-27.el9.x86_64
cracklib-dicts-2.9.6-27.el9.x86_64
crypto-policies-20250905-1.git377cc42.el9_7.noarch
curl-7.76.1-35.el9_7.3.x86_64
cyrus-sasl-lib-2.1.27-22.el9.x86_64
debugedit-5.0-11.el9.x86_64
diffutils-3.7-12.el9.x86_64
dwz-0.16-1.el9.x86_64
ed-1.14.2-12.el9.x86_64
efi-srpm-macros-6-4.el9.noarch
elfutils-0.193-1.el9.x86_64
elfutils-debuginfod-client-0.193-1.el9.x86_64
elfutils-default-yama-scope-0.193-1.el9.noarch
elfutils-libelf-0.193-1.el9.x86_64
elfutils-libs-0.193-1.el9.x86_64
epel-rpm-macros-9-18.el9.noarch
file-5.39-16.el9.x86_64
file-libs-5.39-16.el9.x86_64
filesystem-3.16-5.el9.x86_64
findutils-4.8.0-7.el9.x86_64
fonts-srpm-macros-2.0.5-7.el9.1.noarch
forge-srpm-macros-0.4.0-1.el9.noarch
fpc-srpm-macros-1.3-7.el9.noarch
gawk-5.1.0-6.el9.x86_64
gdb-minimal-16.3-2.el9.x86_64
gdbm-libs-1.23-1.el9.x86_64
ghc-srpm-macros-1.5.0-6.el9.noarch
ghc-srpm-macros-epel-1.9.1-1.el9.noarch
glibc-2.34-231.el9_7.10.x86_64
glibc-common-2.34-231.el9_7.10.x86_64
glibc-gconv-extra-2.34-231.el9_7.10.x86_64
glibc-minimal-langpack-2.34-231.el9_7.10.x86_64
gmp-6.2.0-13.el9.x86_64
go-srpm-macros-3.6.0-14.el9_7.noarch
go-srpm-macros-epel-3.8.0-1.el9.noarch
gpg-pubkey-3228467c-613798eb
gpg-pubkey-5a6340b3-6229229e
gpg-pubkey-fd431d51-4ae0493b
grep-3.6-5.el9.x86_64
groff-base-1.22.4-10.el9.x86_64
gzip-1.12-1.el9.x86_64
info-6.7-15.el9.x86_64
json-c-0.14-11.el9.x86_64
kernel-srpm-macros-1.0-14.el9.noarch
keyutils-libs-1.6.3-1.el9.x86_64
krb5-libs-1.21.1-9.el9_7.x86_64
libacl-2.3.1-4.el9.x86_64
libarchive-3.5.3-9.el9_7.x86_64
libattr-2.5.1-3.el9.x86_64
libblkid-2.37.4-21.el9_7.x86_64
libbrotli-1.0.9-9.el9_7.x86_64
libcap-2.48-10.el9.x86_64
libcap-ng-0.8.2-7.el9.x86_64
libcom_err-1.46.5-8.el9.x86_64
libcurl-7.76.1-35.el9_7.3.x86_64
libdb-5.3.28-57.el9_6.x86_64
libeconf-0.4.1-4.el9.x86_64
libevent-2.1.12-8.el9_4.x86_64
libfdisk-2.37.4-21.el9_7.x86_64
libffi-3.4.2-8.el9.x86_64
libgcc-11.5.0-11.el9.x86_64
libgcrypt-1.10.0-11.el9.x86_64
libgomp-11.5.0-11.el9.x86_64
libgpg-error-1.42-5.el9.x86_64
libidn2-2.3.0-7.el9.x86_64
libmount-2.37.4-21.el9_7.x86_64
libnghttp2-1.43.0-6.el9_7.1.x86_64
libpkgconf-1.7.3-10.el9.x86_64
libpsl-0.21.1-5.el9.x86_64
libpwquality-1.4.4-8.el9.x86_64
libselinux-3.6-3.el9.x86_64
libsemanage-3.6-5.el9_6.x86_64
libsepol-3.6-3.el9.x86_64
libsigsegv-2.13-4.el9.x86_64
libsmartcols-2.37.4-21.el9_7.x86_64
libssh-0.10.4-17.el9_7.x86_64
libssh-config-0.10.4-17.el9_7.noarch
libstdc++-11.5.0-11.el9.x86_64
libtasn1-4.16.0-9.el9.x86_64
libtool-ltdl-2.4.6-46.el9.x86_64
libunistring-0.9.10-15.el9.x86_64
libutempter-1.2.1-6.el9.x86_64
libuuid-2.37.4-21.el9_7.x86_64
libverto-0.3.2-3.el9.x86_64
libxcrypt-4.4.18-3.el9.x86_64
libxml2-2.9.13-14.el9_7.x86_64
libzstd-1.5.5-1.el9.x86_64
lua-libs-5.4.4-4.el9.x86_64
lua-srpm-macros-1-6.el9.noarch
lz4-libs-1.9.3-5.el9.x86_64
mpfr-4.1.0-7.el9.x86_64
ncurses-6.2-12.20210508.el9.x86_64
ncurses-base-6.2-12.20210508.el9.noarch
ncurses-libs-6.2-12.20210508.el9.x86_64
ocaml-srpm-macros-6-6.el9.noarch
openblas-srpm-macros-2-11.el9.noarch
openldap-2.6.8-4.el9.x86_64
openssl-3.5.1-7.el9_7.x86_64
openssl-fips-provider-3.0.7-8.el9.x86_64
openssl-fips-provider-so-3.0.7-8.el9.x86_64
openssl-libs-3.5.1-7.el9_7.x86_64
p11-kit-0.25.3-3.el9_5.x86_64
p11-kit-trust-0.25.3-3.el9_5.x86_64
pam-1.5.1-26.el9_6.x86_64
patch-2.7.6-16.el9.x86_64
pcre-8.44-4.el9.x86_64
pcre2-10.40-6.el9.x86_64
pcre2-syntax-10.40-6.el9.noarch
perl-AutoLoader-5.74-481.1.el9_6.noarch
perl-B-1.80-481.1.el9_6.x86_64
perl-Carp-1.50-460.el9.noarch
perl-Class-Struct-0.66-481.1.el9_6.noarch
perl-Data-Dumper-2.174-462.el9.x86_64
perl-Digest-1.19-4.el9.noarch
perl-Digest-MD5-2.58-4.el9.x86_64
perl-Encode-3.08-462.el9.x86_64
perl-Errno-1.30-481.1.el9_6.x86_64
perl-Exporter-5.74-461.el9.noarch
perl-Fcntl-1.13-481.1.el9_6.x86_64
perl-File-Basename-2.85-481.1.el9_6.noarch
perl-File-Path-2.18-4.el9.noarch
perl-File-Temp-0.231.100-4.el9.noarch
perl-File-stat-1.09-481.1.el9_6.noarch
perl-FileHandle-2.03-481.1.el9_6.noarch
perl-Getopt-Long-2.52-4.el9.noarch
perl-Getopt-Std-1.12-481.1.el9_6.noarch
perl-HTTP-Tiny-0.076-462.el9.noarch
perl-IO-1.43-481.1.el9_6.x86_64
perl-IO-Socket-IP-0.41-5.el9.noarch
perl-IO-Socket-SSL-2.073-2.el9.noarch
perl-IPC-Open3-1.21-481.1.el9_6.noarch
perl-MIME-Base64-3.16-4.el9.x86_64
perl-Mozilla-CA-20200520-6.el9.noarch
perl-Net-SSLeay-1.94-3.el9.x86_64
perl-POSIX-1.94-481.1.el9_6.x86_64
perl-PathTools-3.78-461.el9.x86_64
perl-Pod-Escapes-1.07-460.el9.noarch
perl-Pod-Perldoc-3.28.01-461.el9.noarch
perl-Pod-Simple-3.42-4.el9.noarch
perl-Pod-Usage-2.01-4.el9.noarch
perl-Scalar-List-Utils-1.56-462.el9.x86_64
perl-SelectSaver-1.02-481.1.el9_6.noarch
perl-Socket-2.031-4.el9.x86_64
perl-Storable-3.21-460.el9.x86_64
perl-Symbol-1.08-481.1.el9_6.noarch
perl-Term-ANSIColor-5.01-461.el9.noarch
perl-Term-Cap-1.17-460.el9.noarch
perl-Text-ParseWords-3.30-460.el9.noarch
perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch
perl-Time-Local-1.300-7.el9.noarch
perl-URI-5.09-3.el9.noarch
perl-base-2.27-481.1.el9_6.noarch
perl-constant-1.33-461.el9.noarch
perl-if-0.60.800-481.1.el9_6.noarch
perl-interpreter-5.32.1-481.1.el9_6.x86_64
perl-libnet-3.13-4.el9.noarch
perl-libs-5.32.1-481.1.el9_6.x86_64
perl-mro-1.23-481.1.el9_6.x86_64
perl-overload-1.31-481.1.el9_6.noarch
perl-overloading-0.02-481.1.el9_6.noarch
perl-parent-0.238-460.el9.noarch
perl-podlators-4.14-460.el9.noarch
perl-srpm-macros-1-41.el9.noarch
perl-subs-1.03-481.1.el9_6.noarch
perl-vars-1.05-481.1.el9_6.noarch
pkgconf-1.7.3-10.el9.x86_64
pkgconf-m4-1.7.3-10.el9.noarch
pkgconf-pkg-config-1.7.3-10.el9.x86_64
popt-1.18-8.el9.x86_64
publicsuffix-list-dafsa-20210518-3.el9.noarch
pyproject-srpm-macros-1.16.2-1.el9.noarch
python-srpm-macros-3.9-54.el9.noarch
qt5-srpm-macros-5.15.9-1.el9.noarch
qt6-srpm-macros-6.6.2-1.el9.noarch
readline-8.1-4.el9.x86_64
redhat-release-9.7-0.7.el9.x86_64
redhat-rpm-config-210-1.el9.noarch
rpm-4.16.1.3-39.el9.x86_64
rpm-build-4.16.1.3-39.el9.x86_64
rpm-build-libs-4.16.1.3-39.el9.x86_64
rpm-libs-4.16.1.3-39.el9.x86_64
rpmautospec-rpm-macros-0.8.4-1.el9.noarch
rust-srpm-macros-17-4.el9.noarch
rust-srpm-macros-epel-26.3-1.el9.noarch
sed-4.8-9.el9.x86_64
setup-2.13.7-10.el9.noarch
shadow-utils-4.9-15.el9.x86_64
sqlite-libs-3.34.1-9.el9_7.x86_64
systemd-libs-252-55.el9_7.8.x86_64
tar-1.34-9.el9_7.x86_64
tzdata-2026a-1.el9.noarch
unzip-6.0-59.el9.x86_64
util-linux-2.37.4-21.el9_7.x86_64
util-linux-core-2.37.4-21.el9_7.x86_64
which-2.21-30.el9_6.x86_64
xz-5.2.5-8.el9_0.x86_64
xz-libs-5.2.5-8.el9_0.x86_64
zip-3.0-35.el9.x86_64
zlib-1.2.11-40.el9.x86_64
zstd-1.5.5-1.el9.x86_64
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1674172800
Wrote: /builddir/build/SRPMS/pymol-2.5.0-7.el9.src.rpm
Finish: rpmbuild -bs
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/rhel+epel-9-x86_64-1777473279.065068/root/var/log/dnf.rpm.log
/var/lib/mock/rhel+epel-9-x86_64-1777473279.065068/root/var/log/dnf.librepo.log
/var/lib/mock/rhel+epel-9-x86_64-1777473279.065068/root/var/log/dnf.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-0i8glcdd/pymol/pymol.spec) Config(child) 1 minutes 2 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-2.5.0-7.el9.src.rpm)  Config(rhel+epel-9-x86_64)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1777473279.065068/root.
INFO: reusing tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1777473279.065068/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/rhel+epel-9-x86_64-1777473279.065068/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-4.16.1.3-39.el9.x86_64
  python3-dnf-4.14.0-31.el9.noarch
  python3-dnf-plugins-core-4.3.0-24.el9_7.noarch
  yum-4.14.0-31.el9.noarch
Finish: chroot init
Start: build phase for pymol-2.5.0-7.el9.src.rpm
Start: build setup for pymol-2.5.0-7.el9.src.rpm
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1674172800
Wrote: /builddir/build/SRPMS/pymol-2.5.0-7.el9.src.rpm
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

This system is not registered with an entitlement server. You can use subscription-manager to register.

Copr repository                                  51 kB/s | 1.5 kB     00:00    
Red Hat Enterprise Linux - BaseOS                38 kB/s | 4.1 kB     00:00    
Red Hat Enterprise Linux - AppStream             29 kB/s | 4.5 kB     00:00    
Red Hat Enterprise Linux - CodeReady Linux Buil  39 kB/s | 4.5 kB     00:00    
Extra Packages for Enterprise Linux 9 - x86_64  211 kB/s |  24 kB     00:00    
Dependencies resolved.
====================================================================================================
 Package                            Arch    Version                         Repository          Size
====================================================================================================
Installing:
 catch-devel                        x86_64  3.8.1-1.el9                     epel               229 k
 desktop-file-utils                 x86_64  0.26-6.el9                      appstream           78 k
 freeglut-devel                     x86_64  3.2.1-10.el9                    appstream          148 k
 freetype-devel                     x86_64  2.10.4-10.el9_5                 appstream          1.1 M
 gcc-c++                            x86_64  11.5.0-11.el9                   appstream           13 M
 glew-devel                         x86_64  2.2.0-2.el9                     epel               217 k
 glm-devel                          noarch  0.9.9.8-3.el9                   codeready-builder  330 k
 libappstream-glib                  x86_64  0.7.18-5.el9_4                  appstream          399 k
 libpng-devel                       x86_64  2:1.6.37-12.el9_7.2             appstream          299 k
 libxml2-devel                      x86_64  2.9.13-14.el9_7                 appstream          899 k
 mesa-libGL-devel                   x86_64  25.0.7-5.el9_7                  appstream           34 k
 mmtf-cpp-devel                     x86_64  1.1.0-9.el9                     copr_base           30 k
 msgpack-devel                      x86_64  3.1.0-9.el9                     epel               312 k
 netcdf-devel                       x86_64  4.8.1-2.el9                     epel               114 k
 python3-devel                      x86_64  3.9.25-3.el9_7.3                appstream          252 k
 python3-mmtf                       noarch  1.1.3-4.el9                     epel                55 k
 python3-numpy                      x86_64  1:1.23.5-2.el9_7                appstream          6.1 M
 python3-qt5-devel                  x86_64  5.15.9-1.el9                    codeready-builder  573 k
 python3-setuptools                 noarch  53.0.0-15.el9                   baseos             936 k
 python3-simplejson                 x86_64  3.17.6-1.el9                    epel               264 k
Installing dependencies:
 adobe-source-code-pro-fonts        noarch  2.030.1.050-12.el9.1            baseos             836 k
 alsa-lib                           x86_64  1.2.14-1.el9                    appstream          529 k
 annobin                            x86_64  12.98-1.el9                     appstream          1.1 M
 avahi-libs                         x86_64  0.8-23.el9                      baseos              67 k
 bluez-libs                         x86_64  5.83-2.el9                      baseos              81 k
 brotli                             x86_64  1.0.9-9.el9_7                   appstream          317 k
 brotli-devel                       x86_64  1.0.9-9.el9_7                   appstream           37 k
 bzip2-devel                        x86_64  1.0.8-10.el9_5                  appstream          215 k
 cairo                              x86_64  1.17.4-7.el9                    appstream          664 k
 catch                              x86_64  3.8.1-1.el9                     epel               314 k
 cmake                              x86_64  3.26.5-3.el9_7                  appstream          8.7 M
 cmake-data                         noarch  3.26.5-3.el9_7                  appstream          2.4 M
 cmake-filesystem                   x86_64  3.26.5-3.el9_7                  appstream           18 k
 cmake-rpm-macros                   noarch  3.26.5-3.el9_7                  appstream          9.7 k
 cpp                                x86_64  11.5.0-11.el9                   appstream           11 M
 cups-libs                          x86_64  1:2.3.3op2-34.el9_7.2           baseos             260 k
 dbus-libs                          x86_64  1:1.12.20-8.el9                 baseos             154 k
 dejavu-sans-fonts                  noarch  2.37-18.el9                     baseos             1.3 M
 emacs-filesystem                   noarch  1:27.2-18.el9                   appstream          9.3 k
 expat                              x86_64  2.5.0-5.el9_7.1                 baseos             117 k
 flac-libs                          x86_64  1.3.3-10.el9_2.1                appstream          221 k
 flexiblas                          x86_64  3.0.4-8.el9                     appstream           34 k
 flexiblas-netlib                   x86_64  3.0.4-8.el9                     appstream          3.0 M
 flexiblas-openblas-openmp          x86_64  3.0.4-8.el9                     appstream           19 k
 fontconfig                         x86_64  2.14.0-2.el9_1                  appstream          301 k
 fonts-filesystem                   noarch  1:2.0.5-7.el9.1                 baseos              11 k
 freeglut                           x86_64  3.2.1-10.el9                    appstream          195 k
 freetype                           x86_64  2.10.4-10.el9_5                 baseos             389 k
 fribidi                            x86_64  1.0.10-6.el9.2                  appstream           89 k
 gcc                                x86_64  11.5.0-11.el9                   appstream           32 M
 gcc-gfortran                       x86_64  11.5.0-11.el9                   appstream           13 M
 gcc-plugin-annobin                 x86_64  11.5.0-11.el9                   appstream           37 k
 gdk-pixbuf2                        x86_64  2.42.6-6.el9_7.1                appstream          498 k
 gl-manpages                        noarch  1.1-24.20190306.el9             appstream          1.2 M
 glib-networking                    x86_64  2.68.3-3.el9                    baseos             190 k
 glib2                              x86_64  2.68.4-18.el9_7.1               baseos             2.6 M
 glib2-devel                        x86_64  2.68.4-18.el9_7.1               appstream          557 k
 glibc-devel                        x86_64  2.34-231.el9_7.10               appstream           43 k
 glibc-headers                      x86_64  2.34-231.el9_7.10               appstream          551 k
 glx-utils                          x86_64  8.4.0-12.20210504git0f9e7d9.el9 appstream           44 k
 gnutls                             x86_64  3.8.3-10.el9_7                  baseos             1.1 M
 graphene                           x86_64  1.10.6-2.el9                    appstream           67 k
 graphite2                          x86_64  1.3.14-9.el9                    baseos              98 k
 graphite2-devel                    x86_64  1.3.14-9.el9                    appstream           24 k
 gsettings-desktop-schemas          x86_64  40.0-8.el9_7                    baseos             682 k
 gsm                                x86_64  1.0.19-6.el9                    appstream           36 k
 gstreamer1                         x86_64  1.22.12-3.el9                   appstream          1.5 M
 gstreamer1-plugins-bad-free-libs   x86_64  1.22.12-5.el9_7                 appstream          778 k
 gstreamer1-plugins-base            x86_64  1.22.12-5.el9_7                 appstream          2.3 M
 harfbuzz                           x86_64  2.7.4-10.el9                    baseos             629 k
 harfbuzz-devel                     x86_64  2.7.4-10.el9                    appstream          351 k
 harfbuzz-icu                       x86_64  2.7.4-10.el9                    appstream           15 k
 hdf-libs                           x86_64  4.2.15-7.el9                    epel               294 k
 hdf5                               x86_64  1.12.1-7.el9.1                  epel               2.2 M
 hdf5-devel                         x86_64  1.12.1-7.el9.1                  epel               1.3 M
 hwdata                             noarch  0.348-9.20.el9                  baseos             1.7 M
 iso-codes                          noarch  4.6.0-3.el9                     appstream          3.5 M
 json-glib                          x86_64  1.6.6-1.el9                     baseos             167 k
 kernel-headers                     x86_64  5.14.0-611.49.1.el9_7           appstream          2.9 M
 langpacks-core-font-en             noarch  3.0-16.el9                      appstream           11 k
 libGLEW                            x86_64  2.2.0-2.el9                     epel               173 k
 libICE                             x86_64  1.0.10-8.el9                    appstream           73 k
 libSM                              x86_64  1.2.3-10.el9                    appstream           44 k
 libX11                             x86_64  1.7.0-11.el9                    appstream          648 k
 libX11-common                      noarch  1.7.0-11.el9                    appstream          209 k
 libX11-devel                       x86_64  1.7.0-11.el9                    appstream          1.1 M
 libX11-xcb                         x86_64  1.7.0-11.el9                    appstream           12 k
 libXau                             x86_64  1.0.9-8.el9                     appstream           34 k
 libXau-devel                       x86_64  1.0.9-8.el9                     appstream           17 k
 libXext                            x86_64  1.3.4-8.el9                     appstream           42 k
 libXfixes                          x86_64  5.0.3-16.el9                    appstream           22 k
 libXft                             x86_64  2.3.3-8.el9                     appstream           64 k
 libXi                              x86_64  1.7.10-8.el9                    appstream           41 k
 libXrender                         x86_64  0.9.10-16.el9                   appstream           30 k
 libXv                              x86_64  1.0.11-16.el9                   appstream           21 k
 libXxf86vm                         x86_64  1.1.4-18.el9                    appstream           21 k
 libaec                             x86_64  1.0.6-1.el9                     epel                41 k
 libaec-devel                       x86_64  1.0.6-1.el9                     epel                12 k
 libasyncns                         x86_64  0.8-22.el9                      appstream           32 k
 libblkid-devel                     x86_64  2.37.4-21.el9_7                 appstream           21 k
 libcurl-devel                      x86_64  7.76.1-35.el9_7.3               appstream          974 k
 libdatrie                          x86_64  0.2.13-4.el9                    appstream           34 k
 libdrm                             x86_64  2.4.123-2.el9                   appstream          165 k
 libdrm-devel                       x86_64  2.4.123-2.el9                   appstream          185 k
 libedit                            x86_64  3.1-38.20210216cvs.el9          baseos             107 k
 libevdev                           x86_64  1.11.0-3.el9                    appstream           47 k
 libffi-devel                       x86_64  3.4.2-8.el9                     appstream           32 k
 libgfortran                        x86_64  11.5.0-11.el9                   baseos             794 k
 libglvnd                           x86_64  1:1.3.4-1.el9                   appstream          137 k
 libglvnd-core-devel                x86_64  1:1.3.4-1.el9                   appstream           19 k
 libglvnd-devel                     x86_64  1:1.3.4-1.el9                   appstream          165 k
 libglvnd-egl                       x86_64  1:1.3.4-1.el9                   appstream           39 k
 libglvnd-gles                      x86_64  1:1.3.4-1.el9                   appstream           34 k
 libglvnd-glx                       x86_64  1:1.3.4-1.el9                   appstream          147 k
 libglvnd-opengl                    x86_64  1:1.3.4-1.el9                   appstream           45 k
 libgudev                           x86_64  237-1.el9                       baseos              38 k
 libicu                             x86_64  67.1-10.el9_6                   baseos             9.6 M
 libicu-devel                       x86_64  67.1-10.el9_6                   appstream          938 k
 libinput                           x86_64  1.19.3-8.el9_7                  appstream          215 k
 libjpeg-turbo                      x86_64  2.0.90-7.el9                    appstream          178 k
 libmount-devel                     x86_64  2.37.4-21.el9_7                 appstream           22 k
 libmpc                             x86_64  1.2.1-4.el9                     appstream           65 k
 libogg                             x86_64  2:1.3.4-6.el9                   appstream           36 k
 libpciaccess                       x86_64  0.16-7.el9                      baseos              29 k
 libpciaccess-devel                 x86_64  0.16-7.el9                      appstream           13 k
 libpng                             x86_64  2:1.6.37-12.el9_7.2             baseos             122 k
 libproxy                           x86_64  0.4.15-35.el9                   baseos              78 k
 libquadmath                        x86_64  11.5.0-11.el9                   baseos             184 k
 libquadmath-devel                  x86_64  11.5.0-11.el9                   appstream           25 k
 libselinux-devel                   x86_64  3.6-3.el9                       appstream          163 k
 libsepol-devel                     x86_64  3.6-3.el9                       appstream           51 k
 libsndfile                         x86_64  1.0.31-9.el9                    appstream          209 k
 libsoup                            x86_64  2.72.0-12.el9_7.5               appstream          411 k
 libstdc++-devel                    x86_64  11.5.0-11.el9                   appstream          2.4 M
 libstemmer                         x86_64  0-18.585svn.el9                 appstream           85 k
 libthai                            x86_64  0.1.28-8.el9                    appstream          211 k
 libtheora                          x86_64  1:1.1.1-31.el9                  appstream          167 k
 libtirpc                           x86_64  1.3.3-9.el9                     baseos              97 k
 libuv                              x86_64  1:1.42.0-2.el9_4                appstream          151 k
 libva                              x86_64  2.22.0-1.el9                    appstream          120 k
 libvorbis                          x86_64  1:1.3.7-5.el9                   appstream          197 k
 libwacom                           x86_64  1.12.1-6.el9_7                  appstream           44 k
 libwacom-data                      noarch  1.12.1-6.el9_7                  appstream          207 k
 libwayland-client                  x86_64  1.21.0-1.el9                    appstream           35 k
 libwayland-cursor                  x86_64  1.21.0-1.el9                    appstream           21 k
 libwayland-egl                     x86_64  1.21.0-1.el9                    appstream           14 k
 libwayland-server                  x86_64  1.21.0-1.el9                    appstream           43 k
 libxcb                             x86_64  1.13.1-9.el9                    appstream          247 k
 libxcb-devel                       x86_64  1.13.1-9.el9                    appstream          1.5 M
 libxcrypt-devel                    x86_64  4.4.18-3.el9                    appstream           32 k
 libxkbcommon                       x86_64  1.0.3-4.el9                     appstream          136 k
 libxkbcommon-x11                   x86_64  1.0.3-4.el9                     appstream           23 k
 libxshmfence                       x86_64  1.3-10.el9                      appstream           14 k
 llvm-filesystem                    x86_64  20.1.8-3.el9                    appstream          9.2 k
 llvm-libs                          x86_64  20.1.8-3.el9                    appstream           30 M
 make                               x86_64  1:4.3-8.el9                     baseos             541 k
 mesa-dri-drivers                   x86_64  25.0.7-5.el9_7                  appstream          9.7 M
 mesa-filesystem                    x86_64  25.0.7-5.el9_7                  appstream           17 k
 mesa-libEGL                        x86_64  25.0.7-5.el9_7                  appstream          142 k
 mesa-libEGL-devel                  x86_64  25.0.7-5.el9_7                  appstream           20 k
 mesa-libGL                         x86_64  25.0.7-5.el9_7                  appstream          161 k
 mesa-libGLU                        x86_64  9.0.1-6.el9                     appstream          149 k
 mesa-libGLU-devel                  x86_64  9.0.1-6.el9                     appstream           15 k
 mesa-libgbm                        x86_64  25.0.7-5.el9_7                  appstream           23 k
 mesa-vulkan-drivers                x86_64  25.0.7-5.el9_7                  appstream           11 M
 msgpack                            x86_64  3.1.0-9.el9                     epel                30 k
 mtdev                              x86_64  1.1.5-22.el9                    appstream           23 k
 netcdf                             x86_64  4.8.1-2.el9                     epel               731 k
 nettle                             x86_64  3.10.1-1.el9                    baseos             568 k
 openal-soft                        x86_64  1.19.1-16.el9                   appstream          539 k
 openblas                           x86_64  0.3.29-1.el9                    appstream           42 k
 openblas-openmp                    x86_64  0.3.29-1.el9                    appstream          5.3 M
 opus                               x86_64  1.3.1-10.el9                    appstream          201 k
 orc                                x86_64  0.4.31-8.el9                    appstream          187 k
 pango                              x86_64  1.48.7-3.el9                    appstream          306 k
 pcre-cpp                           x86_64  8.44-4.el9                      appstream           27 k
 pcre-devel                         x86_64  8.44-4.el9                      appstream          510 k
 pcre-utf16                         x86_64  8.44-4.el9                      appstream          186 k
 pcre-utf32                         x86_64  8.44-4.el9                      appstream          177 k
 pcre2-devel                        x86_64  10.40-6.el9                     appstream          516 k
 pcre2-utf16                        x86_64  10.40-6.el9                     appstream          215 k
 pcre2-utf32                        x86_64  10.40-6.el9                     appstream          204 k
 perl-English                       noarch  1.11-481.1.el9_6                appstream           13 k
 perl-File-Find                     noarch  1.37-481.1.el9_6                appstream           25 k
 pixman                             x86_64  0.40.0-6.el9_3                  appstream          271 k
 pulseaudio-libs                    x86_64  15.0-3.el9                      appstream          679 k
 pyproject-rpm-macros               noarch  1.16.2-1.el9                    codeready-builder   46 k
 python-qt5-rpm-macros              noarch  5.15.9-1.el9                    appstream          8.5 k
 python-rpm-macros                  noarch  3.9-54.el9                      appstream           16 k
 python3                            x86_64  3.9.25-3.el9_7.3                baseos              33 k
 python3-dbus                       x86_64  1.2.18-2.el9                    baseos             148 k
 python3-libs                       x86_64  3.9.25-3.el9_7.3                baseos             8.1 M
 python3-msgpack                    x86_64  1.0.3-2.el9                     epel                86 k
 python3-packaging                  noarch  20.9-5.el9                      appstream           81 k
 python3-pip-wheel                  noarch  21.3.1-1.el9                    baseos             1.1 M
 python3-pyparsing                  noarch  2.4.7-9.el9                     baseos             154 k
 python3-pyqt5-sip                  x86_64  12.11.1-1.el9                   appstream           74 k
 python3-qt5                        x86_64  5.15.9-1.el9                    appstream          1.2 M
 python3-qt5-base                   x86_64  5.15.9-1.el9                    appstream          3.3 M
 python3-rpm-generators             noarch  12-9.el9                        appstream           29 k
 python3-rpm-macros                 noarch  3.9-54.el9                      appstream           10 k
 python3-setuptools-wheel           noarch  53.0.0-15.el9                   baseos             468 k
 qt5-qtbase                         x86_64  5.15.9-11.el9_6                 appstream          3.6 M
 qt5-qtbase-common                  noarch  5.15.9-11.el9_6                 appstream          8.6 k
 qt5-qtbase-devel                   x86_64  5.15.9-11.el9_6                 appstream          3.7 M
 qt5-qtbase-gui                     x86_64  5.15.9-11.el9_6                 appstream          6.3 M
 qt5-qtconnectivity                 x86_64  5.15.9-2.el9                    appstream          467 k
 qt5-qtdeclarative                  x86_64  5.15.9-3.el9                    appstream          4.3 M
 qt5-qtlocation                     x86_64  5.15.9-1.el9                    appstream          3.0 M
 qt5-qtmultimedia                   x86_64  5.15.9-1.el9                    appstream          821 k
 qt5-qtsensors                      x86_64  5.15.9-1.el9                    appstream          232 k
 qt5-qtserialport                   x86_64  5.15.9-1.el9                    appstream           68 k
 qt5-qtsvg                          x86_64  5.15.9-2.el9                    appstream          191 k
 qt5-qttools-common                 noarch  5.15.9-7.el9                    appstream           11 k
 qt5-qttools-libs-designer          x86_64  5.15.9-7.el9                    appstream          2.7 M
 qt5-qttools-libs-help              x86_64  5.15.9-7.el9                    appstream          155 k
 qt5-qtwebchannel                   x86_64  5.15.9-1.el9                    appstream          103 k
 qt5-qtwebsockets                   x86_64  5.15.9-2.el9                    appstream          106 k
 qt5-qtx11extras                    x86_64  5.15.9-1.el9                    appstream           37 k
 qt5-qtxmlpatterns                  x86_64  5.15.9-2.el9                    appstream          1.0 M
 qt5-rpm-macros                     noarch  5.15.9-1.el9                    appstream           11 k
 shared-mime-info                   x86_64  2.1-5.el9                       baseos             561 k
 spirv-tools-libs                   x86_64  2025.2-1.el9                    appstream          1.5 M
 sysprof-capture-devel              x86_64  3.40.1-3.el9                    appstream           64 k
 valgrind-devel                     x86_64  1:3.25.1-3.el9                  appstream           48 k
 vim-filesystem                     noarch  2:8.2.2637-23.el9_7.3           baseos              21 k
 vulkan-headers                     noarch  1.4.313.0-1.el9                 appstream          1.4 M
 vulkan-loader                      x86_64  1.4.313.0-1.el9                 appstream          152 k
 vulkan-loader-devel                x86_64  1.4.313.0-1.el9                 appstream           13 k
 xcb-util                           x86_64  0.4.0-19.el9                    appstream           22 k
 xcb-util-image                     x86_64  0.4.0-19.el9                    appstream           22 k
 xcb-util-keysyms                   x86_64  0.4.0-17.el9                    appstream           16 k
 xcb-util-renderutil                x86_64  0.3.9-20.el9                    appstream           20 k
 xcb-util-wm                        x86_64  0.4.1-22.el9                    appstream           35 k
 xkeyboard-config                   noarch  2.33-2.el9                      appstream          866 k
 xml-common                         noarch  0.6.3-58.el9                    appstream           36 k
 xorg-x11-proto-devel               noarch  2024.1-1.el9                    appstream          314 k
 xz-devel                           x86_64  5.2.5-8.el9_0                   appstream           59 k
 zlib-devel                         x86_64  1.2.11-40.el9                   appstream           47 k

Transaction Summary
====================================================================================================
Install  239 Packages

Total download size: 260 M
Installed size: 976 M
Downloading Packages:
(1/239): mmtf-cpp-devel-1.1.0-9.el9.x86_64.rpm  526 kB/s |  30 kB     00:00    
(2/239): fonts-filesystem-2.0.5-7.el9.1.noarch. 107 kB/s |  11 kB     00:00    
(3/239): graphite2-1.3.14-9.el9.x86_64.rpm      1.1 MB/s |  98 kB     00:00    
(4/239): dejavu-sans-fonts-2.37-18.el9.noarch.r 8.7 MB/s | 1.3 MB     00:00    
(5/239): json-glib-1.6.6-1.el9.x86_64.rpm       1.6 MB/s | 167 kB     00:00    
(6/239): libgudev-237-1.el9.x86_64.rpm          503 kB/s |  38 kB     00:00    
(7/239): libproxy-0.4.15-35.el9.x86_64.rpm      1.1 MB/s |  78 kB     00:00    
(8/239): python3-dbus-1.2.18-2.el9.x86_64.rpm   1.7 MB/s | 148 kB     00:00    
(9/239): python3-pyparsing-2.4.7-9.el9.noarch.r 1.5 MB/s | 154 kB     00:00    
(10/239): adobe-source-code-pro-fonts-2.030.1.0 9.8 MB/s | 836 kB     00:00    
(11/239): shared-mime-info-2.1-5.el9.x86_64.rpm 5.7 MB/s | 561 kB     00:00    
(12/239): glib-networking-2.68.3-3.el9.x86_64.r 831 kB/s | 190 kB     00:00    
(13/239): dbus-libs-1.12.20-8.el9.x86_64.rpm    1.4 MB/s | 154 kB     00:00    
(14/239): libedit-3.1-38.20210216cvs.el9.x86_64 1.2 MB/s | 107 kB     00:00    
(15/239): harfbuzz-2.7.4-10.el9.x86_64.rpm      6.9 MB/s | 629 kB     00:00    
(16/239): make-4.3-8.el9.x86_64.rpm             7.0 MB/s | 541 kB     00:00    
(17/239): libpciaccess-0.16-7.el9.x86_64.rpm    285 kB/s |  29 kB     00:00    
(18/239): libtirpc-1.3.3-9.el9.x86_64.rpm       1.2 MB/s |  97 kB     00:00    
(19/239): python3-pip-wheel-21.3.1-1.el9.noarch  10 MB/s | 1.1 MB     00:00    
(20/239): freetype-2.10.4-10.el9_5.x86_64.rpm   4.9 MB/s | 389 kB     00:00    
(21/239): nettle-3.10.1-1.el9.x86_64.rpm        5.9 MB/s | 568 kB     00:00    
(22/239): bluez-libs-5.83-2.el9.x86_64.rpm      1.0 MB/s |  81 kB     00:00    
(23/239): libquadmath-11.5.0-11.el9.x86_64.rpm  1.9 MB/s | 184 kB     00:00    
(24/239): libicu-67.1-10.el9_6.x86_64.rpm        42 MB/s | 9.6 MB     00:00    
(25/239): avahi-libs-0.8-23.el9.x86_64.rpm      264 kB/s |  67 kB     00:00    
(26/239): python3-setuptools-53.0.0-15.el9.noar  11 MB/s | 936 kB     00:00    
(27/239): python3-setuptools-wheel-53.0.0-15.el 6.0 MB/s | 468 kB     00:00    
(28/239): libgfortran-11.5.0-11.el9.x86_64.rpm  9.6 MB/s | 794 kB     00:00    
(29/239): gsettings-desktop-schemas-40.0-8.el9_ 7.7 MB/s | 682 kB     00:00    
(30/239): hwdata-0.348-9.20.el9.noarch.rpm       11 MB/s | 1.7 MB     00:00    
(31/239): expat-2.5.0-5.el9_7.1.x86_64.rpm      1.3 MB/s | 117 kB     00:00    
(32/239): glib2-2.68.4-18.el9_7.1.x86_64.rpm     25 MB/s | 2.6 MB     00:00    
(33/239): libpng-1.6.37-12.el9_7.2.x86_64.rpm   1.5 MB/s | 122 kB     00:00    
(34/239): cups-libs-2.3.3op2-34.el9_7.2.x86_64. 1.5 MB/s | 260 kB     00:00    
(35/239): gnutls-3.8.3-10.el9_7.x86_64.rpm       14 MB/s | 1.1 MB     00:00    
(36/239): python3-3.9.25-3.el9_7.3.x86_64.rpm   326 kB/s |  33 kB     00:00    
(37/239): python3-libs-3.9.25-3.el9_7.3.x86_64.  65 MB/s | 8.1 MB     00:00    
(38/239): vim-filesystem-8.2.2637-23.el9_7.3.no 203 kB/s |  21 kB     00:00    
(39/239): flexiblas-openblas-openmp-3.0.4-8.el9 252 kB/s |  19 kB     00:00    
(40/239): libXext-1.3.4-8.el9.x86_64.rpm        478 kB/s |  42 kB     00:00    
(41/239): libXv-1.0.11-16.el9.x86_64.rpm        246 kB/s |  21 kB     00:00    
(42/239): libevdev-1.11.0-3.el9.x86_64.rpm      505 kB/s |  47 kB     00:00    
(43/239): libasyncns-0.8-22.el9.x86_64.rpm      209 kB/s |  32 kB     00:00    
(44/239): libglvnd-gles-1.3.4-1.el9.x86_64.rpm  297 kB/s |  34 kB     00:00    
(45/239): libthai-0.1.28-8.el9.x86_64.rpm       2.6 MB/s | 211 kB     00:00    
(46/239): libvorbis-1.3.7-5.el9.x86_64.rpm      2.4 MB/s | 197 kB     00:00    
(47/239): libogg-1.3.4-6.el9.x86_64.rpm         171 kB/s |  36 kB     00:00    
(48/239): libstemmer-0-18.585svn.el9.x86_64.rpm 412 kB/s |  85 kB     00:00    
(49/239): libxcb-devel-1.13.1-9.el9.x86_64.rpm   19 MB/s | 1.5 MB     00:00    
(50/239): libxkbcommon-1.0.3-4.el9.x86_64.rpm   1.2 MB/s | 136 kB     00:00    
(51/239): openal-soft-1.19.1-16.el9.x86_64.rpm  5.3 MB/s | 539 kB     00:00    
(52/239): xkeyboard-config-2.33-2.el9.noarch.rp 8.8 MB/s | 866 kB     00:00    
(53/239): xcb-util-0.4.0-19.el9.x86_64.rpm      156 kB/s |  22 kB     00:00    
(54/239): flexiblas-3.0.4-8.el9.x86_64.rpm      328 kB/s |  34 kB     00:00    
(55/239): gl-manpages-1.1-24.20190306.el9.noarc  11 MB/s | 1.2 MB     00:00    
(56/239): langpacks-core-font-en-3.0-16.el9.noa  92 kB/s |  11 kB     00:00    
(57/239): graphite2-devel-1.3.14-9.el9.x86_64.r 172 kB/s |  24 kB     00:00    
(58/239): libXau-devel-1.0.9-8.el9.x86_64.rpm   202 kB/s |  17 kB     00:00    
(59/239): libXft-2.3.3-8.el9.x86_64.rpm         715 kB/s |  64 kB     00:00    
(60/239): libdatrie-0.2.13-4.el9.x86_64.rpm     421 kB/s |  34 kB     00:00    
(61/239): libglvnd-1.3.4-1.el9.x86_64.rpm       1.6 MB/s | 137 kB     00:00    
(62/239): libglvnd-glx-1.3.4-1.el9.x86_64.rpm   1.8 MB/s | 147 kB     00:00    
(63/239): libglvnd-egl-1.3.4-1.el9.x86_64.rpm   437 kB/s |  39 kB     00:00    
(64/239): glx-utils-8.4.0-12.20210504git0f9e7d9 536 kB/s |  44 kB     00:00    
(65/239): mesa-libGLU-9.0.1-6.el9.x86_64.rpm    1.1 MB/s | 149 kB     00:00    
(66/239): libglvnd-opengl-1.3.4-1.el9.x86_64.rp 282 kB/s |  45 kB     00:00    
(67/239): libICE-1.0.10-8.el9.x86_64.rpm        983 kB/s |  73 kB     00:00    
(68/239): libmpc-1.2.1-4.el9.x86_64.rpm         820 kB/s |  65 kB     00:00    
(69/239): libXi-1.7.10-8.el9.x86_64.rpm         505 kB/s |  41 kB     00:00    
(70/239): xcb-util-keysyms-0.4.0-17.el9.x86_64. 174 kB/s |  16 kB     00:00    
(71/239): libxshmfence-1.3-10.el9.x86_64.rpm    127 kB/s |  14 kB     00:00    
(72/239): libxcrypt-devel-4.4.18-3.el9.x86_64.r 205 kB/s |  32 kB     00:00    
(73/239): libSM-1.2.3-10.el9.x86_64.rpm         562 kB/s |  44 kB     00:00    
(74/239): flexiblas-netlib-3.0.4-8.el9.x86_64.r  28 MB/s | 3.0 MB     00:00    
(75/239): libXxf86vm-1.1.4-18.el9.x86_64.rpm    243 kB/s |  21 kB     00:00    
(76/239): iso-codes-4.6.0-3.el9.noarch.rpm       19 MB/s | 3.5 MB     00:00    
(77/239): libglvnd-devel-1.3.4-1.el9.x86_64.rpm 1.4 MB/s | 165 kB     00:00    
(78/239): mesa-libGLU-devel-9.0.1-6.el9.x86_64. 131 kB/s |  15 kB     00:00    
(79/239): python3-packaging-20.9-5.el9.noarch.r 1.0 MB/s |  81 kB     00:00    
(80/239): opus-1.3.1-10.el9.x86_64.rpm          1.8 MB/s | 201 kB     00:00    
(81/239): sysprof-capture-devel-3.40.1-3.el9.x8 776 kB/s |  64 kB     00:00    
(82/239): xcb-util-image-0.4.0-19.el9.x86_64.rp 296 kB/s |  22 kB     00:00    
(83/239): xcb-util-renderutil-0.3.9-20.el9.x86_ 253 kB/s |  20 kB     00:00    
(84/239): xcb-util-wm-0.4.1-22.el9.x86_64.rpm   435 kB/s |  35 kB     00:00    
(85/239): cairo-1.17.4-7.el9.x86_64.rpm         8.2 MB/s | 664 kB     00:00    
(86/239): xml-common-0.6.3-58.el9.noarch.rpm    303 kB/s |  36 kB     00:00    
(87/239): gsm-1.0.19-6.el9.x86_64.rpm           345 kB/s |  36 kB     00:00    
(88/239): libXau-1.0.9-8.el9.x86_64.rpm         352 kB/s |  34 kB     00:00    
(89/239): graphene-1.10.6-2.el9.x86_64.rpm      428 kB/s |  67 kB     00:00    
(90/239): libXfixes-5.0.3-16.el9.x86_64.rpm     249 kB/s |  22 kB     00:00    
(91/239): libXrender-0.9.10-16.el9.x86_64.rpm   386 kB/s |  30 kB     00:00    
(92/239): libxcb-1.13.1-9.el9.x86_64.rpm        2.4 MB/s | 247 kB     00:00    
(93/239): libxkbcommon-x11-1.0.3-4.el9.x86_64.r 296 kB/s |  23 kB     00:00    
(94/239): libglvnd-core-devel-1.3.4-1.el9.x86_6 264 kB/s |  19 kB     00:00    
(95/239): libtheora-1.1.1-31.el9.x86_64.rpm     2.1 MB/s | 167 kB     00:00    
(96/239): mtdev-1.1.5-22.el9.x86_64.rpm         151 kB/s |  23 kB     00:00    
(97/239): xz-devel-5.2.5-8.el9_0.x86_64.rpm     799 kB/s |  59 kB     00:00    
(98/239): fribidi-1.0.10-6.el9.2.x86_64.rpm     1.2 MB/s |  89 kB     00:00    
(99/239): desktop-file-utils-0.26-6.el9.x86_64. 531 kB/s |  78 kB     00:00    
(100/239): libwayland-egl-1.21.0-1.el9.x86_64.r 190 kB/s |  14 kB     00:00    
(101/239): libwayland-server-1.21.0-1.el9.x86_6 472 kB/s |  43 kB     00:00    
(102/239): libwayland-client-1.21.0-1.el9.x86_6 368 kB/s |  35 kB     00:00    
(103/239): fontconfig-2.14.0-2.el9_1.x86_64.rpm 1.1 MB/s | 301 kB     00:00    
(104/239): libwayland-cursor-1.21.0-1.el9.x86_6 276 kB/s |  21 kB     00:00    
(105/239): pango-1.48.7-3.el9.x86_64.rpm        3.9 MB/s | 306 kB     00:00    
(106/239): python3-qt5-base-5.15.9-1.el9.x86_64  32 MB/s | 3.3 MB     00:00    
(107/239): qt5-qtmultimedia-5.15.9-1.el9.x86_64 8.9 MB/s | 821 kB     00:00    
(108/239): flac-libs-1.3.3-10.el9_2.1.x86_64.rp 1.7 MB/s | 221 kB     00:00    
(109/239): qt5-qtserialport-5.15.9-1.el9.x86_64 711 kB/s |  68 kB     00:00    
(110/239): qt5-rpm-macros-5.15.9-1.el9.noarch.r 104 kB/s |  11 kB     00:00    
(111/239): qt5-qtxmlpatterns-5.15.9-2.el9.x86_6 5.7 MB/s | 1.0 MB     00:00    
(112/239): python-qt5-rpm-macros-5.15.9-1.el9.n 114 kB/s | 8.5 kB     00:00    
(113/239): libffi-devel-3.4.2-8.el9.x86_64.rpm  253 kB/s |  32 kB     00:00    
(114/239): python3-pyqt5-sip-12.11.1-1.el9.x86_ 562 kB/s |  74 kB     00:00    
(115/239): qt5-qtlocation-5.15.9-1.el9.x86_64.r  32 MB/s | 3.0 MB     00:00    
(116/239): qt5-qtwebsockets-5.15.9-2.el9.x86_64 1.3 MB/s | 106 kB     00:00    
(117/239): python3-qt5-5.15.9-1.el9.x86_64.rpm  6.1 MB/s | 1.2 MB     00:00    
(118/239): pixman-0.40.0-6.el9_3.x86_64.rpm     3.2 MB/s | 271 kB     00:00    
(119/239): qt5-qtsvg-5.15.9-2.el9.x86_64.rpm    1.0 MB/s | 191 kB     00:00    
(120/239): qt5-qtx11extras-5.15.9-1.el9.x86_64. 346 kB/s |  37 kB     00:00    
(121/239): qt5-qtdeclarative-5.15.9-3.el9.x86_6  42 MB/s | 4.3 MB     00:00    
(122/239): qt5-qtsensors-5.15.9-1.el9.x86_64.rp 1.9 MB/s | 232 kB     00:00    
(123/239): qt5-qtconnectivity-5.15.9-2.el9.x86_ 3.1 MB/s | 467 kB     00:00    
(124/239): qt5-qtwebchannel-5.15.9-1.el9.x86_64 1.0 MB/s | 103 kB     00:00    
(125/239): freeglut-3.2.1-10.el9.x86_64.rpm     2.1 MB/s | 195 kB     00:00    
(126/239): freeglut-devel-3.2.1-10.el9.x86_64.r 1.6 MB/s | 148 kB     00:00    
(127/239): zlib-devel-1.2.11-40.el9.x86_64.rpm  253 kB/s |  47 kB     00:00    
(128/239): harfbuzz-devel-2.7.4-10.el9.x86_64.r 2.3 MB/s | 351 kB     00:00    
(129/239): harfbuzz-icu-2.7.4-10.el9.x86_64.rpm 148 kB/s |  15 kB     00:00    
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(131/239): python3-rpm-generators-12-9.el9.noar 392 kB/s |  29 kB     00:00    
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(158/239): qt5-qtbase-5.15.9-11.el9_6.x86_64.rp  27 MB/s | 3.6 MB     00:00    
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(163/239): qt5-qtbase-gui-5.15.9-11.el9_6.x86_6  56 MB/s | 6.3 MB     00:00    
(164/239): perl-English-1.11-481.1.el9_6.noarch 165 kB/s |  13 kB     00:00    
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(168/239): emacs-filesystem-27.2-18.el9.noarch.  63 kB/s | 9.3 kB     00:00    
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(176/239): gcc-plugin-annobin-11.5.0-11.el9.x86 462 kB/s |  37 kB     00:00    
(177/239): gcc-c++-11.5.0-11.el9.x86_64.rpm      75 MB/s |  13 MB     00:00    
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(182/239): llvm-libs-20.1.8-3.el9.x86_64.rpm    113 MB/s |  30 MB     00:00    
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(188/239): alsa-lib-1.2.14-1.el9.x86_64.rpm     3.7 MB/s | 529 kB     00:00    
(189/239): libwacom-1.12.1-6.el9_7.x86_64.rpm   348 kB/s |  44 kB     00:00    
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(193/239): brotli-1.0.9-9.el9_7.x86_64.rpm      3.4 MB/s | 317 kB     00:00    
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(198/239): glib2-devel-2.68.4-18.el9_7.1.x86_64 4.5 MB/s | 557 kB     00:00    
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(201/239): libblkid-devel-2.37.4-21.el9_7.x86_6 246 kB/s |  21 kB     00:00    
(202/239): libcurl-devel-7.76.1-35.el9_7.3.x86_  11 MB/s | 974 kB     00:00    
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(213/239): mesa-filesystem-25.0.7-5.el9_7.x86_6  59 kB/s |  17 kB     00:00    
(214/239): python3-numpy-1.23.5-2.el9_7.x86_64.  51 MB/s | 6.1 MB     00:00    
(215/239): gstreamer1-plugins-base-1.22.12-5.el  22 MB/s | 2.3 MB     00:00    
(216/239): gstreamer1-plugins-bad-free-libs-1.2 6.9 MB/s | 778 kB     00:00    
(217/239): kernel-headers-5.14.0-611.49.1.el9_7  31 MB/s | 2.9 MB     00:00    
(218/239): gdk-pixbuf2-2.42.6-6.el9_7.1.x86_64. 5.7 MB/s | 498 kB     00:00    
(219/239): python3-devel-3.9.25-3.el9_7.3.x86_6 3.2 MB/s | 252 kB     00:00    
(220/239): mesa-vulkan-drivers-25.0.7-5.el9_7.x  66 MB/s |  11 MB     00:00    
(221/239): glm-devel-0.9.9.8-3.el9.noarch.rpm   4.0 MB/s | 330 kB     00:00    
(222/239): catch-3.8.1-1.el9.x86_64.rpm          17 MB/s | 314 kB     00:00    
(223/239): catch-devel-3.8.1-1.el9.x86_64.rpm    56 MB/s | 229 kB     00:00    
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(225/239): hdf-libs-4.2.15-7.el9.x86_64.rpm      57 MB/s | 294 kB     00:00    
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(227/239): hdf5-devel-1.12.1-7.el9.1.x86_64.rpm 155 MB/s | 1.3 MB     00:00    
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(230/239): libaec-devel-1.0.6-1.el9.x86_64.rpm  5.4 MB/s |  12 kB     00:00    
(231/239): msgpack-3.1.0-9.el9.x86_64.rpm        10 MB/s |  30 kB     00:00    
(232/239): glew-devel-2.2.0-2.el9.x86_64.rpm    1.1 MB/s | 217 kB     00:00    
(233/239): netcdf-4.8.1-2.el9.x86_64.rpm         94 MB/s | 731 kB     00:00    
(234/239): msgpack-devel-3.1.0-9.el9.x86_64.rpm 4.7 MB/s | 312 kB     00:00    
(235/239): netcdf-devel-4.8.1-2.el9.x86_64.rpm   31 MB/s | 114 kB     00:00    
(236/239): python3-msgpack-1.0.3-2.el9.x86_64.r  24 MB/s |  86 kB     00:00    
(237/239): python3-simplejson-3.17.6-1.el9.x86_  79 MB/s | 264 kB     00:00    
(238/239): python3-mmtf-1.1.3-4.el9.noarch.rpm  369 kB/s |  55 kB     00:00    
(239/239): libGLEW-2.2.0-2.el9.x86_64.rpm       607 kB/s | 173 kB     00:00    
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Total                                            30 MB/s | 260 MB     00:08     
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  Verifying        : pango-1.48.7-3.el9.x86_64                          105/239 
  Verifying        : flac-libs-1.3.3-10.el9_2.1.x86_64                  106/239 
  Verifying        : python3-qt5-base-5.15.9-1.el9.x86_64               107/239 
  Verifying        : qt5-qtmultimedia-5.15.9-1.el9.x86_64               108/239 
  Verifying        : qt5-qtserialport-5.15.9-1.el9.x86_64               109/239 
  Verifying        : qt5-qtxmlpatterns-5.15.9-2.el9.x86_64              110/239 
  Verifying        : qt5-rpm-macros-5.15.9-1.el9.noarch                 111/239 
  Verifying        : libffi-devel-3.4.2-8.el9.x86_64                    112/239 
  Verifying        : python-qt5-rpm-macros-5.15.9-1.el9.noarch          113/239 
  Verifying        : python3-pyqt5-sip-12.11.1-1.el9.x86_64             114/239 
  Verifying        : python3-qt5-5.15.9-1.el9.x86_64                    115/239 
  Verifying        : qt5-qtlocation-5.15.9-1.el9.x86_64                 116/239 
  Verifying        : qt5-qtsvg-5.15.9-2.el9.x86_64                      117/239 
  Verifying        : qt5-qtwebsockets-5.15.9-2.el9.x86_64               118/239 
  Verifying        : qt5-qtx11extras-5.15.9-1.el9.x86_64                119/239 
  Verifying        : pixman-0.40.0-6.el9_3.x86_64                       120/239 
  Verifying        : qt5-qtconnectivity-5.15.9-2.el9.x86_64             121/239 
  Verifying        : qt5-qtdeclarative-5.15.9-3.el9.x86_64              122/239 
  Verifying        : qt5-qtsensors-5.15.9-1.el9.x86_64                  123/239 
  Verifying        : qt5-qtwebchannel-5.15.9-1.el9.x86_64               124/239 
  Verifying        : zlib-devel-1.2.11-40.el9.x86_64                    125/239 
  Verifying        : freeglut-3.2.1-10.el9.x86_64                       126/239 
  Verifying        : freeglut-devel-3.2.1-10.el9.x86_64                 127/239 
  Verifying        : harfbuzz-devel-2.7.4-10.el9.x86_64                 128/239 
  Verifying        : harfbuzz-icu-2.7.4-10.el9.x86_64                   129/239 
  Verifying        : libjpeg-turbo-2.0.90-7.el9.x86_64                  130/239 
  Verifying        : python3-rpm-generators-12-9.el9.noarch             131/239 
  Verifying        : libappstream-glib-0.7.18-5.el9_4.x86_64            132/239 
  Verifying        : libuv-1:1.42.0-2.el9_4.x86_64                      133/239 
  Verifying        : pcre-utf16-8.44-4.el9.x86_64                       134/239 
  Verifying        : pcre2-devel-10.40-6.el9.x86_64                     135/239 
  Verifying        : python3-rpm-macros-3.9-54.el9.noarch               136/239 
  Verifying        : libpciaccess-devel-0.16-7.el9.x86_64               137/239 
  Verifying        : orc-0.4.31-8.el9.x86_64                            138/239 
  Verifying        : pcre-cpp-8.44-4.el9.x86_64                         139/239 
  Verifying        : pcre-devel-8.44-4.el9.x86_64                       140/239 
  Verifying        : pcre-utf32-8.44-4.el9.x86_64                       141/239 
  Verifying        : pcre2-utf16-10.40-6.el9.x86_64                     142/239 
  Verifying        : pcre2-utf32-10.40-6.el9.x86_64                     143/239 
  Verifying        : python-rpm-macros-3.9-54.el9.noarch                144/239 
  Verifying        : xorg-x11-proto-devel-2024.1-1.el9.noarch           145/239 
  Verifying        : bzip2-devel-1.0.8-10.el9_5.x86_64                  146/239 
  Verifying        : freetype-devel-2.10.4-10.el9_5.x86_64              147/239 
  Verifying        : libX11-1.7.0-11.el9.x86_64                         148/239 
  Verifying        : libX11-xcb-1.7.0-11.el9.x86_64                     149/239 
  Verifying        : libdrm-devel-2.4.123-2.el9.x86_64                  150/239 
  Verifying        : gstreamer1-1.22.12-3.el9.x86_64                    151/239 
  Verifying        : libX11-common-1.7.0-11.el9.noarch                  152/239 
  Verifying        : libX11-devel-1.7.0-11.el9.x86_64                   153/239 
  Verifying        : libdrm-2.4.123-2.el9.x86_64                        154/239 
  Verifying        : libselinux-devel-3.6-3.el9.x86_64                  155/239 
  Verifying        : libsndfile-1.0.31-9.el9.x86_64                     156/239 
  Verifying        : libva-2.22.0-1.el9.x86_64                          157/239 
  Verifying        : pulseaudio-libs-15.0-3.el9.x86_64                  158/239 
  Verifying        : qt5-qtbase-5.15.9-11.el9_6.x86_64                  159/239 
  Verifying        : qt5-qtbase-common-5.15.9-11.el9_6.noarch           160/239 
  Verifying        : qt5-qtbase-devel-5.15.9-11.el9_6.x86_64            161/239 
  Verifying        : qt5-qtbase-gui-5.15.9-11.el9_6.x86_64              162/239 
  Verifying        : libicu-devel-67.1-10.el9_6.x86_64                  163/239 
  Verifying        : perl-English-1.11-481.1.el9_6.noarch               164/239 
  Verifying        : perl-File-Find-1.37-481.1.el9_6.noarch             165/239 
  Verifying        : annobin-12.98-1.el9.x86_64                         166/239 
  Verifying        : cpp-11.5.0-11.el9.x86_64                           167/239 
  Verifying        : emacs-filesystem-1:27.2-18.el9.noarch              168/239 
  Verifying        : gcc-gfortran-11.5.0-11.el9.x86_64                  169/239 
  Verifying        : libquadmath-devel-11.5.0-11.el9.x86_64             170/239 
  Verifying        : libsepol-devel-3.6-3.el9.x86_64                    171/239 
  Verifying        : libstdc++-devel-11.5.0-11.el9.x86_64               172/239 
  Verifying        : qt5-qttools-common-5.15.9-7.el9.noarch             173/239 
  Verifying        : spirv-tools-libs-2025.2-1.el9.x86_64               174/239 
  Verifying        : vulkan-headers-1.4.313.0-1.el9.noarch              175/239 
  Verifying        : gcc-11.5.0-11.el9.x86_64                           176/239 
  Verifying        : gcc-c++-11.5.0-11.el9.x86_64                       177/239 
  Verifying        : gcc-plugin-annobin-11.5.0-11.el9.x86_64            178/239 
  Verifying        : llvm-filesystem-20.1.8-3.el9.x86_64                179/239 
  Verifying        : llvm-libs-20.1.8-3.el9.x86_64                      180/239 
  Verifying        : openblas-0.3.29-1.el9.x86_64                       181/239 
  Verifying        : openblas-openmp-0.3.29-1.el9.x86_64                182/239 
  Verifying        : qt5-qttools-libs-designer-5.15.9-7.el9.x86_64      183/239 
  Verifying        : qt5-qttools-libs-help-5.15.9-7.el9.x86_64          184/239 
  Verifying        : valgrind-devel-1:3.25.1-3.el9.x86_64               185/239 
  Verifying        : vulkan-loader-1.4.313.0-1.el9.x86_64               186/239 
  Verifying        : vulkan-loader-devel-1.4.313.0-1.el9.x86_64         187/239 
  Verifying        : alsa-lib-1.2.14-1.el9.x86_64                       188/239 
  Verifying        : libwacom-1.12.1-6.el9_7.x86_64                     189/239 
  Verifying        : libwacom-data-1.12.1-6.el9_7.noarch                190/239 
  Verifying        : libxml2-devel-2.9.13-14.el9_7.x86_64               191/239 
  Verifying        : brotli-1.0.9-9.el9_7.x86_64                        192/239 
  Verifying        : brotli-devel-1.0.9-9.el9_7.x86_64                  193/239 
  Verifying        : cmake-3.26.5-3.el9_7.x86_64                        194/239 
  Verifying        : cmake-data-3.26.5-3.el9_7.noarch                   195/239 
  Verifying        : cmake-filesystem-3.26.5-3.el9_7.x86_64             196/239 
  Verifying        : cmake-rpm-macros-3.26.5-3.el9_7.noarch             197/239 
  Verifying        : glib2-devel-2.68.4-18.el9_7.1.x86_64               198/239 
  Verifying        : glibc-devel-2.34-231.el9_7.10.x86_64               199/239 
  Verifying        : glibc-headers-2.34-231.el9_7.10.x86_64             200/239 
  Verifying        : libblkid-devel-2.37.4-21.el9_7.x86_64              201/239 
  Verifying        : libcurl-devel-7.76.1-35.el9_7.3.x86_64             202/239 
  Verifying        : libinput-1.19.3-8.el9_7.x86_64                     203/239 
  Verifying        : libmount-devel-2.37.4-21.el9_7.x86_64              204/239 
  Verifying        : libpng-devel-2:1.6.37-12.el9_7.2.x86_64            205/239 
  Verifying        : libsoup-2.72.0-12.el9_7.5.x86_64                   206/239 
  Verifying        : mesa-dri-drivers-25.0.7-5.el9_7.x86_64             207/239 
  Verifying        : mesa-filesystem-25.0.7-5.el9_7.x86_64              208/239 
  Verifying        : mesa-libEGL-25.0.7-5.el9_7.x86_64                  209/239 
  Verifying        : mesa-libEGL-devel-25.0.7-5.el9_7.x86_64            210/239 
  Verifying        : mesa-libGL-25.0.7-5.el9_7.x86_64                   211/239 
  Verifying        : mesa-libGL-devel-25.0.7-5.el9_7.x86_64             212/239 
  Verifying        : mesa-libgbm-25.0.7-5.el9_7.x86_64                  213/239 
  Verifying        : python3-numpy-1:1.23.5-2.el9_7.x86_64              214/239 
  Verifying        : gstreamer1-plugins-bad-free-libs-1.22.12-5.el9_7   215/239 
  Verifying        : gstreamer1-plugins-base-1.22.12-5.el9_7.x86_64     216/239 
  Verifying        : kernel-headers-5.14.0-611.49.1.el9_7.x86_64        217/239 
  Verifying        : mesa-vulkan-drivers-25.0.7-5.el9_7.x86_64          218/239 
  Verifying        : gdk-pixbuf2-2.42.6-6.el9_7.1.x86_64                219/239 
  Verifying        : python3-devel-3.9.25-3.el9_7.3.x86_64              220/239 
  Verifying        : glm-devel-0.9.9.8-3.el9.noarch                     221/239 
  Verifying        : python3-qt5-devel-5.15.9-1.el9.x86_64              222/239 
  Verifying        : pyproject-rpm-macros-1.16.2-1.el9.noarch           223/239 
  Verifying        : catch-3.8.1-1.el9.x86_64                           224/239 
  Verifying        : catch-devel-3.8.1-1.el9.x86_64                     225/239 
  Verifying        : glew-devel-2.2.0-2.el9.x86_64                      226/239 
  Verifying        : hdf-libs-4.2.15-7.el9.x86_64                       227/239 
  Verifying        : hdf5-1.12.1-7.el9.1.x86_64                         228/239 
  Verifying        : hdf5-devel-1.12.1-7.el9.1.x86_64                   229/239 
  Verifying        : libGLEW-2.2.0-2.el9.x86_64                         230/239 
  Verifying        : libaec-1.0.6-1.el9.x86_64                          231/239 
  Verifying        : libaec-devel-1.0.6-1.el9.x86_64                    232/239 
  Verifying        : msgpack-3.1.0-9.el9.x86_64                         233/239 
  Verifying        : msgpack-devel-3.1.0-9.el9.x86_64                   234/239 
  Verifying        : netcdf-4.8.1-2.el9.x86_64                          235/239 
  Verifying        : netcdf-devel-4.8.1-2.el9.x86_64                    236/239 
  Verifying        : python3-mmtf-1.1.3-4.el9.noarch                    237/239 
  Verifying        : python3-msgpack-1.0.3-2.el9.x86_64                 238/239 
  Verifying        : python3-simplejson-3.17.6-1.el9.x86_64             239/239 
Installed products updated.

Installed:
  adobe-source-code-pro-fonts-2.030.1.050-12.el9.1.noarch                       
  alsa-lib-1.2.14-1.el9.x86_64                                                  
  annobin-12.98-1.el9.x86_64                                                    
  avahi-libs-0.8-23.el9.x86_64                                                  
  bluez-libs-5.83-2.el9.x86_64                                                  
  brotli-1.0.9-9.el9_7.x86_64                                                   
  brotli-devel-1.0.9-9.el9_7.x86_64                                             
  bzip2-devel-1.0.8-10.el9_5.x86_64                                             
  cairo-1.17.4-7.el9.x86_64                                                     
  catch-3.8.1-1.el9.x86_64                                                      
  catch-devel-3.8.1-1.el9.x86_64                                                
  cmake-3.26.5-3.el9_7.x86_64                                                   
  cmake-data-3.26.5-3.el9_7.noarch                                              
  cmake-filesystem-3.26.5-3.el9_7.x86_64                                        
  cmake-rpm-macros-3.26.5-3.el9_7.noarch                                        
  cpp-11.5.0-11.el9.x86_64                                                      
  cups-libs-1:2.3.3op2-34.el9_7.2.x86_64                                        
  dbus-libs-1:1.12.20-8.el9.x86_64                                              
  dejavu-sans-fonts-2.37-18.el9.noarch                                          
  desktop-file-utils-0.26-6.el9.x86_64                                          
  emacs-filesystem-1:27.2-18.el9.noarch                                         
  expat-2.5.0-5.el9_7.1.x86_64                                                  
  flac-libs-1.3.3-10.el9_2.1.x86_64                                             
  flexiblas-3.0.4-8.el9.x86_64                                                  
  flexiblas-netlib-3.0.4-8.el9.x86_64                                           
  flexiblas-openblas-openmp-3.0.4-8.el9.x86_64                                  
  fontconfig-2.14.0-2.el9_1.x86_64                                              
  fonts-filesystem-1:2.0.5-7.el9.1.noarch                                       
  freeglut-3.2.1-10.el9.x86_64                                                  
  freeglut-devel-3.2.1-10.el9.x86_64                                            
  freetype-2.10.4-10.el9_5.x86_64                                               
  freetype-devel-2.10.4-10.el9_5.x86_64                                         
  fribidi-1.0.10-6.el9.2.x86_64                                                 
  gcc-11.5.0-11.el9.x86_64                                                      
  gcc-c++-11.5.0-11.el9.x86_64                                                  
  gcc-gfortran-11.5.0-11.el9.x86_64                                             
  gcc-plugin-annobin-11.5.0-11.el9.x86_64                                       
  gdk-pixbuf2-2.42.6-6.el9_7.1.x86_64                                           
  gl-manpages-1.1-24.20190306.el9.noarch                                        
  glew-devel-2.2.0-2.el9.x86_64                                                 
  glib-networking-2.68.3-3.el9.x86_64                                           
  glib2-2.68.4-18.el9_7.1.x86_64                                                
  glib2-devel-2.68.4-18.el9_7.1.x86_64                                          
  glibc-devel-2.34-231.el9_7.10.x86_64                                          
  glibc-headers-2.34-231.el9_7.10.x86_64                                        
  glm-devel-0.9.9.8-3.el9.noarch                                                
  glx-utils-8.4.0-12.20210504git0f9e7d9.el9.x86_64                              
  gnutls-3.8.3-10.el9_7.x86_64                                                  
  graphene-1.10.6-2.el9.x86_64                                                  
  graphite2-1.3.14-9.el9.x86_64                                                 
  graphite2-devel-1.3.14-9.el9.x86_64                                           
  gsettings-desktop-schemas-40.0-8.el9_7.x86_64                                 
  gsm-1.0.19-6.el9.x86_64                                                       
  gstreamer1-1.22.12-3.el9.x86_64                                               
  gstreamer1-plugins-bad-free-libs-1.22.12-5.el9_7.x86_64                       
  gstreamer1-plugins-base-1.22.12-5.el9_7.x86_64                                
  harfbuzz-2.7.4-10.el9.x86_64                                                  
  harfbuzz-devel-2.7.4-10.el9.x86_64                                            
  harfbuzz-icu-2.7.4-10.el9.x86_64                                              
  hdf-libs-4.2.15-7.el9.x86_64                                                  
  hdf5-1.12.1-7.el9.1.x86_64                                                    
  hdf5-devel-1.12.1-7.el9.1.x86_64                                              
  hwdata-0.348-9.20.el9.noarch                                                  
  iso-codes-4.6.0-3.el9.noarch                                                  
  json-glib-1.6.6-1.el9.x86_64                                                  
  kernel-headers-5.14.0-611.49.1.el9_7.x86_64                                   
  langpacks-core-font-en-3.0-16.el9.noarch                                      
  libGLEW-2.2.0-2.el9.x86_64                                                    
  libICE-1.0.10-8.el9.x86_64                                                    
  libSM-1.2.3-10.el9.x86_64                                                     
  libX11-1.7.0-11.el9.x86_64                                                    
  libX11-common-1.7.0-11.el9.noarch                                             
  libX11-devel-1.7.0-11.el9.x86_64                                              
  libX11-xcb-1.7.0-11.el9.x86_64                                                
  libXau-1.0.9-8.el9.x86_64                                                     
  libXau-devel-1.0.9-8.el9.x86_64                                               
  libXext-1.3.4-8.el9.x86_64                                                    
  libXfixes-5.0.3-16.el9.x86_64                                                 
  libXft-2.3.3-8.el9.x86_64                                                     
  libXi-1.7.10-8.el9.x86_64                                                     
  libXrender-0.9.10-16.el9.x86_64                                               
  libXv-1.0.11-16.el9.x86_64                                                    
  libXxf86vm-1.1.4-18.el9.x86_64                                                
  libaec-1.0.6-1.el9.x86_64                                                     
  libaec-devel-1.0.6-1.el9.x86_64                                               
  libappstream-glib-0.7.18-5.el9_4.x86_64                                       
  libasyncns-0.8-22.el9.x86_64                                                  
  libblkid-devel-2.37.4-21.el9_7.x86_64                                         
  libcurl-devel-7.76.1-35.el9_7.3.x86_64                                        
  libdatrie-0.2.13-4.el9.x86_64                                                 
  libdrm-2.4.123-2.el9.x86_64                                                   
  libdrm-devel-2.4.123-2.el9.x86_64                                             
  libedit-3.1-38.20210216cvs.el9.x86_64                                         
  libevdev-1.11.0-3.el9.x86_64                                                  
  libffi-devel-3.4.2-8.el9.x86_64                                               
  libgfortran-11.5.0-11.el9.x86_64                                              
  libglvnd-1:1.3.4-1.el9.x86_64                                                 
  libglvnd-core-devel-1:1.3.4-1.el9.x86_64                                      
  libglvnd-devel-1:1.3.4-1.el9.x86_64                                           
  libglvnd-egl-1:1.3.4-1.el9.x86_64                                             
  libglvnd-gles-1:1.3.4-1.el9.x86_64                                            
  libglvnd-glx-1:1.3.4-1.el9.x86_64                                             
  libglvnd-opengl-1:1.3.4-1.el9.x86_64                                          
  libgudev-237-1.el9.x86_64                                                     
  libicu-67.1-10.el9_6.x86_64                                                   
  libicu-devel-67.1-10.el9_6.x86_64                                             
  libinput-1.19.3-8.el9_7.x86_64                                                
  libjpeg-turbo-2.0.90-7.el9.x86_64                                             
  libmount-devel-2.37.4-21.el9_7.x86_64                                         
  libmpc-1.2.1-4.el9.x86_64                                                     
  libogg-2:1.3.4-6.el9.x86_64                                                   
  libpciaccess-0.16-7.el9.x86_64                                                
  libpciaccess-devel-0.16-7.el9.x86_64                                          
  libpng-2:1.6.37-12.el9_7.2.x86_64                                             
  libpng-devel-2:1.6.37-12.el9_7.2.x86_64                                       
  libproxy-0.4.15-35.el9.x86_64                                                 
  libquadmath-11.5.0-11.el9.x86_64                                              
  libquadmath-devel-11.5.0-11.el9.x86_64                                        
  libselinux-devel-3.6-3.el9.x86_64                                             
  libsepol-devel-3.6-3.el9.x86_64                                               
  libsndfile-1.0.31-9.el9.x86_64                                                
  libsoup-2.72.0-12.el9_7.5.x86_64                                              
  libstdc++-devel-11.5.0-11.el9.x86_64                                          
  libstemmer-0-18.585svn.el9.x86_64                                             
  libthai-0.1.28-8.el9.x86_64                                                   
  libtheora-1:1.1.1-31.el9.x86_64                                               
  libtirpc-1.3.3-9.el9.x86_64                                                   
  libuv-1:1.42.0-2.el9_4.x86_64                                                 
  libva-2.22.0-1.el9.x86_64                                                     
  libvorbis-1:1.3.7-5.el9.x86_64                                                
  libwacom-1.12.1-6.el9_7.x86_64                                                
  libwacom-data-1.12.1-6.el9_7.noarch                                           
  libwayland-client-1.21.0-1.el9.x86_64                                         
  libwayland-cursor-1.21.0-1.el9.x86_64                                         
  libwayland-egl-1.21.0-1.el9.x86_64                                            
  libwayland-server-1.21.0-1.el9.x86_64                                         
  libxcb-1.13.1-9.el9.x86_64                                                    
  libxcb-devel-1.13.1-9.el9.x86_64                                              
  libxcrypt-devel-4.4.18-3.el9.x86_64                                           
  libxkbcommon-1.0.3-4.el9.x86_64                                               
  libxkbcommon-x11-1.0.3-4.el9.x86_64                                           
  libxml2-devel-2.9.13-14.el9_7.x86_64                                          
  libxshmfence-1.3-10.el9.x86_64                                                
  llvm-filesystem-20.1.8-3.el9.x86_64                                           
  llvm-libs-20.1.8-3.el9.x86_64                                                 
  make-1:4.3-8.el9.x86_64                                                       
  mesa-dri-drivers-25.0.7-5.el9_7.x86_64                                        
  mesa-filesystem-25.0.7-5.el9_7.x86_64                                         
  mesa-libEGL-25.0.7-5.el9_7.x86_64                                             
  mesa-libEGL-devel-25.0.7-5.el9_7.x86_64                                       
  mesa-libGL-25.0.7-5.el9_7.x86_64                                              
  mesa-libGL-devel-25.0.7-5.el9_7.x86_64                                        
  mesa-libGLU-9.0.1-6.el9.x86_64                                                
  mesa-libGLU-devel-9.0.1-6.el9.x86_64                                          
  mesa-libgbm-25.0.7-5.el9_7.x86_64                                             
  mesa-vulkan-drivers-25.0.7-5.el9_7.x86_64                                     
  mmtf-cpp-devel-1.1.0-9.el9.x86_64                                             
  msgpack-3.1.0-9.el9.x86_64                                                    
  msgpack-devel-3.1.0-9.el9.x86_64                                              
  mtdev-1.1.5-22.el9.x86_64                                                     
  netcdf-4.8.1-2.el9.x86_64                                                     
  netcdf-devel-4.8.1-2.el9.x86_64                                               
  nettle-3.10.1-1.el9.x86_64                                                    
  openal-soft-1.19.1-16.el9.x86_64                                              
  openblas-0.3.29-1.el9.x86_64                                                  
  openblas-openmp-0.3.29-1.el9.x86_64                                           
  opus-1.3.1-10.el9.x86_64                                                      
  orc-0.4.31-8.el9.x86_64                                                       
  pango-1.48.7-3.el9.x86_64                                                     
  pcre-cpp-8.44-4.el9.x86_64                                                    
  pcre-devel-8.44-4.el9.x86_64                                                  
  pcre-utf16-8.44-4.el9.x86_64                                                  
  pcre-utf32-8.44-4.el9.x86_64                                                  
  pcre2-devel-10.40-6.el9.x86_64                                                
  pcre2-utf16-10.40-6.el9.x86_64                                                
  pcre2-utf32-10.40-6.el9.x86_64                                                
  perl-English-1.11-481.1.el9_6.noarch                                          
  perl-File-Find-1.37-481.1.el9_6.noarch                                        
  pixman-0.40.0-6.el9_3.x86_64                                                  
  pulseaudio-libs-15.0-3.el9.x86_64                                             
  pyproject-rpm-macros-1.16.2-1.el9.noarch                                      
  python-qt5-rpm-macros-5.15.9-1.el9.noarch                                     
  python-rpm-macros-3.9-54.el9.noarch                                           
  python3-3.9.25-3.el9_7.3.x86_64                                               
  python3-dbus-1.2.18-2.el9.x86_64                                              
  python3-devel-3.9.25-3.el9_7.3.x86_64                                         
  python3-libs-3.9.25-3.el9_7.3.x86_64                                          
  python3-mmtf-1.1.3-4.el9.noarch                                               
  python3-msgpack-1.0.3-2.el9.x86_64                                            
  python3-numpy-1:1.23.5-2.el9_7.x86_64                                         
  python3-packaging-20.9-5.el9.noarch                                           
  python3-pip-wheel-21.3.1-1.el9.noarch                                         
  python3-pyparsing-2.4.7-9.el9.noarch                                          
  python3-pyqt5-sip-12.11.1-1.el9.x86_64                                        
  python3-qt5-5.15.9-1.el9.x86_64                                               
  python3-qt5-base-5.15.9-1.el9.x86_64                                          
  python3-qt5-devel-5.15.9-1.el9.x86_64                                         
  python3-rpm-generators-12-9.el9.noarch                                        
  python3-rpm-macros-3.9-54.el9.noarch                                          
  python3-setuptools-53.0.0-15.el9.noarch                                       
  python3-setuptools-wheel-53.0.0-15.el9.noarch                                 
  python3-simplejson-3.17.6-1.el9.x86_64                                        
  qt5-qtbase-5.15.9-11.el9_6.x86_64                                             
  qt5-qtbase-common-5.15.9-11.el9_6.noarch                                      
  qt5-qtbase-devel-5.15.9-11.el9_6.x86_64                                       
  qt5-qtbase-gui-5.15.9-11.el9_6.x86_64                                         
  qt5-qtconnectivity-5.15.9-2.el9.x86_64                                        
  qt5-qtdeclarative-5.15.9-3.el9.x86_64                                         
  qt5-qtlocation-5.15.9-1.el9.x86_64                                            
  qt5-qtmultimedia-5.15.9-1.el9.x86_64                                          
  qt5-qtsensors-5.15.9-1.el9.x86_64                                             
  qt5-qtserialport-5.15.9-1.el9.x86_64                                          
  qt5-qtsvg-5.15.9-2.el9.x86_64                                                 
  qt5-qttools-common-5.15.9-7.el9.noarch                                        
  qt5-qttools-libs-designer-5.15.9-7.el9.x86_64                                 
  qt5-qttools-libs-help-5.15.9-7.el9.x86_64                                     
  qt5-qtwebchannel-5.15.9-1.el9.x86_64                                          
  qt5-qtwebsockets-5.15.9-2.el9.x86_64                                          
  qt5-qtx11extras-5.15.9-1.el9.x86_64                                           
  qt5-qtxmlpatterns-5.15.9-2.el9.x86_64                                         
  qt5-rpm-macros-5.15.9-1.el9.noarch                                            
  shared-mime-info-2.1-5.el9.x86_64                                             
  spirv-tools-libs-2025.2-1.el9.x86_64                                          
  sysprof-capture-devel-3.40.1-3.el9.x86_64                                     
  valgrind-devel-1:3.25.1-3.el9.x86_64                                          
  vim-filesystem-2:8.2.2637-23.el9_7.3.noarch                                   
  vulkan-headers-1.4.313.0-1.el9.noarch                                         
  vulkan-loader-1.4.313.0-1.el9.x86_64                                          
  vulkan-loader-devel-1.4.313.0-1.el9.x86_64                                    
  xcb-util-0.4.0-19.el9.x86_64                                                  
  xcb-util-image-0.4.0-19.el9.x86_64                                            
  xcb-util-keysyms-0.4.0-17.el9.x86_64                                          
  xcb-util-renderutil-0.3.9-20.el9.x86_64                                       
  xcb-util-wm-0.4.1-22.el9.x86_64                                               
  xkeyboard-config-2.33-2.el9.noarch                                            
  xml-common-0.6.3-58.el9.noarch                                                
  xorg-x11-proto-devel-2024.1-1.el9.noarch                                      
  xz-devel-5.2.5-8.el9_0.x86_64                                                 
  zlib-devel-1.2.11-40.el9.x86_64                                               

Complete!
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1674172800
Wrote: /builddir/build/SRPMS/pymol-2.5.0-7.el9.src.rpm
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

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Copr repository                                 706  B/s | 1.5 kB     00:02    
Red Hat Enterprise Linux - BaseOS                44 kB/s | 4.1 kB     00:00    
Red Hat Enterprise Linux - AppStream             46 kB/s | 4.5 kB     00:00    
Red Hat Enterprise Linux - CodeReady Linux Buil  43 kB/s | 4.5 kB     00:00    
Extra Packages for Enterprise Linux 9 - x86_64  129 kB/s |  24 kB     00:00    
Package catch-devel-3.8.1-1.el9.x86_64 is already installed.
Package desktop-file-utils-0.26-6.el9.x86_64 is already installed.
Package freeglut-devel-3.2.1-10.el9.x86_64 is already installed.
Package freetype-devel-2.10.4-10.el9_5.x86_64 is already installed.
Package gcc-c++-11.5.0-11.el9.x86_64 is already installed.
Package glew-devel-2.2.0-2.el9.x86_64 is already installed.
Package glm-devel-0.9.9.8-3.el9.noarch is already installed.
Package mesa-libGL-devel-25.0.7-5.el9_7.x86_64 is already installed.
Package libappstream-glib-0.7.18-5.el9_4.x86_64 is already installed.
Package libpng-devel-2:1.6.37-12.el9_7.2.x86_64 is already installed.
Package libxml2-devel-2.9.13-14.el9_7.x86_64 is already installed.
Package mmtf-cpp-devel-1.1.0-9.el9.x86_64 is already installed.
Package msgpack-devel-3.1.0-9.el9.x86_64 is already installed.
Package netcdf-devel-4.8.1-2.el9.x86_64 is already installed.
Package python3-devel-3.9.25-3.el9_7.3.x86_64 is already installed.
Package python3-mmtf-1.1.3-4.el9.noarch is already installed.
Package python3-numpy-1:1.23.5-2.el9_7.x86_64 is already installed.
Package python3-qt5-devel-5.15.9-1.el9.x86_64 is already installed.
Package python3-setuptools-53.0.0-15.el9.noarch is already installed.
Package python3-simplejson-3.17.6-1.el9.x86_64 is already installed.
Dependencies resolved.
Nothing to do.
Complete!
Finish: build setup for pymol-2.5.0-7.el9.src.rpm
Start: rpmbuild pymol-2.5.0-7.el9.src.rpm
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1674172800
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.pNi7UY
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf pymol-open-source-2.5.0
+ /usr/bin/gzip -dc /builddir/build/SOURCES/pymol-open-source-2.5.0.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd pymol-open-source-2.5.0
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ /usr/bin/cat /builddir/build/SOURCES/pymol-setup.py.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /builddir/build/SOURCES/pymol-wmclass-main.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /builddir/build/SOURCES/pymol-wmclass-pmgapp.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /builddir/build/SOURCES/pymol-mmtf.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ /usr/bin/cat /builddir/build/SOURCES/pymol-2.5.0-bug186.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch
+ ln -sr modules/web modules/pymol_web
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.l3yUQS
+ umask 022
+ cd /builddir/build/BUILD
+ cd pymol-open-source-2.5.0
+ export 'CXXFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
++ /usr/bin/getconf _NPROCESSORS_ONLN
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 '
+ /usr/bin/python3 setup.py build '--executable=/usr/bin/python3 -s' --use-msgpackc=c++11 --use-openmp=yes --jobs 4
running build
running build_py
creating build/lib.linux-x86_64-3.9
creating build/lib.linux-x86_64-3.9/pymol2
copying modules/pymol2/cmd2.py -> build/lib.linux-x86_64-3.9/pymol2
copying modules/pymol2/__init__.py -> build/lib.linux-x86_64-3.9/pymol2
creating build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/xwin.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/xray.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/wizarding.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/viewing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/vfont.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/util.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/shortcut_manager.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/shortcut_dict.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/shortcut.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/setting.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/seqalign.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/selector.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/selecting.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/save_shortcut.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/rpc.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/querying.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/pymolhttpd.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/preset.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/povray.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/parsing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/parser.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/mpeg_encode.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/moving.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/movie.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/morphing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/monitoring.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/menu.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/locking.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/lazyio.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/keywords.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/keyboard.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/invocation.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/internal.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/importing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/helping.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/headering.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/gui.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/fitting.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/feedingback.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/externing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/exporting.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/experimenting.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/editor.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/editing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/diagnosing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/creating.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/controlling.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/constants_palette.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/constants.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/computing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/completing.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/commanding.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/colorramping.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/colorprinting.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/cmd.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/checking.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/cgo.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/callback.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/api.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/_gui.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/__main__.py -> build/lib.linux-x86_64-3.9/pymol
copying modules/pymol/__init__.py -> build/lib.linux-x86_64-3.9/pymol
creating build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/toggle.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/stereodemo.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/security.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/sculpting.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/renaming.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/pseudoatom.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/pair_fit.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/openvr.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/nucmutagenesis.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/mutagenesis.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/message.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/measurement.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/label.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/filter.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/dragging.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/distance.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/density.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/demo.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/command.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/cleanup.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/charge.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/box.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/benchmark.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/appearance.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/annotation.py -> build/lib.linux-x86_64-3.9/pymol/wizard
copying modules/pymol/wizard/__init__.py -> build/lib.linux-x86_64-3.9/pymol/wizard
creating build/lib.linux-x86_64-3.9/pymol/stereochemistry
copying modules/pymol/stereochemistry/__init__.py -> build/lib.linux-x86_64-3.9/pymol/stereochemistry
creating build/lib.linux-x86_64-3.9/pymol/plugins
copying modules/pymol/plugins/repository.py -> build/lib.linux-x86_64-3.9/pymol/plugins
copying modules/pymol/plugins/managergui_qt.py -> build/lib.linux-x86_64-3.9/pymol/plugins
copying modules/pymol/plugins/managergui.py -> build/lib.linux-x86_64-3.9/pymol/plugins
copying modules/pymol/plugins/legacysupport.py -> build/lib.linux-x86_64-3.9/pymol/plugins
copying modules/pymol/plugins/installation.py -> build/lib.linux-x86_64-3.9/pymol/plugins
copying modules/pymol/plugins/__init__.py -> build/lib.linux-x86_64-3.9/pymol/plugins
creating build/lib.linux-x86_64-3.9/pymol/Qt
copying modules/pymol/Qt/utils.py -> build/lib.linux-x86_64-3.9/pymol/Qt
copying modules/pymol/Qt/__init__.py -> build/lib.linux-x86_64-3.9/pymol/Qt
creating build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/PMGApp.py -> build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/volume.py -> build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/TextEditor.py -> build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/Setting.py -> build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/SetEditor.py -> build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/PyMOLMapLoad.py -> build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/Demo.py -> build/lib.linux-x86_64-3.9/pmg_tk
copying modules/pmg_tk/ColorEditor.py -> build/lib.linux-x86_64-3.9/pmg_tk
creating build/lib.linux-x86_64-3.9/pmg_tk/startup
copying modules/pmg_tk/startup/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk/startup
creating build/lib.linux-x86_64-3.9/pmg_tk/skins
copying modules/pmg_tk/skins/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins
creating build/lib.linux-x86_64-3.9/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/builder.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/ModalWindow.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins/normal
creating build/lib.linux-x86_64-3.9/pmg_tk/skins/demo
copying modules/pmg_tk/skins/demo/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins/demo
creating build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/volume.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/shortcut_menu_gui.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/pymol_qt_gui.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/pymol_gl_widget.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/properties_dialog.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/mimic_tk.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/mimic_pmg_tk.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/keymapping.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/file_dialogs.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/builder.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/advanced_settings_gui.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/__init__.py -> build/lib.linux-x86_64-3.9/pmg_qt
copying modules/pmg_qt/TextEditor.py -> build/lib.linux-x86_64-3.9/pmg_qt
creating build/lib.linux-x86_64-3.9/pmg_qt/syntax
copying modules/pmg_qt/syntax/python.py -> build/lib.linux-x86_64-3.9/pmg_qt/syntax
copying modules/pmg_qt/syntax/pmlparser.py -> build/lib.linux-x86_64-3.9/pmg_qt/syntax
copying modules/pmg_qt/syntax/pml.py -> build/lib.linux-x86_64-3.9/pmg_qt/syntax
copying modules/pmg_qt/syntax/__init__.py -> build/lib.linux-x86_64-3.9/pmg_qt/syntax
creating build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/__init__.py -> build/lib.linux-x86_64-3.9/pmg_qt/forms
creating build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/xyz.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/water_residues.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/water_amber.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/solvate.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/sdf.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/protein_residues.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/protein_mmff.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/protein_amber99.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/protein_amber.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/protein.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/place.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/pkl.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/pdb.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/neighbor.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/mol2.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/mol.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/models.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/mmd.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/mass.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/map.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/mae.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/lst.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/io.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/hetatm.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/gms.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/gamess1.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/dictdb.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/cpv.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/cif.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/charge.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/cc1.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/brick.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/bonds.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/bond_mmff.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/bond_amber.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/arc.py -> build/lib.linux-x86_64-3.9/chempy
copying modules/chempy/__init__.py -> build/lib.linux-x86_64-3.9/chempy
creating build/lib.linux-x86_64-3.9/chempy/tinker
copying modules/chempy/tinker/state.py -> build/lib.linux-x86_64-3.9/chempy/tinker
copying modules/chempy/tinker/realtime.py -> build/lib.linux-x86_64-3.9/chempy/tinker
copying modules/chempy/tinker/keyword.py -> build/lib.linux-x86_64-3.9/chempy/tinker
copying modules/chempy/tinker/amber.py -> build/lib.linux-x86_64-3.9/chempy/tinker
copying modules/chempy/tinker/__init__.py -> build/lib.linux-x86_64-3.9/chempy/tinker
creating build/lib.linux-x86_64-3.9/chempy/mmtf
copying modules/chempy/mmtf/io.py -> build/lib.linux-x86_64-3.9/chempy/mmtf
copying modules/chempy/mmtf/__init__.py -> build/lib.linux-x86_64-3.9/chempy/mmtf
creating build/lib.linux-x86_64-3.9/chempy/fragments
copying modules/chempy/fragments/__init__.py -> build/lib.linux-x86_64-3.9/chempy/fragments
creating build/lib.linux-x86_64-3.9/chempy/fast
copying modules/chempy/fast/__init__.py -> build/lib.linux-x86_64-3.9/chempy/fast
creating build/lib.linux-x86_64-3.9/chempy/champ
copying modules/chempy/champ/formal_charges.py -> build/lib.linux-x86_64-3.9/chempy/champ
copying modules/chempy/champ/assign.py -> build/lib.linux-x86_64-3.9/chempy/champ
copying modules/chempy/champ/amber99.py -> build/lib.linux-x86_64-3.9/chempy/champ
copying modules/chempy/champ/__init__.py -> build/lib.linux-x86_64-3.9/chempy/champ
creating build/lib.linux-x86_64-3.9/chempy/bmin
copying modules/chempy/bmin/util.py -> build/lib.linux-x86_64-3.9/chempy/bmin
copying modules/chempy/bmin/state.py -> build/lib.linux-x86_64-3.9/chempy/bmin
copying modules/chempy/bmin/realtime.py -> build/lib.linux-x86_64-3.9/chempy/bmin
copying modules/chempy/bmin/commands.py -> build/lib.linux-x86_64-3.9/chempy/bmin
copying modules/chempy/bmin/__init__.py -> build/lib.linux-x86_64-3.9/chempy/bmin
copying modules/pmg_qt/forms/shortcut_menu.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/save_object.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/save_molecule.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/render.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/props.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/png.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/pluginmanager.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/pluginitem.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/movieexport.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/load_traj.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/load_mtz.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/load_map.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/load_mae.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/load_aln.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/help_shortcut.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/fetch.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/create_shortcut.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/colors.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/change_confirm.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
copying modules/pmg_qt/forms/askpartial.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms
running build_ext
building 'pymol._cmd' extension
creating build/temp.linux-x86_64-3.9
creating build/temp.linux-x86_64-3.9/build
creating build/temp.linux-x86_64-3.9/build/generated
creating build/temp.linux-x86_64-3.9/contrib
creating build/temp.linux-x86_64-3.9/contrib/mmtf-c
creating build/temp.linux-x86_64-3.9/contrib/uiuc
creating build/temp.linux-x86_64-3.9/contrib/uiuc/plugins
creating build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin
creating build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src
creating build/temp.linux-x86_64-3.9/layer0
creating build/temp.linux-x86_64-3.9/layer1
creating build/temp.linux-x86_64-3.9/layer2
creating build/temp.linux-x86_64-3.9/layer3
creating build/temp.linux-x86_64-3.9/layer4
creating build/temp.linux-x86_64-3.9/layer5
creating build/temp.linux-x86_64-3.9/ov
creating build/temp.linux-x86_64-3.9/ov/src
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD build/generated/ShaderText.cpp -o build/temp.linux-x86_64-3.9/build/generated/ShaderText.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/mmtf-c/mmtf_parser.cpp -o build/temp.linux-x86_64-3.9/contrib/mmtf-c/mmtf_parser.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51:
contrib/uiuc/plugins/molfile_plugin/src/fastio.h: In function ‘fio_readv’:
contrib/uiuc/plugins/molfile_plugin/src/fastio.h:519:14: warning: comparison of integer expressions of different signedness: ‘fio_size_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  519 |       if (rc != iov[i].iov_len)
      |              ^~
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function ‘read_dcdheader’:
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:191:57: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  191 |   } else if (input_integer[0] == 84 && input_integer[1] == dcdcordmagic) {
      |                                                         ^~
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:204:54: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  204 |       if (input_integer[0] == 84 && input_integer[1] == dcdcordmagic) {
      |                                                      ^~
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:222:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  222 |     if (input_integer[0] != dcdcordmagic) {
      |                          ^~
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:399:45: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  399 |     if ((input_integer[0]+input_integer[1]) != ((*N)-(*NAMNF))*4) {
      |                                             ^~
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:416:45: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  416 |     if ((input_integer[0]+input_integer[1]) != ((*N)-(*NAMNF))*4) {
      |                                             ^~
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function ‘read_dcdstep’:
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:621:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  621 |         if (tmpbuf[i] != sizeof(float)*N) return DCD_BADFORMAT;
      |                       ^~
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:625:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  625 |           if ((tmpbuf[2*i]+tmpbuf[2*i+1]) != sizeof(float)*N) return DCD_BADFORMAT;
      |                                           ^~
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:546:16: warning: variable ‘readlen’ set but not used [-Wunused-but-set-variable]
  546 |     fio_size_t readlen; /* number of bytes actually read            */
      |                ^~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:60:
At top level:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51:
contrib/uiuc/plugins/molfile_plugin/src/fastio.h:609:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function]
  609 | static int fio_write_str(fio_fd fd, const char *str) {
      |            ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/fastio.h:605:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function]
  605 | static int fio_read_int32(fio_fd fd, int *i) {
      |            ^~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/fastio.h:459:19: warning: ‘fio_readv’ defined but not used [-Wunused-function]
  459 | static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) {
      |                   ^~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp:38:
In function ‘strncpy’,
    inlined from ‘read_phi_data(void*, int, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp:216:14:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function ‘int read_plt_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:143:51: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  143 |   if ( fread(datablock, sizeof(float), ndata, fd) != ndata ) {
      |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function ‘void* open_plt_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:69:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   69 |   fread(intHeader, sizeof(int), 5, fd);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:82:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   82 |   fread(floatHeader, sizeof(float), 6, fd);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:42:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void put_element_ply(PlyFile*, void*)’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:459:7: warning: unused variable ‘i’ [-Wunused-variable]
  459 |   int i,j,k;
      |       ^
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void ascii_get_element(PlyFile*, char*)’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1407:7: warning: unused variable ‘i’ [-Wunused-variable]
 1407 |   int i,j,k;
      |       ^
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void binary_get_element(PlyFile*, char*)’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1541:7: warning: unused variable ‘i’ [-Wunused-variable]
 1541 |   int i,j,k;
      |       ^
contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:107:17: warning: variable ‘vert_other’ set but not used [-Wunused-but-set-variable]
  107 |   PlyOtherProp *vert_other=NULL;
      |                 ^~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:108:17: warning: variable ‘face_other’ set but not used [-Wunused-but-set-variable]
  108 |   PlyOtherProp *face_other=NULL;
      |                 ^~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void binary_get_element(PlyFile*, char*)’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1629:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 1629 |       fread (&len, sizeof(int), 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1631:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 1631 |       fread (str, len, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void get_binary_item(FILE*, int, int*, unsigned int*, double*)’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2057:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2057 |       fread (ptr, 1, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2063:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2063 |       fread (ptr, 1, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2069:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2069 |       fread (ptr, 2, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2075:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2075 |       fread (ptr, 2, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2081:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2081 |       fread (ptr, 4, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2087:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2087 |       fread (ptr, 4, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2093:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2093 |       fread (ptr, 4, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2099:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2099 |       fread (ptr, 8, 1, fp);
      |       ~~~~~~^~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:27:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: ‘void swap4_aligned(void*, long int)’ defined but not used [-Wunused-function]
  110 | static void swap4_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_structure’:
contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:292:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  292 |   if (NULL == fgets(fbuffer, 1024, data->file))
      |   ^~
contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:295:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  295 |     if (NULL == fgets(fbuffer, 1024, data->file))
      |     ^~
contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In function ‘int {anonymous}::write_structure(void*, int, const molfile_atom_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1904:9: warning: unused variable ‘last_ctnumber’ [-Wunused-variable]
 1904 |     int last_ctnumber = -1;
      |         ^~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:34:
In function ‘strncpy’,
    inlined from ‘read_dlpoly_config_structure’ at contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:362:5:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 4095 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘recreate_command_line’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1334:11: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=]
 1334 |   line[0] = '\0';
      |   ~~~~~~~~^~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1333:26: note: destination object of size 0 allocated by ‘malloc’
 1333 |   line = (char *) malloc (sizeof(char) * len);
      |                   ~~~~~~~^~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_dlpoly_structure’ at contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:267:5:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 4095 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘ascii_get_element(PlyFile*, char*)’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1497:18: warning: ‘item’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1497 |             item += item_size;
      |             ~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1477:19: warning: ‘other_data’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1477 |       store_array = (char **) (elem_data + prop->offset);
      |       ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘binary_get_element(PlyFile*, char*)’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1620:18: warning: ‘item’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1620 |             item += item_size;
      |             ~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1634:14: warning: ‘other_data’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1634 |         item = elem_data + prop->offset;
      |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function ‘int read_dsn6_data(void*, int, float*, float*)’:
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);
      |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function ‘void* open_dsn6_read(const char*, const char*, int*)’:
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 contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:63:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: ‘void swap4_aligned(void*, long int)’ defined but not used [-Wunused-function]
  110 | static void swap4_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/mmtf-c/mmtf_parser.cpp: In function ‘bool MMTF_unpack_from_file(const char*, MMTF_container*)’:
contrib/mmtf-c/mmtf_parser.cpp:1075:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 1075 |     fread(buffer, fileLen, 1, file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function ‘get_atom_radius’:
contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:16: warning: variable ‘type’ set but not used [-Wunused-but-set-variable]
  166 |   char *name, *type;
      |                ^~~~
contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:9: warning: variable ‘name’ set but not used [-Wunused-but-set-variable]
  166 |   char *name, *type;
      |         ^~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:34:
In function ‘strncpy’,
    inlined from ‘get_pqr_cryst1’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:109:3,
    inlined from ‘read_pqr_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:319:9:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 81 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pqr_fields’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:137:3,
    inlined from ‘read_pqr_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:268:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 68 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pqr_fields’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:138:3,
    inlined from ‘read_pqr_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:268:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 63 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pqr_fields’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:139:3,
    inlined from ‘read_pqr_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:268:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 1 byte from a string of length 59 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pqr_fields’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:140:3,
    inlined from ‘read_pqr_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:268:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 58 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c: In function ‘write_psf_structure’:
contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:782:33: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  782 |       if (strlen(atoms[i].type) > fw) {
      |                                 ^
In file included from contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:30:
At top level:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:103:12: warning: ‘fortread_4’ defined but not used [-Wunused-function]
  103 | static int fortread_4(void *dest, int n, int swap, FILE *fd) {
      |            ^~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘fort_get_endian_reclen’ defined but not used [-Wunused-function]
   55 | static int fort_get_endian_reclen(int reclen, int word0, int word1,
      |            ^~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘fort_eat_recmark’ defined but not used [-Wunused-function]
   36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) {
      |            ^~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/fortread.h:28,
                 from contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:30:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘swap8_aligned’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘swap8_unaligned’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘swap4_unaligned’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:71:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: ‘void swap4_aligned(void*, long int)’ defined but not used [-Wunused-function]
  110 | static void swap4_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:70:
contrib/uiuc/plugins/molfile_plugin/src/vmddir.h:145:12: warning: ‘int vmd_file_is_executable(const char*)’ defined but not used [-Wunused-function]
  145 | static int vmd_file_is_executable(const char * filename) {
      |            ^~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function ‘open_rst_read’:
contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:48:11: warning: variable ‘timesteprst’ set but not used [-Wunused-but-set-variable]
   48 |   double  timesteprst;
      |           ^~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function ‘PlugIOManagerInitAll’:
contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:271:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  271 | if(ok) ok = ok && (molfile_xyzplugin_init() == VMDPLUGIN_SUCCESS);
      | ^~
contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:273:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  273 |        if(ok) {
      |        ^~
contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function ‘PlugIOManagerFreeAll’:
contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:411:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  411 | if(ok) ok = ok && (molfile_xyzplugin_fini() == VMDPLUGIN_SUCCESS);
      | ^~
contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:413:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  413 |        return ok;
      |        ^~~~~~
contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function ‘int read_spider_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  286 |   fread(datablock, total * sizeof(float), 1, fd);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:36:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:56:
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:938:9:
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘abinit_readline’:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:279:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  279 |     for (i = 0; i < strlen(line); ++i) {
      |                   ^
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:938:9:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:70:
At top level:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1046:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1046:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1047:23:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1047:23:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1048:23:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1048:23:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:96:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   96 |     fgets(line, 80, infile);
      |     ~~~~~^~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:104:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  104 |     fgets(line, 80, infile);
      |     ~~~~~^~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:119:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  119 |       fgets(line, 80, infile);
      |       ~~~~~^~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:131:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  131 |         fgets(line, 80, infile);
      |         ~~~~~^~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:153:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  153 |       fgets(line, 80, infile);
      |       ~~~~~^~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:162:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  162 |       fgets(line, 80, infile);
      |       ~~~~~^~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:171:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  171 |       fgets(line, 80, infile);
      |       ~~~~~^~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:861:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:861:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:862:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:862:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:863:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:863:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:865:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:865:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:866:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:866:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:867:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16,
    inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17,
    inlined from ‘(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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:867:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector<std::__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&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:886:16:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c:41:
In function ‘strncpy’,
    inlined from ‘read_tinker_structure’ at contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c:103:5:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘void* open_uhbd_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:22: warning: variable ‘o’ set but not used [-Wunused-but-set-variable]
   90 |   float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
      |                      ^
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:28: warning: variable ‘s’ set but not used [-Wunused-but-set-variable]
   90 |   float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
      |                            ^
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘int read_uhbd_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:254:66: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  254 |       if (fread(datablock + z*xysize, sizeof(float), xysize, fd) != xysize) {
      |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘void* open_uhbd_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:102:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  102 |   fread(&headersize, sizeof(int), 1, fd);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:47:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:40:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:41:
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)
      |             ^~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:40:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:42:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘angular_momentum_expon’:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  545 |   for (i=0; i<strlen(ang_mom_str); i++) {
      |              ^
At top level:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
 1097 | static void whereami(FILE *file) {
      |             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
 1077 | static void thisline(FILE *file) {
      |             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1028:12: warning: ‘fpexpftoc’ defined but not used [-Wunused-function]
 1028 | static int fpexpftoc(char *ftocstr) {
      |            ^~~~~~~~~
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,
      |            ^~~~~~~~~~~~
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, ...) {
      |            ^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:901:14: warning: ‘strtoupper’ defined but not used [-Wunused-function]
  901 | static char *strtoupper(char *s) {
      |              ^~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:895:12: warning: ‘iswhiteline’ defined but not used [-Wunused-function]
  895 | static int iswhiteline(char *s) {
      |            ^~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:846:13: warning: ‘eatwhitelines’ defined but not used [-Wunused-function]
  846 | static void eatwhitelines(FILE *file) {
      |             ^~~~~~~~~~~~~
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)
      |             ^~~~~~~
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,
      |            ^~~~~~~~~~~~~~~
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]) {
      |             ^~~~~~~~~~~~~
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,
      |             ^~~~~~~~~~~~~~~~~~~~~~
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) {
      |             ^~~~~~~~~~~~~~~~
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) {
      |             ^~~~~~~~~~~~~~~~~~~~
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) {
      |                           ^~~~~~~~~~~~~~~~
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() {
      |                  ^~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:41:
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)
      |             ^~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_timestep(void*, int, molfile_timestep_t*)’:
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);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:252:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  252 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_bonds_aux(void*, int*, int**, int**, float**)’:
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:328:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  328 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:346:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  346 |   fgets(line, LINESIZE, bgf->file);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:355:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  355 |     fgets(nextline, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:419:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  419 |         fgets(line, LINESIZE, bgf->file);
      |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_structure(void*, int*, molfile_atom_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:194:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  194 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:203:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  203 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘void* open_bgf_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:59:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   59 |     fgets(line, LINESIZE, fd);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘(anonymous namespace)::read_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1786:22:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’:
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:23: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
  714 |         sprintf(sub, "%03x/", i);
      |                       ^~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:22: note: directive argument in the range [0, 2147483646]
  714 |         sprintf(sub, "%03x/", i);
      |                      ^~~~~~~
In file included from /usr/include/stdio.h:900,
                 from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56,
                 from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47:
/usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 5 and 10 bytes into a destination of size 6
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:30: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
  722 |             sprintf(subsub, "%03x", j);
      |                              ^~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:29: note: directive argument in the range [0, 2147483646]
  722 |             sprintf(subsub, "%03x", j);
      |                             ^~~~~~
In file included from /usr/include/stdio.h:900,
                 from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56,
                 from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47:
/usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 4 and 9 bytes into a destination of size 6
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘write_vaspposcar_timestep’:
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));
      |                                        ^
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:40:
At top level:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:27:
In function ‘strncpy’,
    inlined from ‘get_bgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:120:12,
    inlined from ‘read_bgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:261:24:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 224 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_bgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:125:12,
    inlined from ‘read_bgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:261:24:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 214 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_bgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:130:12,
    inlined from ‘read_bgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:261:24:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 204 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_bgf_fields(char const*, char*, char*, char*, char*, int*, char*, float*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:144:10,
    inlined from ‘read_bgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:215:19:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 242 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_bgf_fields(char const*, char*, char*, char*, char*, int*, char*, float*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:149:10,
    inlined from ‘read_bgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:215:19:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 236 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_bgf_fields(char const*, char*, char*, char*, char*, int*, char*, float*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:167:10,
    inlined from ‘read_bgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:215:19:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 194 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
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)’:
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:675:35: warning: ‘__sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
  675 |             sprintf(answer, "%03x/", d1);
      |                                   ^
In file included from /usr/include/stdio.h:900,
                 from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56,
                 from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47:
/usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 5 and 10 bytes into a destination of size 9
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:35: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size between 0 and 5 [-Wformat-overflow=]
  673 |             sprintf(answer, "%03x/%03x/", d1, d2);
      |                                   ^~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:29: note: directive argument in the range [0, 2147483646]
  673 |             sprintf(answer, "%03x/%03x/", d1, d2);
      |                             ^~~~~~~~~~~~
In file included from /usr/include/stdio.h:900,
                 from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56,
                 from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47:
/usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 9 and 19 bytes into a destination of size 9
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:40:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function ‘int read_brix_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:247:14: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  247 |         fread(brick, sizeof(char), 512, fd);
      |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function ‘void* open_brix_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:79:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   79 |   fscanf(fd, "%3s", keyWord);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:86:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   86 |   fscanf(fd, " %s %d %d %d", keyWord, &org_x, &org_y, &org_z);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:93:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   93 |   fscanf(fd, " %s %d %d %d", keyWord, &ext_x, &ext_y, &ext_z);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:100:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  100 |   fscanf(fd, " %s %f %f %f", keyWord, &grid_x, &grid_y, &grid_z);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:109:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  109 |   fscanf(fd, " %s %f %f %f %f %f %f", keyWord,
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  110 |          &cell_x, &cell_y, &cell_z, &cell_alpha, &cell_beta, &cell_gamma);
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:123:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  123 |   fscanf(fd, " %s %f", keyWord, &prod);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:128:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  128 |   fscanf(fd, " %s %f", keyWord, &plus);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:135:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  135 |   fscanf(fd, " %s %f", keyWord, &sigma);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:47:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_structure’:
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:29: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=]
  127 |     sprintf(atom->resname, "%d", resid);
      |                             ^~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:28: note: directive argument in the range [-2147483648, 9999999]
  127 |     sprintf(atom->resname, "%d", resid);
      |                            ^~~~
In file included from /usr/include/stdio.h:900,
                 from contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:85:
/usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 2 and 12 bytes into a destination of size 8
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘int read_ccp4_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:495:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  495 |         if ( fread(rowdata, sizeof(char), extent[0], fd) != extent[0] ) {
      |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:525:67: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  525 |         if ( fread(rowdata, sizeof(unsigned char), extent[0], fd) != extent[0] ) {
      |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:556:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  556 |         if (fread(rowdata, sizeof(float), extent[0], fd) != extent[0] ) {
      |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:588:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  588 |         if (fread(rowdata, sizeof(short), extent[0], fd) != extent[0] ) {
      |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:623:67: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  623 |         if (fread(rowdata, sizeof(unsigned short), extent[0], fd) != extent[0] ) {
      |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:655:60: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  655 |         if ( fread(rowdata, sizeof(uchar3), extent[0], fd) != extent[0] ) {
      |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘void* open_ccp4_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:304:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  304 |       fgets(symData, 81, fd);
      |       ~~~~~^~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:42:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:32:
In function ‘strncat’,
    inlined from ‘vtf_parse_atom’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:538:9,
    inlined from ‘vtf_parse_structure’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:812:24,
    inlined from ‘_vtf_open_file_read’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:944:5,
    inlined from ‘vtf_open_file_read’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:970:10:
/usr/include/bits/string_fortified.h:138:10: warning: ‘__strncat_chk’ output may be truncated copying 200 bytes from a string of length 254 [-Wstringop-truncation]
  138 |   return __builtin___strncat_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  139 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncat’,
    inlined from ‘vtf_parse_atom’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:629:7,
    inlined from ‘vtf_parse_structure’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:812:24,
    inlined from ‘_vtf_open_file_read’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:944:5,
    inlined from ‘vtf_open_file_read’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:970:10:
/usr/include/bits/string_fortified.h:138:10: warning: ‘__strncat_chk’ output may be truncated copying 200 bytes from a string of length 254 [-Wstringop-truncation]
  138 |   return __builtin___strncat_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  139 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘open_ccp4_read(char const*, char const*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:287:42: warning: ‘dataOffset’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  287 |     } else if ((dataOffset > CCP4HDSIZE) && (dataOffset < (1024*1024))) {
      |                ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)’:
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:278:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  278 |     fgets(line, LINESIZE, mdf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:297:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  297 |       fgets(line, LINESIZE, mdf->file);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:319:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  319 |     fgets(line, LINESIZE, mdf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:357:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  357 |       fgets(line, LINESIZE, mdf->file);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘int read_mdf_structure(void*, int*, molfile_atom_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:223:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  223 |     fgets(line, LINESIZE, mdf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:241:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  241 |       fgets(line, LINESIZE, mdf->file);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘void* open_mdf_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:164:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  164 |     fgets(line, LINESIZE, fd);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:176:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  176 |     fgets(line, LINESIZE, fd);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:183:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  183 |       fgets(line, LINESIZE, fd);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/stdio.h:900,
                 from contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:29:
In function ‘sprintf’,
    inlined from ‘vtf_error’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:147:3,
    inlined from ‘vtf_read_bonds’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:1203:5,
    inlined from ‘vtf_read_bonds’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:1193:12:
/usr/include/bits/stdio2.h:30:10: warning: ‘%s’ directive argument is null [-Wformat-overflow=]
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:276:45: warning: variable ‘total’ set but not used [-Wunused-but-set-variable]
  276 |   int x, y, z, xsize, ysize, zsize, xysize, total;
      |                                             ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:338:45: warning: variable ‘total’ set but not used [-Wunused-but-set-variable]
  338 |   int x, y, z, xsize, ysize, zsize, xysize, total;
      |                                             ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:371:15: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  371 |         fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz);
      |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:306:15: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  306 |         fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz);
      |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:72:
contrib/uiuc/plugins/include/vmdconio.h: At global scope:
contrib/uiuc/plugins/include/vmdconio.h:56:12: warning: ‘int vmdcon_printf(int, const char*, ...)’ defined but not used [-Wunused-function]
   56 | static int vmdcon_printf(int lvl, const char *fmt, ...) {
      |            ^~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2_timestep(void*, int, molfile_timestep_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:275:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  275 |     fgets(line, LINESIZE, mol2->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:289:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  289 |     fgets(line, LINESIZE, mol2->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2_bonds_aux(void*, int*, int**, int**, float**)’:
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:199:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  199 |     fgets(line, LINESIZE, mol2->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:209:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  209 |     fgets(line, LINESIZE, mol2->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2(void*, int*, molfile_atom_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:127:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  127 |     fgets(line, LINESIZE, mol2->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:138:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  138 |     fgets(line, LINESIZE, mol2->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘void* open_mol2_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:74:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   74 |     fgets(line, LINESIZE, fd);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:81:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   81 |   fgets(line, LINESIZE, fd);  // Read and ignore the mol_name
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:82:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   82 |   fgets(line, LINESIZE, fd);  // Read the molecule info
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:91:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   91 |   fgets(line, LINESIZE, fd);  // Read and ignore the mol_type
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:92:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   92 |   fgets(line, LINESIZE, fd);  // Read the charge_type
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_timestep(void*, int, molfile_timestep_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:288:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  288 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:297:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  297 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_bonds_aux(void*, int*, int**, int**, float**)’:
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:365:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  365 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:387:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  387 |   fgets(line, LINESIZE, bgf->file);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:395:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  395 |     fgets(nextline, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:455:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  455 |         fgets(line, LINESIZE, bgf->file);
      |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_structure(void*, int*, molfile_atom_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:241:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  241 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:250:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  250 |     fgets(line, LINESIZE, bgf->file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘void* open_xbgf_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:72:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   72 |     fgets(line, LINESIZE, fd);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function ‘void* open_cube_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:175:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  175 |   fgets(readbuf, 1023, cube->fd);    // go on to next line
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:181:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  181 |   fgets(readbuf, 1023, cube->fd); // skip second header line
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:326:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  326 |       fgets(readbuf, 1023, cube->fd);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:337:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  337 |       fgets(readbuf, 1023, cube->fd);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:339:11: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  339 |     fscanf(cube->fd, "%d", &cube->nsets);
      |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:344:13: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  344 |       fscanf(cube->fd, "%d", &orb);
      |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:349:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  349 |     fgets(readbuf, 1023, cube->fd);  // gobble up rest of line
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:107:13: warning: ‘void cube_buildrotmat(cube_t*, float*, float*, float*)’ defined but not used [-Wunused-function]
  107 | static void cube_buildrotmat(cube_t *cube, float *o, float *a, float *b)
      |             ^~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:42:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘int get_pte_idx_from_string(const char*)’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘int get_pte_idx(const char*)’ defined but not used [-Wunused-function]
  133 | static int get_pte_idx(const char *label)
      |            ^~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘angular_momentum_expon’:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  545 |   for (i=0; i<strlen(ang_mom_str); i++) {
      |              ^
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘read_molden_rundata’:
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;
      |                         ^~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49:
At top level:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
 1097 | static void whereami(FILE *file) {
      |             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
 1077 | static void thisline(FILE *file) {
      |             ^~~~~~~~
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,
      |            ^~~~~~~~~~~~
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,
      |            ^~~~~~~~~~~~~~~
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]) {
      |             ^~~~~~~~~~~~~
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) {
      |             ^~~~~~~~~~~~~~~~
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 contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:48:
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)
      |            ^~~~~~~~~~~
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)
      |              ^~~~~~~~~~~~~~~~~~
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)
      |              ^~~~~~~~~~~~
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)
      |                    ^~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:33:
In function ‘strncat’,
    inlined from ‘open_cube_read(char const*, char const*, int*)’ at contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:179:10:
/usr/include/bits/string_fortified.h:138:34: warning: ‘__strncat_chk’ output may be truncated copying 240 bytes from a string of length 1023 [-Wstringop-truncation]
  138 |   return __builtin___strncat_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
  139 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:27:
In function ‘strncpy’,
    inlined from ‘get_xbgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:143:12,
    inlined from ‘read_xbgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:306:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 223 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_xbgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:148:12,
    inlined from ‘read_xbgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:306:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 213 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_xbgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:153:12,
    inlined from ‘read_xbgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:306:25:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 203 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_xbgf_fields(char const*, char*, char*, char*, char*, float*, float*, int*, int*, char*, float*, float*, float*, float*, char*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:172:10,
    inlined from ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:259:20:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 241 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_xbgf_fields(char const*, char*, char*, char*, char*, float*, float*, int*, int*, char*, float*, float*, float*, float*, char*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:177:10,
    inlined from ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:259:20:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 235 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_xbgf_fields(char const*, char*, char*, char*, char*, float*, float*, int*, int*, char*, float*, float*, float*, float*, char*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:182:10,
    inlined from ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:259:20:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 154 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_xbgf_fields(char const*, char*, char*, char*, char*, float*, float*, int*, int*, char*, float*, float*, float*, float*, char*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:197:10,
    inlined from ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:259:20:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 192 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Feedback.cpp -o build/temp.linux-x86_64-3.9/layer0/Feedback.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘void eatline(FILE*)’:
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:238:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  238 |   fgets(readbuf, 1024, fd);    // go on to next line
      |   ~~~~~^~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘void* open_xsf_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:408:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  408 |         fgets(readbuf, 256, xsf->fd);
      |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:442:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  442 |               fgets(readbuf, 256, xsf->fd);
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:444:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  444 |               fgets(readbuf, 256, xsf->fd);
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:446:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  446 |               fgets(readbuf, 256, xsf->fd);
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:448:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  448 |               fgets(readbuf, 256, xsf->fd);
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:450:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  450 |               fgets(readbuf, 256, xsf->fd);
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:473:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  473 |                 fgets(readbuf, 256, xsf->fd);
      |                 ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:508:16: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  508 |           fgets(readbuf, 256, xsf->fd);
      |           ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:37:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘int get_pte_idx_from_string(const char*)’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:34:
In function ‘strncpy’,
    inlined from ‘read_molden_structure’ at contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:350:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_molden_structure’ at contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:351:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_molden_structure’ at contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:317:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_molden_structure’ at contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:326:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 1023 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:29:
In function ‘strncpy’,
    inlined from ‘open_xsf_read(char const*, char const*, int*)’ at contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:438:22:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 255 bytes from a string of length 255 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function ‘int read_edm_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:240:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  240 |   fgets(readbuf, 13, edm->fd);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function ‘void eatline(FILE*)’:
contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:44:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   44 |   fgets(readbuf, 1024, fd);    // go on to next line
      |   ~~~~~^~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In function ‘strncpy’,
    inlined from ‘read_xsf_structure(void*, int*, molfile_atom_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:597:20:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
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);
      |     ~~~~~^~~~~~~~~~~~~~~~~~
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);
      |     ~~~~~^~~~~~~~~~~~~~~~~~
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);
      |    ~~~~~^~~~~~~~~~~~~~~~~~
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);
      |      ~~~~~^~~~~~~~~~~~~~~~~~
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);
      |               ~~~~~^~~~~~~~~~~~~~~~~~
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
      |      ~~~~~^~~~~~~~~~~~~~~~~~
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);
      |                      ~~~~~^~~~~~~~~~~~~~~~~~
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);
      |          ~~~~~^~~~~~~~~~~~~~~~~~
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);
      |                  ~~~~~^~~~~~~~~~~~~~~~~~
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);
      |          ~~~~~^~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:57:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
  160 | static int get_pte_idx_from_string(const char *label) {
      |            ^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:53:
In function ‘strncpy’,
    inlined from ‘read_xyz_structure’ at contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:133:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_xyz_structure’ at contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:127:7:
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Block.cpp -o build/temp.linux-x86_64-3.9/layer0/Block.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function ‘void* open_fs4_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:79:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   79 |   fread(&dataBegin, sizeof(int), 1, fd);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:48:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: ‘void strnwscpy(char*, const char*, int)’ defined but not used [-Wunused-function]
  133 | static void strnwscpy(char *target, const char *source, const int len) {
      |             ^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘int fort_get_endian_reclen(int, int, int, int*, int*)’ defined but not used [-Wunused-function]
   55 | static int fort_get_endian_reclen(int reclen, int word0, int word1,
      |            ^~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘int fort_eat_recmark(FILE*, int)’ defined but not used [-Wunused-function]
   36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) {
      |            ^~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:47:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Field.cpp -o build/temp.linux-x86_64-3.9/layer0/Field.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function ‘read_next_timestep’:
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;
      |          ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function ‘write_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:206:55: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  206 |     if (fwrite(tmp, sizeof(double), 3*n, namdbin->fd) != 3*n) {
      |                                                       ^~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘angular_momentum_expon’:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  545 |   for (i=0; i<strlen(ang_mom_str); i++) {
      |              ^
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘have_gamess’:
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];
      |        ^~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_basis_stats’:
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];
      |        ^~~~
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_wavefunction’:
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];
      |        ^~~~
contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c: In function ‘read_mmtk_cdf_structure’:
contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c:730:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  730 |       if (len > sizeof(name)) {
      |               ^
contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c: In function ‘read_mmtk_cdf_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c:1060:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 1060 |     for (i=0; i<(3 * mmtk->atom_numberdim); i++) {
      |                ^
At top level:
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 contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:162:
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)
      |            ^~~~~~~~~~~
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)
      |              ^~~~~~~~~~~~~~~~~~
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)
      |              ^~~~~~~~~~~~
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)
      |                    ^~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
 1097 | static void whereami(FILE *file) {
      |             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
 1077 | static void thisline(FILE *file) {
      |             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1028:12: warning: ‘fpexpftoc’ defined but not used [-Wunused-function]
 1028 | static int fpexpftoc(char *ftocstr) {
      |            ^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:901:14: warning: ‘strtoupper’ defined but not used [-Wunused-function]
  901 | static char *strtoupper(char *s) {
      |              ^~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:895:12: warning: ‘iswhiteline’ defined but not used [-Wunused-function]
  895 | static int iswhiteline(char *s) {
      |            ^~~~~~~~~~~
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]) {
      |             ^~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:155:
In function ‘strncpy’,
    inlined from ‘read_gamess_structure’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:477:5:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_gamess_structure’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:478:5:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_gamess_rundata’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:615:3:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_gamess_rundata’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:620:3:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4096 bytes from a string of length 8191 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_gamess_rundata’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:621:3:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘read_gamess_rundata’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:622:3:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1618:5:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 8191 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In function ‘strncpy’,
    inlined from ‘get_runtitle’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1459:3:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ specified bound 8192 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
layer0/Field.cpp: In function ‘PyObject* FieldAsNumPyArray(CField*, short int)’:
layer0/Field.cpp:83:1: warning: label ‘ok_except1’ defined but not used [-Wunused-label]
   83 | ok_except1:
      | ^~~~~~~~~~
layer0/Field.cpp: In function ‘CField* FieldNewFromPyList(PyMOLGlobals*, PyObject*)’:
layer0/Field.cpp:179:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  179 |   ok = ok && I->size() == size;
      |              ~~~~~~~~~~^~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Field.cpp:26:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’
layer0/Field.cpp:343:17:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_contrl’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1981:3:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ specified bound 8192 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In function ‘strncpy’,
    inlined from ‘get_contrl_firefly’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1818:3:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ specified bound 8192 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp: In function ‘int read_parm7_structure(void*, int*, molfile_atom_t*)’:
contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:78:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   78 |         fgets(buf, 85, file);
      |         ~~~~~^~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:25:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_atoms(const char*, int, molfile_atom_t*, FILE*)’:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:204:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  204 |       fgets(buf, 85, file);
      |       ~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_atype(const char*, int, molfile_atom_t*, FILE*)’:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:257:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  257 |       fgets(buf, 85, file);
      |       ~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_resnames(const char*, int, char*, FILE*)’:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:275:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  275 |       fgets(buf, 85, file);
      |       ~~~~~^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_respointers(const char*, int, molfile_atom_t*, int, const char*, FILE*)’:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:289:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  289 |   fscanf(file, " %d", &cur);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘parmstruct* read_parm7_header(FILE*)’:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:368:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  368 |   fgets(sdum, 512, file);
      |   ~~~~~^~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:371:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  371 |   fscanf(file, "%s\n", sdum); // "%FLAG"
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:378:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  378 |   fscanf(file, "%s\n", sdum); // "TITLE" or "CTITLE"
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:385:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  385 |   fscanf(file, "%s\n", sdum); // "FORMAT (20a4)"
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:399:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  399 |   fgets(prm->title, sizeof(prm->title), file);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:427:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  427 |     fgets(sdum, sizeof(sdum), file);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:439:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  439 |   fscanf(file,parm7,
      |   ~~~~~~^~~~~~~~~~~~
  440 |          &prm->Natom,  &prm->Ntypes, &prm->Nbonh, &prm->Nbona,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  441 |          &prm->Ntheth, &prm->Ntheta, &prm->Nphih, &prm->Nphia,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  442 |          &prm->Jparm,  &prm->Nparm);
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:443:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  443 |   fscanf(file, parm7,
      |   ~~~~~~^~~~~~~~~~~~~
  444 |          &prm->Nnb,   &prm->Nres,   &prm->Mbona,  &prm->Mtheta,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  445 |          &prm->Mphia, &prm->Numbnd, &prm->Numang, &prm->Mptra,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  446 |          &prm->Natyp, &prm->Nphb);
      |          ~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:447:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  447 |   fscanf(file, parm7,  &prm->Ifpert, &prm->Nbper,  &prm->Ngper,
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  448 |          &prm->Ndper, &prm->Mbper,  &prm->Mgper, &prm->Mdper,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  449 |          &prm->IfBox, &prm->Nmxrs,  &prm->IfCap);
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:451:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  451 |   fscanf(file,"%8d",&prm->Numextra); //BB
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int read_parm7_flag(FILE*, const char*, const char*)’:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:79:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   79 |   fscanf(file, "%s\n", buf);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:87:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   87 |   fscanf(file, "%s\n", buf);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:97:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   97 |   fscanf(file, "%s\n", buf);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/CarveHelper.cpp -o build/temp.linux-x86_64-3.9/layer0/CarveHelper.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In function ‘strncat’,
    inlined from ‘get_basis_options’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1422:5:
/usr/include/bits/string_fortified.h:138:10: warning: ‘__strncat_chk’ output may be truncated copying 1 byte from a string of length 9 [-Wstringop-truncation]
  138 |   return __builtin___strncat_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  139 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncat’,
    inlined from ‘get_basis_options’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1411:5:
/usr/include/bits/string_fortified.h:138:10: warning: ‘__strncat_chk’ output may be truncated copying 1 byte from a string of length 9 [-Wstringop-truncation]
  138 |   return __builtin___strncat_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  139 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:23:
In function ‘strncpy’,
    inlined from ‘parse_parm7_resnames(char const*, int, char*, _IO_FILE*)’ at contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:277:12,
    inlined from ‘read_parm7_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:93:32:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘parse_parm7_atype(char const*, int, molfile_atom_t*, _IO_FILE*)’ at contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:259:12,
    inlined from ‘read_parm7_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:90:29:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘parse_parm7_atoms(char const*, int, molfile_atom_t*, _IO_FILE*)’ at contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:206:12,
    inlined from ‘read_parm7_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:82:29:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_proc_mem.isra.0’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1279:5:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 256 bytes from a string of length 8191 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_proc_mem.isra.0’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1272:5:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ specified bound 256 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:24:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h: In member function ‘int {anonymous}::ReadPARM::readparm(FILE*)’:
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:435:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  435 |           fscanf(file, " " DBLFMT, &prm->Charges[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:444:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  444 |           fscanf(file, " " DBLFMT, &prm->Masses[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:510:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  510 |           fscanf(file, " " DBLFMT, &prm->Rk[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:517:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  517 |           fscanf(file, " " DBLFMT, &prm->Req[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:524:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  524 |           fscanf(file, " " DBLFMT, &prm->Tk[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:531:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  531 |           fscanf(file, " " DBLFMT, &prm->Teq[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:538:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  538 |           fscanf(file, " " DBLFMT, &prm->Pk[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:545:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  545 |           fscanf(file, " " DBLFMT, &prm->Pn[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:552:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  552 |           fscanf(file, " " DBLFMT, &prm->Phase[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:559:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  559 |           fscanf(file, " " DBLFMT, &prm->Solty[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:567:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  567 |           fscanf(file, " " DBLFMT, &prm->Cn1[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:575:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  575 |           fscanf(file, " " DBLFMT, &prm->Cn2[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:756:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  756 |           fscanf(file, " " DBLFMT, &prm->HB12[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:763:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  763 |           fscanf(file, " " DBLFMT, &prm->HB6[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:771:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  771 |           fscanf(file, " " DBLFMT, &H[i]);
      |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:853:23: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  853 |                 fscanf(file, " " DBLFMT " " DBLFMT " " DBLFMT,
      |                 ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  854 |                                 &prm->Box[0], &prm->Box[1], &prm->Box[2]);
      |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:867:23: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  867 |                 fscanf(file, " %d " DBLFMT " " DBLFMT " " DBLFMT " " DBLFMT,
      |                 ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  868 |                                 &prm->Natcap, &prm->Cutcap,
      |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~
  869 |                                 &prm->Xcap, &prm->Ycap, &prm->Zcap);
      |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer0/CarveHelper.cpp:8:
layer0/CarveHelper.h: In constructor ‘CarveHelper::CarveHelper(PyMOLGlobals*, float, const float*, std::size_t)’:
layer0/CarveHelper.h:23:9: warning: ‘CarveHelper::m_cutoff’ will be initialized after [-Wreorder]
   23 |   float m_cutoff;
      |         ^~~~~~~~
layer0/CarveHelper.h:22:16: warning:   ‘const float* CarveHelper::m_vertices’ [-Wreorder]
   22 |   const float* m_vertices;
      |                ^~~~~~~~~~
layer0/CarveHelper.cpp:20:1: warning:   when initialized here [-Wreorder]
   20 | CarveHelper::CarveHelper(PyMOLGlobals* G, float cutoff, const float* vertices,
      | ^~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_fmoxyz’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1682:5,
    inlined from ‘get_input_structure’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1537:12:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 8191 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/ContourSurf.cpp -o build/temp.linux-x86_64-3.9/layer0/ContourSurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In function ‘strncpy’,
    inlined from ‘symmetry_expand’ at contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:819:5,
    inlined from ‘get_traj_frame.constprop.0’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2931:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 10 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/File.cpp -o build/temp.linux-x86_64-3.9/layer0/File.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:53:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:32:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘get_pte_idx’ defined but not used [-Wunused-function]
  133 | static int get_pte_idx(const char *label)
      |            ^~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function ‘void line3(FILE*, GRASSP*)’:
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:186:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  186 |   fread(line3, 1, 80, infile);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:284:3: note: in expansion of macro ‘TRASH’
  284 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:285:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  285 |   fread(line, 1, 80, infile);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:291:3: note: in expansion of macro ‘TRASH’
  291 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:305:3: note: in expansion of macro ‘TRASH’
  305 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:306:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  306 |   fread(line, 1, 80, infile);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:307:3: note: in expansion of macro ‘TRASH’
  307 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:311:3: note: in expansion of macro ‘TRASH’
  311 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:313:3: note: in expansion of macro ‘TRASH’
  313 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:318:3: note: in expansion of macro ‘TRASH’
  318 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:319:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  319 |   fread(line, 1, 80, infile);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:320:3: note: in expansion of macro ‘TRASH’
  320 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:328:3: note: in expansion of macro ‘TRASH’
  328 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:329:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  329 |   fread(line, 1, 80, infile);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:330:3: note: in expansion of macro ‘TRASH’
  330 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:354:3: note: in expansion of macro ‘TRASH’
  354 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:355:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  355 |   fread(vertex, 3 * sizeof(float), nvert, infile);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:356:3: note: in expansion of macro ‘TRASH’
  356 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:357:3: note: in expansion of macro ‘TRASH’
  357 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:358:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  358 |   fread(access, 3 * sizeof(float), nvert, infile);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:359:3: note: in expansion of macro ‘TRASH’
  359 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:360:3: note: in expansion of macro ‘TRASH’
  360 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:361:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  361 |   fread(normal, 3 * sizeof(float), nvert, infile);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:362:3: note: in expansion of macro ‘TRASH’
  362 |   TRASH;
      |   ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:371:5: note: in expansion of macro ‘TRASH’
  371 |     TRASH;
      |     ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:372:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  372 |     fread(triangle, 3 * sizeof(int), ntriangles, infile);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:373:5: note: in expansion of macro ‘TRASH’
  373 |     TRASH;
      |     ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:374:5: note: in expansion of macro ‘TRASH’
  374 |     TRASH;
      |     ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:375:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  375 |     fread(properties, 3 * sizeof(float), nvert, infile);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:394:5: note: in expansion of macro ‘TRASH’
  394 |     TRASH;
      |     ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:395:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  395 |     fread(striangle, sizeof(short), 3 * ntriangles, infile);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:396:5: note: in expansion of macro ‘TRASH’
  396 |     TRASH;
      |     ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  280 | #define TRASH fread(trash, 4, 1, infile)
      |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:397:5: note: in expansion of macro ‘TRASH’
  397 |     TRASH;
      |     ^~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:398:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  398 |     fread(properties, sizeof(float), 3 * nvert, infile);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:40:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:23,
                 from contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:31:
In function ‘strncpy’,
    inlined from ‘get_pdb_cryst1’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:119:3,
    inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:277:9:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 82 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:144:5,
    inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 52 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:149:5,
    inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 44 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:154:5,
    inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 36 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:159:5,
    inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 28 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:164:5,
    inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 22 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_header’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:190:5,
    inlined from ‘open_pdb_read’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:79:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 9 bytes from a string of length 32 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_header’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:200:5,
    inlined from ‘open_pdb_read’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:79:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 20 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer0/ContourSurf.cpp:11:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int}]’
layer0/ContourSurf.cpp:409:37:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int, int}]’
layer0/ContourSurf.cpp:419:36:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
In function ‘strncpy’,
    inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:299:3,
    inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 70 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:304:3,
    inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 1 byte from a string of length 66 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:308:3,
    inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 65 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:317:3,
    inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 60 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:159:5,
    inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:326:3,
    inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 28 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:164:5,
    inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:326:3,
    inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 22 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:330:5,
    inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 10 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:339:5,
    inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7:
/usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 2 bytes from a string of length 6 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘int getUniqueResID(char*, int)’:
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:443:7: warning: unused variable ‘i’ [-Wunused-variable]
  443 |   int i, uid;
      |       ^
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘int parseStructureFaster(molfile_atom_t*, int*, pdbxParser*)’:
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:484:47: warning: unused variable ‘j’ [-Wunused-variable]
  484 |   int i, count, atomdata, pos, idx, xyzcount, j;
      |                                               ^
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:503:8: warning: unused variable ‘oldChain’ [-Wunused-variable]
  503 |   char oldChain[8];
      |        ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘bool readAngleBonds(molfile_atom_t*, pdbxParser*)’:
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:803:7: warning: unused variable ‘bondTable’ [-Wunused-variable]
  803 |   int bondTable[32];
      |       ^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:807:15: warning: unused variable ‘j’ [-Wunused-variable]
  807 |   int i, pos, j, k;
      |               ^
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:811:8: warning: unused variable ‘modelNum’ [-Wunused-variable]
  811 |   char modelNum[8];
      |        ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:822:20: warning: unused variable ‘atom’ [-Wunused-variable]
  822 |   molfile_atom_t * atom;
      |                    ^~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:884:7: warning: unused variable ‘test’ [-Wunused-variable]
  884 |   int test = parser->nbonds + bnum;
      |       ^~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘bool readRMSDBonds(molfile_atom_t*, pdbxParser*)’:
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:984:7: warning: unused variable ‘bondTable’ [-Wunused-variable]
  984 |   int bondTable[32];
      |       ^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:988:15: warning: unused variable ‘j’ [-Wunused-variable]
  988 |   int i, pos, j, k;
      |               ^
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:991:8: warning: unused variable ‘modelNum’ [-Wunused-variable]
  991 |   char modelNum[8];
      |        ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1002:20: warning: unused variable ‘atom’ [-Wunused-variable]
 1002 |   molfile_atom_t * atom;
      |                    ^~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘void* open_file_write(const char*, const char*, int)’:
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1409:9: warning: unused variable ‘fd’ [-Wunused-variable]
 1409 |   FILE* fd;
      |         ^~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:313:14: warning: ‘float stringToFloat(char*)’ defined but not used [-Wunused-function]
  313 | static float stringToFloat(char * str) {
      |              ^~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:25:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘int get_pte_idx(const char*)’ defined but not used [-Wunused-function]
  133 | static int get_pte_idx(const char *label)
      |            ^~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: ‘const char* get_pte_label(int)’ defined but not used [-Wunused-function]
   95 | static const char *get_pte_label(const int idx)
      |                    ^~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp:51:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/GenericBuffer.cpp -o build/temp.linux-x86_64-3.9/layer0/GenericBuffer.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Crystal.cpp -o build/temp.linux-x86_64-3.9/layer0/Crystal.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp: In function ‘void* open_grid_read(const char*, const char*, int*)’:
contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:84:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   84 |   fread(&dataBegin, sizeof(int), 1, fd);
      |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:60:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: ‘void strnwscpy(char*, const char*, int)’ defined but not used [-Wunused-function]
  133 | static void strnwscpy(char *target, const char *source, const int len) {
      |             ^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘int fort_get_endian_reclen(int, int, int, int*, int*)’ defined but not used [-Wunused-function]
   55 | static int fort_get_endian_reclen(int reclen, int word0, int word1,
      |            ^~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘int fort_eat_recmark(FILE*, int)’ defined but not used [-Wunused-function]
   36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) {
      |            ^~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:59:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
  124 | static void swap8_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30:
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function ‘int mdio_readline(md_file*, char*, int, int)’:
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:426:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  426 |         fgets(buf, n, mf->f);
      |         ~~~~~^~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:48,
                 from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
   96 | static void swap2_aligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/ShaderMgr.cpp -o build/temp.linux-x86_64-3.9/layer0/ShaderMgr.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/string.h:535,
                 from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:28:
In function ‘strncpy’,
    inlined from ‘g96_header(md_file*, char*, int, float*) [clone .constprop.0]’ at contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:650:32:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 500 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘gro_header(md_file*, char*, int, float*, int*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1018:33:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying between 1 and 80 bytes from a string of length 500 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
    inlined from ‘open_gro_read(char const*, char const*, int*)’ at contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:103:12:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 80 [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/GraphicsUtil.cpp -o build/temp.linux-x86_64-3.9/layer0/GraphicsUtil.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/hash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/inthash.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/inthash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Deferred.cpp -o build/temp.linux-x86_64-3.9/layer0/Deferred.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:79:
contrib/uiuc/plugins/molfile_plugin/src/fastio.h: In function ‘fio_readv’:
contrib/uiuc/plugins/molfile_plugin/src/fastio.h:519:14: warning: comparison of integer expressions of different signedness: ‘fio_size_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  519 |       if (rc != iov[i].iov_len)
      |              ^~
In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:89:
At top level:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘swap8_unaligned’ defined but not used [-Wunused-function]
   65 | static void swap8_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘swap4_unaligned’ defined but not used [-Wunused-function]
   46 | static void swap4_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function]
   32 | static void swap2_unaligned(void *v, long ndata) {
      |             ^~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:79:
contrib/uiuc/plugins/molfile_plugin/src/fastio.h:459:19: warning: ‘fio_readv’ defined but not used [-Wunused-function]
  459 | static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) {
      |                   ^~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Isosurf.cpp -o build/temp.linux-x86_64-3.9/layer0/Isosurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Err.cpp -o build/temp.linux-x86_64-3.9/layer0/Err.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/ButMode.cpp -o build/temp.linux-x86_64-3.9/layer1/ButMode.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Movie.cpp -o build/temp.linux-x86_64-3.9/layer1/Movie.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer0/Isosurf.cpp:25:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int, int}]’:
layer0/Isosurf.cpp:552:24:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’:
layer0/Isosurf.cpp:1459:32:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = PointType; SizeTs = {int, int, int, int}]’:
layer0/Field.h:134:26:   required from ‘T* CFieldTyped<T>::ptr(SizeTs ...) [with SizeTs = {int, int, int, int}; T = PointType]’
layer0/Isosurf.cpp:1617:19:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’
layer0/Field.h:144:26:   required from ‘T& CFieldTyped<T>::get(SizeTs ...) [with SizeTs = {int, int, int}; T = int]’
layer0/Isosurf.cpp:1456:15:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int, int}]’
layer0/Field.h:144:26:   required from ‘T& CFieldTyped<T>::get(SizeTs ...) [with SizeTs = {int, int, int, int}; T = int]’
layer0/Isosurf.cpp:1487:13:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
In file included from layer1/ButMode.cpp:22:
layer1/ButMode.cpp: In function ‘void ButModeFree(PyMOLGlobals*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CButMode’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer1/ButMode.cpp:144:3: note: in expansion of macro ‘DeleteP’
  144 |   DeleteP(G->ButMode);
      |   ^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/CGO.cpp -o build/temp.linux-x86_64-3.9/layer1/CGO.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Map.cpp -o build/temp.linux-x86_64-3.9/layer0/Map.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/CGO.cpp: In function ‘void CheckAttributesForUsage(const CGO*, AttribDataDesc&, AttribDataDesc&, CGO*, bool&)’:
layer1/CGO.cpp:10842:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
10842 |     for (auto idx = 0; idx < attrIdx; ++idx){
      |                        ~~~~^~~~~~~~~
layer1/CGO.cpp: In function ‘void PopulateOpsIntoStructuresForConversion(std::map<int, int>&, std::map<int, std::map<int, AttribOp*> >&, AttribDataDesc&, AttribDataDesc&, int&, bool)’:
layer1/CGO.cpp:10920:37: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
10920 |           if (attrOp->incr_vertices != vertsperpickinfo){
      |               ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
layer1/CGO.cpp: In function ‘CGO* CGOConvertToShader(const CGO*, AttribDataDesc&, AttribDataDesc&, int, GenericBuffer<34962>::buffer_layout, bool, int*, int, int)’:
layer1/CGO.cpp:11222:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<AttribDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
11222 |             for (auto idx = 0; idx < attrData.size(); ++idx){
      |                                ~~~~^~~~~~~~~~~~~~~~~
layer1/CGO.cpp:11234:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<AttribDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
11234 |             for (auto idx = 0; idx < attrData.size(); ++idx){
      |                                ~~~~^~~~~~~~~~~~~~~~~
layer1/CGO.cpp:11243:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
11243 |           for (int nxt = 0; nxt < attribOp->incr_vertices; ++nxt){
      |                             ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Ortho.cpp -o build/temp.linux-x86_64-3.9/layer1/Ortho.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Match.cpp -o build/temp.linux-x86_64-3.9/layer0/Match.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Matrix.cpp -o build/temp.linux-x86_64-3.9/layer0/Matrix.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Ortho.cpp:783:6: warning: ‘void OrthoKeyCmmd(PyMOLGlobals*, unsigned char)’ defined but not used [-Wunused-function]
  783 | void OrthoKeyCmmd(PyMOLGlobals * G, unsigned char k)
      |      ^~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/ShaderPrg.cpp -o build/temp.linux-x86_64-3.9/layer0/ShaderPrg.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/string.h:535,
                 from /usr/include/python3.9/Python.h:30,
                 from layer0/os_python.h:34,
                 from layer1/Ortho.cpp:24:
In function ‘strcat’,
    inlined from ‘OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at layer1/Ortho.cpp:332:13:
/usr/include/bits/string_fortified.h:130:33: warning: ‘strcat’ accessing 4611686018427387985 or more bytes at offsets [80, 261200] and [-4611686018427387904, 4611686018427387903] may overlap 1 byte at offset [80, 9223372036854775807] [-Wrestrict]
  130 |   return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest));
      |          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strcat’,
    inlined from ‘OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at layer1/Ortho.cpp:349:13:
/usr/include/bits/string_fortified.h:130:33: warning: ‘strcat’ accessing 4611686018427387985 or more bytes at offsets [80, 261200] and [-4611686018427387904, 4611686018427387903] may overlap 1 byte at offset [80, 9223372036854775807] [-Wrestrict]
  130 |   return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest));
      |          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/P.cpp -o build/temp.linux-x86_64-3.9/layer1/P.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/MemoryDebug.cpp -o build/temp.linux-x86_64-3.9/layer0/MemoryDebug.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer0/MemoryDebug.cpp: In function ‘void* VLADeleteRaw(void*, int, unsigned int)’:
layer0/MemoryDebug.cpp:223:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
  223 |       if(index < -old_size)
      |          ~~~~~~^~~~~~~~~~~
layer0/MemoryDebug.cpp:235:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
  235 |        (index < vla->size) && ((count + index) <= vla->size)) {
      |         ~~~~~~^~~~~~~~~~~
layer0/MemoryDebug.cpp: In function ‘void* VLAInsertRaw(void*, int, unsigned int)’:
layer0/MemoryDebug.cpp:256:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
  256 |       if(index < -old_size)
      |          ~~~~~~^~~~~~~~~~~
layer0/MemoryDebug.cpp:263:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
  263 |     if(index > old_size)
      |        ~~~~~~^~~~~~~~~~
layer0/MemoryDebug.cpp:266:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
  266 |     if((index >= 0) && (count > 0) && (index <= old_size)) {
      |                                        ~~~~~~^~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/MemoryUsage.cpp -o build/temp.linux-x86_64-3.9/layer0/MemoryUsage.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Sphere.cpp -o build/temp.linux-x86_64-3.9/layer0/Sphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer0/MemoryUsage.cpp: In function ‘size_t pymol::memory_usage()’:
layer0/MemoryUsage.cpp:38:21: warning: use of assignment suppression and length modifier together in gnu_scanf format [-Wformat=]
   38 |     std::fscanf(fp, "%*zu%zu", &vmRSS);
      |                     ^~~~~~~~~
layer0/MemoryUsage.cpp:38:16: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   38 |     std::fscanf(fp, "%*zu%zu", &vmRSS);
      |     ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/MyPNG.cpp -o build/temp.linux-x86_64-3.9/layer0/MyPNG.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Tetsurf.cpp -o build/temp.linux-x86_64-3.9/layer0/Tetsurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer0/MyPNG.cpp: In function ‘int MyPNGWrite(const char*, const pymol::Image&, float, int, int, float, float, png_outbuf_t*)’:
layer0/MyPNG.cpp:299:20: warning: comparison of integer expressions of different signedness: ‘png_uint_32’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
  299 |       for(k = 0; k < height; k++)
      |                  ~~^~~~~~~~
layer0/MyPNG.cpp:340:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  340 |           for(b = 0; b < height; b++) {
      |                      ~~^~~~~~~~
layer0/MyPNG.cpp:341:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  341 |             for(a = 0; a < width; a++) {
      |                        ~~^~~~~~~
layer1/P.cpp: In function ‘int WrapperObjectAssignSubScript(PyObject*, PyObject*, PyObject*)’:
layer1/P.cpp:825:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
  825 |       if (strlen(valstr) > ap->maxlen) {
      |           ~~~~~~~~~~~~~~~^~~~~~~~~~~~
layer1/P.cpp:849:18: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  849 |       if (valint == -1 && PyErr_Occurred())
      |           ~~~~~~~^~~~~
layer1/P.cpp: In function ‘int PAutoBlock(PyMOLGlobals*)’:
layer1/P.cpp:2288:27: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘long unsigned int’ [-Wsign-compare]
 2288 |     if (SavedThread[a].id == id) {
      |         ~~~~~~~~~~~~~~~~~~^~~~~
layer1/P.cpp: In function ‘int PIsGlutThread()’:
layer1/P.cpp:2314:39: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare]
 2314 |   return (PyThread_get_thread_ident() == P_glut_thread_id);
      |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
layer1/P.cpp: At global scope:
layer1/P.cpp:2422:13: warning: ‘void PLockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function]
 2422 | static void PLockAPIWhileBlocked(PyMOLGlobals * G)
      |             ^~~~~~~~~~~~~~~~~~~~
layer1/P.cpp:2411:13: warning: ‘void PUnlockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function]
 2411 | static void PUnlockAPIWhileBlocked(PyMOLGlobals * G)
      |             ^~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Parse.cpp -o build/temp.linux-x86_64-3.9/layer0/Parse.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Pixmap.cpp -o build/temp.linux-x86_64-3.9/layer0/Pixmap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer0/Tetsurf.cpp:24:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int, int}]’:
layer0/Tetsurf.cpp:802:18:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = PointType; SizeTs = {int, int, int, int}]’:
layer0/Tetsurf.cpp:831:27:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
layer1/P.cpp: In function ‘PLabelAtomAlt(PyMOLGlobals*, AtomInfoType*, char const*, char const*, int)’:
layer1/P.cpp:322:12: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation]
  322 |     strncpy(label, origexpr, OrthoLineLength);
      |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’
layer0/Tetsurf.cpp:791:16:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’
layer0/Tetsurf.cpp:822:18:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/PostProcess.cpp -o build/temp.linux-x86_64-3.9/layer0/PostProcess.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/CGO.cpp: In function ‘CGOCombineBeginEnd(CGO const*, int, bool)’:
layer1/CGO.cpp:1745:23: warning: ‘firstAlpha’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1745 |               CGOAlpha(cgo, firstAlpha);
      |               ~~~~~~~~^~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/PConv.cpp -o build/temp.linux-x86_64-3.9/layer1/PConv.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Texture.cpp -o build/temp.linux-x86_64-3.9/layer0/Texture.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Seq.cpp -o build/temp.linux-x86_64-3.9/layer1/Seq.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/PConv.cpp: In function ‘int PConvPyListToBitmask(PyObject*, int*, ov_size)’:
layer1/PConv.cpp:83:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
   83 |   for(int i = 0; i < ll; i++)
      |                  ~~^~~~
layer1/PConv.cpp: In function ‘PyObject* PConvLabPosVecToPyList(const std::vector<LabPosType>&)’:
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++) {
      |                     ~~^~~~~~~~~~~~
layer1/Seq.cpp: In function ‘int SeqFindRowCol(PyMOLGlobals*, int, int, int*, int*, int)’:
layer1/Seq.cpp:61:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
   61 |         if((char_num >= 0) && (char_num < row->ext_len) && (row->char2col)) {
      |                                ~~~~~~~~~^~~~~~~~~~~~~~
layer1/Seq.cpp: In member function ‘virtual void CSeq::reshape(int, int)’:
layer1/Seq.cpp:114:28: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  114 |       if(I->Row[a].ext_len > I->Size)
layer1/Seq.cpp: In member function ‘virtual void CSeq::draw(CGO*)’:
layer1/Seq.cpp:392:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
  392 |         if(max_len < row->ext_len)
      |            ~~~~~~~~^~~~~~~~~~~~~~
In file included from layer0/vla.h:7,
                 from layer1/Symmetry.h:26,
                 from layer1/PyMOLObject.h:27,
                 from layer1/Seq.h:21,
                 from layer1/Seq.cpp:22:
layer1/Seq.cpp: In function ‘void SeqFree(PyMOLGlobals*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CSeq’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer1/Seq.cpp:731:3: note: in expansion of macro ‘DeleteP’
  731 |   DeleteP(G->Seq);
      |   ^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Picking.cpp -o build/temp.linux-x86_64-3.9/layer1/Picking.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Seq.cpp: At global scope:
layer1/Seq.cpp:717:13: warning: ‘void SeqPurgeRowVLA(PyMOLGlobals*)’ defined but not used [-Wunused-function]
  717 | static void SeqPurgeRowVLA(PyMOLGlobals * G)
      |             ^~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Pop.cpp -o build/temp.linux-x86_64-3.9/layer1/Pop.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Tracker.cpp -o build/temp.linux-x86_64-3.9/layer0/Tracker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Setting.cpp -o build/temp.linux-x86_64-3.9/layer1/Setting.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from layer1/Pop.cpp:22:
layer1/Pop.cpp: In function ‘void PopFree(PyMOLGlobals*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CPop’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer1/Pop.cpp:54:3: note: in expansion of macro ‘DeleteP’
   54 |   DeleteP(G->Pop);
      |   ^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Triangle.cpp -o build/temp.linux-x86_64-3.9/layer0/Triangle.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/PyMOLObject.cpp -o build/temp.linux-x86_64-3.9/layer1/PyMOLObject.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Setting.cpp: In function ‘void SettingGenerateSideEffects(PyMOLGlobals*, int, const char*, int, int)’:
layer1/Setting.cpp:2070:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
 2070 |     if (SettingGetGlobal_b(G, cSetting_precomputed_lighting))
      |     ^~
layer1/Setting.cpp:2072:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
 2072 |       SceneInvalidate(G);
      |       ^~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Util.cpp -o build/temp.linux-x86_64-3.9/layer0/Util.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Ray.cpp -o build/temp.linux-x86_64-3.9/layer1/Ray.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Util2.cpp -o build/temp.linux-x86_64-3.9/layer0/Util2.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Ray.cpp: In function ‘void RayRender(CRay*, unsigned int*, double, float, int, unsigned int*)’:
layer1/Ray.cpp:6065:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6065 |       if(x_stop > width)
      |          ~~~~~~~^~~~~~~
layer1/Ray.cpp:6067:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6067 |       if(y_stop > height)
      |          ~~~~~~~^~~~~~~~
layer1/Ray.cpp:6148:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6148 |       for(y = 0; y < height; y++)
      |                  ~~^~~~~~~~
layer1/Ray.cpp:6149:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6149 |         for(x = 0; x < width; x++) {
      |                    ~~^~~~~~~
layer1/Ray.cpp:6160:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6160 |           if(x < (width - 1)) {
      |              ~~^~~~~~~~~~~~~
layer1/Ray.cpp:6171:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6171 |           if(y < (height - 1)) {
      |              ~~^~~~~~~~~~~~~~
layer1/Ray.cpp:6232:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6232 |             for(y = 0; y < height; y++)
      |                        ~~^~~~~~~~
layer1/Ray.cpp:6233:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6233 |               for(x = 0; x < width; x++) {
      |                          ~~^~~~~~~
layer1/Ray.cpp:6243:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6243 |                   if(x < (width - 1)) {
      |                      ~~^~~~~~~~~~~~~
layer1/Ray.cpp:6255:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6255 |                   if(y < (height - 1)) {
      |                      ~~^~~~~~~~~~~~~~
layer1/Ray.cpp:6306:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6306 |           for(y = 0; y < height; y++){
      |                      ~~^~~~~~~~
layer1/Ray.cpp:6326:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6326 |             for(x = 0; x < width; x++) {
      |                        ~~^~~~~~~
layer1/Ray.cpp:6345:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6345 |                   if(x < (width - 1)) {
      |                      ~~^~~~~~~~~~~~~
layer1/Ray.cpp:6359:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6359 |                   if(y < (height - 1)) {
      |                      ~~^~~~~~~~~~~~~~
layer1/Ray.cpp:6373:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6373 |                   if(x && (y < (height - 1))) {
      |                            ~~^~~~~~~~~~~~~~
layer1/Ray.cpp:6380:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6380 |                   if(y && (x < (width - 1))) {
      |                            ~~^~~~~~~~~~~~~
layer1/Ray.cpp:6387:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6387 |                   if((y < (height - 1)) && (x < (width - 1))) {
      |                       ~~^~~~~~~~~~~~~~
layer1/Ray.cpp:6387:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6387 |                   if((y < (height - 1)) && (x < (width - 1))) {
      |                                             ~~^~~~~~~~~~~~~
layer1/Ray.cpp:6543:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6543 |       for(y = 0; y < height; y++) {
      |                  ~~^~~~~~~~
layer1/Ray.cpp:6544:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
 6544 |         for(x = 0; x < width; x++) {
      |                    ~~^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Vector.cpp -o build/temp.linux-x86_64-3.9/layer0/Vector.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Word.cpp -o build/temp.linux-x86_64-3.9/layer0/Word.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/COLLADA.cpp -o build/temp.linux-x86_64-3.9/layer1/COLLADA.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/ccealignmodule.cpp -o build/temp.linux-x86_64-3.9/layer0/ccealignmodule.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Ray.cpp: In function ‘RayRenderVRML2(_CRay*, int, int, char**, float, float, float, float, float)’:
layer1/Ray.cpp:1535:20: warning: ‘%s’ directive writing up to 1023 bytes into a region of size between 0 and 914 [-Wformat-overflow=]
 1535 |                   "%s"
      |                    ^~
......
 1540 |                   vert2[2] - mid[2], axis[0], axis[1], axis[2], angle, geometry);
      |                                                                        ~~~~~~~~
layer1/Ray.cpp:1530:18: note: ‘sprintf’ output between 116 and 3302 bytes into a destination of size 1024
 1530 |           sprintf(buffer,
      |           ~~~~~~~^~~~~~~~
 1531 |                   "Transform {\n"
      |                   ~~~~~~~~~~~~~~~
 1532 |                   " translation %8.6f %8.6f %8.6f\n"
      |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1533 |                   " rotation %8.6f %8.6f %8.6f %8.6f\n"
      |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1534 |                   " children [\n"
      |                   ~~~~~~~~~~~~~~~
 1535 |                   "%s"
      |                   ~~~~
 1536 |                   " ]\n"
      |                   ~~~~~~
 1537 |                   "}\n",
      |                   ~~~~~~
 1538 |                   vert2[0] - mid[0],
      |                   ~~~~~~~~~~~~~~~~~~
 1539 |                   vert2[1] - mid[1],
      |                   ~~~~~~~~~~~~~~~~~~
 1540 |                   vert2[2] - mid[2], axis[0], axis[1], axis[2], angle, geometry);
      |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from include/tnt/tnt.h:49,
                 from layer0/ccealignmodule.cpp:39:
include/tnt/tnt_array2d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, TNT::Array2D<T>&)’:
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++)
      |     ^~~
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 include/tnt/tnt.h:50,
                 from layer0/ccealignmodule.cpp:39:
include/tnt/tnt_array3d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, TNT::Array3D<T>&)’:
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++)
      |     ^~~
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 include/tnt/tnt.h:56,
                 from layer0/ccealignmodule.cpp:39:
include/tnt/tnt_fortran_array2d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, TNT::Fortran_Array2D<T>&)’:
include/tnt/tnt_fortran_array2d_utils.h:61:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
   61 |     for (int i=1; i<=M; i++)
      |     ^~~
include/tnt/tnt_fortran_array2d_utils.h:67:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
   67 |         A = B;
      |         ^
In file included from include/tnt/tnt.h:57,
                 from layer0/ccealignmodule.cpp:39:
include/tnt/tnt_fortran_array3d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, TNT::Fortran_Array3D<T>&)’:
include/tnt/tnt_fortran_array3d_utils.h:65:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
   65 |     for (int i=1; i<=M; i++)
      |     ^~~
include/tnt/tnt_fortran_array3d_utils.h:70:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
   70 |         A = B;
      |         ^
layer1/Ray.cpp: In function ‘RayTraceThread(_CRayThreadInfo*)’:
layer1/Ray.cpp:3606:39: warning: ‘hl’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 3606 |           compute_background_for_pixel(bkrd_uc, isOutsideInY,
      |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
 3607 |               bg_image_mode, bg_image_tilesize, bg_rgb, bg_image_linear,
      |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 3608 |               (unsigned char*) T->bkrd_data, T->bgWidth, T->bgHeight,
      |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 3609 |               x, wr, hl, hpixelx, orig_opaque_back );
      |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Character.cpp -o build/temp.linux-x86_64-3.9/layer1/Character.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/marching_cubes.cpp -o build/temp.linux-x86_64-3.9/layer0/marching_cubes.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer0/marching_cubes.cpp: In function ‘mc::Mesh mc::march(const mc::Field&, float, bool)’:
layer0/marching_cubes.cpp:517:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare]
  517 |   for (int z = 0; z < zDim; ++z) {
      |                   ~~^~~~~~
layer0/marching_cubes.cpp:550:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare]
  550 |   for (int z = 0; z < zEnd; ++z) {
      |                   ~~^~~~~~
layer0/marching_cubes.cpp:603:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  603 |           if (z == zEnd - 1) {
      |               ~~^~~~~~~~~~~
layer0/marching_cubes.cpp:608:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  608 |         if (z == zEnd - 1) {
      |             ~~^~~~~~~~~~~
layer0/marching_cubes.cpp: In function ‘void mc::calculateNormals(mc::Mesh&)’:
layer0/marching_cubes.cpp:681:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  681 |   for (int i = 0; i < vertexCount; ++i) {
      |                   ~~^~~~~~~~~~~~~
layer0/marching_cubes.cpp:686:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  686 |   for (int i = 0; i < triangleCount; ++i) {
      |                   ~~^~~~~~~~~~~~~~~
layer0/marching_cubes.cpp:720:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  720 |   for (int i = 0; i < vertexCount; ++i) {
      |                   ~~^~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Rep.cpp -o build/temp.linux-x86_64-3.9/layer1/Rep.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Color.cpp -o build/temp.linux-x86_64-3.9/layer1/Color.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/os_gl.cpp -o build/temp.linux-x86_64-3.9/layer0/os_gl.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Basis.cpp -o build/temp.linux-x86_64-3.9/layer1/Basis.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Color.cpp: In function ‘ObjectGadgetRamp* ColorGetRamp(PyMOLGlobals*, int)’:
layer1/Color.cpp:180:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  180 |     if (index < I->Ext.size()) {
      |         ~~~~~~^~~~~~~~~~~~~~~
layer1/Color.cpp: In function ‘int ColorExtFromPyList(PyMOLGlobals*, PyObject*, int)’:
layer1/Color.cpp:501:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  501 |   for (int a = 0; a < n_ext; ++a) {
      |                   ~~^~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from /usr/include/glm/detail/setup.hpp:3,
                 from /usr/include/glm/detail/qualifier.hpp:3,
                 from /usr/include/glm/detail/type_vec2.hpp:6,
                 from /usr/include/glm/ext/vector_bool2.hpp:5,
                 from /usr/include/glm/vec2.hpp:5,
                 from layer0/GenericBuffer.h:12,
                 from layer0/ShaderMgr.h:24,
                 from layer1/Scene.h:29,
                 from layer3/Executive.h:35,
                 from layer1/Color.cpp:31:
layer1/Color.cpp:515:18: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  515 |     assert(a_new <= I->Ext.size());
      |            ~~~~~~^~~~~~~~~~~~~~~~
layer1/Color.cpp:518:15: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  518 |     if (a_new == I->Ext.size()) {
      |         ~~~~~~^~~~~~~~~~~~~~~~
layer1/Color.cpp: In function ‘int ColorFromPyList(PyMOLGlobals*, PyObject*, int)’:
layer1/Color.cpp:569:44: warning: comparison of integer expressions of different signedness: ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  569 |     if (partial_restore && I->Color.size() > index) {
      |                            ~~~~~~~~~~~~~~~~^~~~~~~
layer1/Color.cpp:575:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  575 |     if (index >= I->Color.size()) {
      |         ~~~~~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from /usr/include/glm/detail/setup.hpp:3,
                 from /usr/include/glm/detail/qualifier.hpp:3,
                 from /usr/include/glm/detail/type_vec2.hpp:6,
                 from /usr/include/glm/ext/vector_bool2.hpp:5,
                 from /usr/include/glm/vec2.hpp:5,
                 from layer0/GenericBuffer.h:12,
                 from layer0/ShaderMgr.h:24,
                 from layer1/Scene.h:29,
                 from layer3/Executive.h:35,
                 from layer1/Color.cpp:31:
layer1/Color.cpp:576:30: warning: comparison of integer expressions of different signedness: ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  576 |       assert(I->Color.size() == index);
      |              ~~~~~~~~~~~~~~~~^~~~~~~~
layer1/Color.cpp: In function ‘int ColorGetIndex(PyMOLGlobals*, const char*)’:
layer1/Color.cpp:683:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  683 |       if((i < I->Color.size()) && (i >= 0))
      |           ~~^~~~~~~~~~~~~~~~~
layer1/Color.cpp: In function ‘const char* ColorGetName(PyMOLGlobals*, int)’:
layer1/Color.cpp:764:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  764 |   if((index >= 0) && (index < I->Color.size())) {
      |                       ~~~~~~^~~~~~~~~~~~~~~~~
layer1/Color.cpp:776:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  776 |     if (a < I->Ext.size()) {
      |         ~~^~~~~~~~~~~~~~~
layer1/Color.cpp: In function ‘int ColorGetStatus(PyMOLGlobals*, int)’:
layer1/Color.cpp:792:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  792 |   if((index >= 0) && (index < I->Color.size())) {
      |                       ~~~~~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from /usr/include/glm/detail/setup.hpp:3,
                 from /usr/include/glm/detail/qualifier.hpp:3,
                 from /usr/include/glm/detail/type_vec2.hpp:6,
                 from /usr/include/glm/ext/vector_bool2.hpp:5,
                 from /usr/include/glm/vec2.hpp:5,
                 from layer0/GenericBuffer.h:12,
                 from layer0/ShaderMgr.h:24,
                 from layer1/Scene.h:29,
                 from layer3/Executive.h:35,
                 from layer1/Color.cpp:31:
layer1/Color.cpp: In function ‘void ColorReset(PyMOLGlobals*)’:
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1026:3: note: in expansion of macro ‘reg_named_color’
 1026 |   reg_named_color("white", 1.F, 1.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1027:3: note: in expansion of macro ‘reg_named_color’
 1027 |   reg_named_color("black", 0.F, 0.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1028:3: note: in expansion of macro ‘reg_named_color’
 1028 |   reg_named_color("blue", 0.F, 0.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1029:3: note: in expansion of macro ‘reg_named_color’
 1029 |   reg_named_color("green", 0.F, 1.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1030:3: note: in expansion of macro ‘reg_named_color’
 1030 |   reg_named_color("red", 1.F, 0.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1031:3: note: in expansion of macro ‘reg_named_color’
 1031 |   reg_named_color("cyan", 0.F, 1.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1032:3: note: in expansion of macro ‘reg_named_color’
 1032 |   reg_named_color("yellow", 1.F, 1.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1033:3: note: in expansion of macro ‘reg_named_color’
 1033 |   reg_named_color("dash", 1.F, 1.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1034:3: note: in expansion of macro ‘reg_named_color’
 1034 |   reg_named_color("magenta", 1.F, 0.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1035:3: note: in expansion of macro ‘reg_named_color’
 1035 |   reg_named_color("salmon", 1.F, 0.6F, 0.6F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1036:3: note: in expansion of macro ‘reg_named_color’
 1036 |   reg_named_color("lime", 0.5F, 1.F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1037:3: note: in expansion of macro ‘reg_named_color’
 1037 |   reg_named_color("slate", 0.5F, 0.5F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1038:3: note: in expansion of macro ‘reg_named_color’
 1038 |   reg_named_color("hotpink", 1.F, 0.F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1039:3: note: in expansion of macro ‘reg_named_color’
 1039 |   reg_named_color("orange", 1.F, 0.5F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1040:3: note: in expansion of macro ‘reg_named_color’
 1040 |   reg_named_color("chartreuse", 0.5F, 1.F, 0.F); /* AKA puke green */
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1041:3: note: in expansion of macro ‘reg_named_color’
 1041 |   reg_named_color("limegreen", 0.F, 1.F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1042:3: note: in expansion of macro ‘reg_named_color’
 1042 |   reg_named_color("purpleblue", 0.5F, 0.F, 1.F); /* legacy name */
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1043:3: note: in expansion of macro ‘reg_named_color’
 1043 |   reg_named_color("marine", 0.F, 0.5F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1044:3: note: in expansion of macro ‘reg_named_color’
 1044 |   reg_named_color("olive", 0.77F, 0.7F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1045:3: note: in expansion of macro ‘reg_named_color’
 1045 |   reg_named_color("purple", 0.75F, 0.F, 0.75F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1046:3: note: in expansion of macro ‘reg_named_color’
 1046 |   reg_named_color("teal", 0.F, 0.75F, 0.75F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1047:3: note: in expansion of macro ‘reg_named_color’
 1047 |   reg_named_color("ruby", 0.6F, 0.2F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1048:3: note: in expansion of macro ‘reg_named_color’
 1048 |   reg_named_color("forest", 0.2F, 0.6F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1049:3: note: in expansion of macro ‘reg_named_color’
 1049 |   reg_named_color("deepblue", 0.25F, 0.25F, 0.65F); /* was "deep" */
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1050:3: note: in expansion of macro ‘reg_named_color’
 1050 |   reg_named_color("grey", 0.5F, 0.5F, 0.5F); /* english spelling */
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1051:3: note: in expansion of macro ‘reg_named_color’
 1051 |   reg_named_color("gray", 0.5F, 0.5F, 0.5F); /* american spelling */
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1052:3: note: in expansion of macro ‘reg_named_color’
 1052 |   reg_named_color("carbon", 0.2F, 1.F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1053:3: note: in expansion of macro ‘reg_named_color’
 1053 |   reg_named_color("nitrogen", 0.2F, 0.2F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1054:3: note: in expansion of macro ‘reg_named_color’
 1054 |   reg_named_color("oxygen", 1.F, 0.3F, 0.3F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1055:3: note: in expansion of macro ‘reg_named_color’
 1055 |   reg_named_color("hydrogen", 0.9F, 0.9F, 0.9F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1056:3: note: in expansion of macro ‘reg_named_color’
 1056 |   reg_named_color("brightorange", 1.F, 0.7F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1057:3: note: in expansion of macro ‘reg_named_color’
 1057 |   reg_named_color("sulfur", 0.9F, 0.775F, 0.25F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1058:3: note: in expansion of macro ‘reg_named_color’
 1058 |   reg_named_color("tv_red", 1.F, 0.2F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1059:3: note: in expansion of macro ‘reg_named_color’
 1059 |   reg_named_color("tv_green", 0.2F, 1.F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1060:3: note: in expansion of macro ‘reg_named_color’
 1060 |   reg_named_color("tv_blue", 0.3F, 0.3F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1061:3: note: in expansion of macro ‘reg_named_color’
 1061 |   reg_named_color("tv_yellow", 1.F, 1.F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1062:3: note: in expansion of macro ‘reg_named_color’
 1062 |   reg_named_color("yelloworange", 1.F, 0.87F, 0.37F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1063:3: note: in expansion of macro ‘reg_named_color’
 1063 |   reg_named_color("tv_orange", 1.F, 0.55F, 0.15F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1064:3: note: in expansion of macro ‘reg_named_color’
 1064 |   reg_named_color("br0", 0.1F, 0.1F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1065:3: note: in expansion of macro ‘reg_named_color’
 1065 |   reg_named_color("br1", 0.2F, 0.1F, 0.9F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1066:3: note: in expansion of macro ‘reg_named_color’
 1066 |   reg_named_color("br2", 0.3F, 0.1F, 0.8F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1067:3: note: in expansion of macro ‘reg_named_color’
 1067 |   reg_named_color("br3", 0.4F, 0.1F, 0.7F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1068:3: note: in expansion of macro ‘reg_named_color’
 1068 |   reg_named_color("br4", 0.5F, 0.1F, 0.6F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1069:3: note: in expansion of macro ‘reg_named_color’
 1069 |   reg_named_color("br5", 0.6F, 0.1F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1070:3: note: in expansion of macro ‘reg_named_color’
 1070 |   reg_named_color("br6", 0.7F, 0.1F, 0.4F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1071:3: note: in expansion of macro ‘reg_named_color’
 1071 |   reg_named_color("br7", 0.8F, 0.1F, 0.3F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1072:3: note: in expansion of macro ‘reg_named_color’
 1072 |   reg_named_color("br8", 0.9F, 0.1F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1073:3: note: in expansion of macro ‘reg_named_color’
 1073 |   reg_named_color("br9", 1.F, 0.1F, 0.1F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1074:3: note: in expansion of macro ‘reg_named_color’
 1074 |   reg_named_color("pink", 1.F, 0.65F, 0.85F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1075:3: note: in expansion of macro ‘reg_named_color’
 1075 |   reg_named_color("firebrick", 0.698F, 0.13F, 0.13F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1076:3: note: in expansion of macro ‘reg_named_color’
 1076 |   reg_named_color("chocolate", 0.555F, 0.222F, 0.111F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1077:3: note: in expansion of macro ‘reg_named_color’
 1077 |   reg_named_color("brown", 0.65F, 0.32F, 0.17F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1078:3: note: in expansion of macro ‘reg_named_color’
 1078 |   reg_named_color("wheat", 0.99F, 0.82F, 0.65F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1079:3: note: in expansion of macro ‘reg_named_color’
 1079 |   reg_named_color("violet", 1.F, 0.5F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1088:5: note: in expansion of macro ‘reg_named_color’
 1088 |     reg_named_color(name, a / 99.F, a / 99.F, a / 99.F);
      |     ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1091:3: note: in expansion of macro ‘reg_named_color’
 1091 |   reg_named_color("lightmagenta", 1.F, 0.2F, 0.8F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1105:5: note: in expansion of macro ‘reg_named_color’
 1105 |     reg_named_color(name,
      |     ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1121:5: note: in expansion of macro ‘reg_named_color’
 1121 |     reg_named_color(name,
      |     ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1137:5: note: in expansion of macro ‘reg_named_color’
 1137 |     reg_named_color(name,
      |     ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1155:5: note: in expansion of macro ‘reg_named_color’
 1155 |     reg_named_color(name,
      |     ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1161:3: note: in expansion of macro ‘reg_named_color’
 1161 |   reg_named_color("density", 0.1F, 0.1F, 0.6F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1168:5: note: in expansion of macro ‘reg_named_color’
 1168 |     reg_named_color(name, a / 99.F, a / 99.F, a / 99.F);
      |     ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1183:5: note: in expansion of macro ‘reg_named_color’
 1183 |     reg_named_color(name,
      |     ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1189:3: note: in expansion of macro ‘reg_named_color’
 1189 |   reg_named_color("paleyellow", 1.F, 1.F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1190:3: note: in expansion of macro ‘reg_named_color’
 1190 |   reg_named_color("aquamarine", 0.5F, 1.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1191:3: note: in expansion of macro ‘reg_named_color’
 1191 |   reg_named_color("deepsalmon", 1.F, 0.5F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1192:3: note: in expansion of macro ‘reg_named_color’
 1192 |   reg_named_color("palegreen", 0.65F, 0.9F, 0.65F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1193:3: note: in expansion of macro ‘reg_named_color’
 1193 |   reg_named_color("deepolive", 0.6F, 0.6F, 0.1F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1194:3: note: in expansion of macro ‘reg_named_color’
 1194 |   reg_named_color("deeppurple", 0.6F, 0.1F, 0.6F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1195:3: note: in expansion of macro ‘reg_named_color’
 1195 |   reg_named_color("deepteal", 0.1F, 0.6F, 0.6F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1196:3: note: in expansion of macro ‘reg_named_color’
 1196 |   reg_named_color("lightblue", 0.75F, 0.75F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1197:3: note: in expansion of macro ‘reg_named_color’
 1197 |   reg_named_color("lightorange", 1.F, 0.8F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1198:3: note: in expansion of macro ‘reg_named_color’
 1198 |   reg_named_color("palecyan", 0.8F, 1.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1199:3: note: in expansion of macro ‘reg_named_color’
 1199 |   reg_named_color("lightteal", 0.4F, 0.7F, 0.7F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1200:3: note: in expansion of macro ‘reg_named_color’
 1200 |   reg_named_color("splitpea", 0.52F, 0.75F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1201:3: note: in expansion of macro ‘reg_named_color’
 1201 |   reg_named_color("raspberry", 0.7F, 0.3F, 0.4F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1202:3: note: in expansion of macro ‘reg_named_color’
 1202 |   reg_named_color("sand", 0.72F, 0.55F, 0.3F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1203:3: note: in expansion of macro ‘reg_named_color’
 1203 |   reg_named_color("smudge", 0.55F, 0.7F, 0.4F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1204:3: note: in expansion of macro ‘reg_named_color’
 1204 |   reg_named_color("violetpurple", 0.55F, 0.25F, 0.6F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1205:3: note: in expansion of macro ‘reg_named_color’
 1205 |   reg_named_color("dirtyviolet", 0.7F, 0.5F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1208:3: note: in expansion of macro ‘reg_named_color’
 1208 |   reg_named_color("_deepsalmon", 1.F, 0.42F, 0.42F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1210:3: note: in expansion of macro ‘reg_named_color’
 1210 |   reg_named_color("lightpink", 1.F, 0.75F, 0.87F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1211:3: note: in expansion of macro ‘reg_named_color’
 1211 |   reg_named_color("greencyan", 0.25F, 1.F, 0.75F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1212:3: note: in expansion of macro ‘reg_named_color’
 1212 |   reg_named_color("limon", 0.75F, 1.F, 0.25F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1213:3: note: in expansion of macro ‘reg_named_color’
 1213 |   reg_named_color("skyblue", 0.2F, 0.5F, 0.8F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1214:3: note: in expansion of macro ‘reg_named_color’
 1214 |   reg_named_color("bluewhite", 0.85F, 0.85F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1215:3: note: in expansion of macro ‘reg_named_color’
 1215 |   reg_named_color("warmpink", 0.85F, 0.2F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1216:3: note: in expansion of macro ‘reg_named_color’
 1216 |   reg_named_color("darksalmon", 0.73F, 0.55F, 0.52F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1217:3: note: in expansion of macro ‘reg_named_color’
 1217 |   reg_named_color("helium", 0.850980392F, 1.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1218:3: note: in expansion of macro ‘reg_named_color’
 1218 |   reg_named_color("lithium", 0.8F, 0.501960784F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1219:3: note: in expansion of macro ‘reg_named_color’
 1219 |   reg_named_color("beryllium", 0.760784314F, 1.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1220:3: note: in expansion of macro ‘reg_named_color’
 1220 |   reg_named_color("boron", 1.F, 0.709803922F, 0.709803922F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1221:3: note: in expansion of macro ‘reg_named_color’
 1221 |   reg_named_color("fluorine", 0.701960784F, 1.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1222:3: note: in expansion of macro ‘reg_named_color’
 1222 |   reg_named_color("neon", 0.701960784F, 0.890196078F, 0.960784314F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1223:3: note: in expansion of macro ‘reg_named_color’
 1223 |   reg_named_color("sodium", 0.670588235F, 0.360784314F, 0.949019608F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1224:3: note: in expansion of macro ‘reg_named_color’
 1224 |   reg_named_color("magnesium", 0.541176471F, 1.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1225:3: note: in expansion of macro ‘reg_named_color’
 1225 |   reg_named_color("aluminum", 0.749019608F, 0.650980392F, 0.650980392F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1226:3: note: in expansion of macro ‘reg_named_color’
 1226 |   reg_named_color("silicon", 0.941176471F, 0.784313725F, 0.62745098F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1227:3: note: in expansion of macro ‘reg_named_color’
 1227 |   reg_named_color("phosphorus", 1.F, 0.501960784F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1228:3: note: in expansion of macro ‘reg_named_color’
 1228 |   reg_named_color("chlorine", 0.121568627F, 0.941176471F, 0.121568627F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1229:3: note: in expansion of macro ‘reg_named_color’
 1229 |   reg_named_color("argon", 0.501960784F, 0.819607843F, 0.890196078F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1230:3: note: in expansion of macro ‘reg_named_color’
 1230 |   reg_named_color("potassium", 0.560784314F, 0.250980392F, 0.831372549F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1231:3: note: in expansion of macro ‘reg_named_color’
 1231 |   reg_named_color("calcium", 0.239215686F, 1.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1232:3: note: in expansion of macro ‘reg_named_color’
 1232 |   reg_named_color("scandium", 0.901960784F, 0.901960784F, 0.901960784F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1233:3: note: in expansion of macro ‘reg_named_color’
 1233 |   reg_named_color("titanium", 0.749019608F, 0.760784314F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1234:3: note: in expansion of macro ‘reg_named_color’
 1234 |   reg_named_color("vanadium", 0.650980392F, 0.650980392F, 0.670588235F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1235:3: note: in expansion of macro ‘reg_named_color’
 1235 |   reg_named_color("chromium", 0.541176471F, 0.6F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1236:3: note: in expansion of macro ‘reg_named_color’
 1236 |   reg_named_color("manganese", 0.611764706F, 0.478431373F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1237:3: note: in expansion of macro ‘reg_named_color’
 1237 |   reg_named_color("iron", 0.878431373F, 0.4F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1238:3: note: in expansion of macro ‘reg_named_color’
 1238 |   reg_named_color("cobalt", 0.941176471F, 0.564705882F, 0.62745098F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1239:3: note: in expansion of macro ‘reg_named_color’
 1239 |   reg_named_color("nickel", 0.31372549F, 0.815686275F, 0.31372549F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1240:3: note: in expansion of macro ‘reg_named_color’
 1240 |   reg_named_color("copper", 0.784313725F, 0.501960784F, 0.2F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1241:3: note: in expansion of macro ‘reg_named_color’
 1241 |   reg_named_color("zinc", 0.490196078F, 0.501960784F, 0.690196078F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1242:3: note: in expansion of macro ‘reg_named_color’
 1242 |   reg_named_color("gallium", 0.760784314F, 0.560784314F, 0.560784314F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1243:3: note: in expansion of macro ‘reg_named_color’
 1243 |   reg_named_color("germanium", 0.4F, 0.560784314F, 0.560784314F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1244:3: note: in expansion of macro ‘reg_named_color’
 1244 |   reg_named_color("arsenic", 0.741176471F, 0.501960784F, 0.890196078F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1245:3: note: in expansion of macro ‘reg_named_color’
 1245 |   reg_named_color("selenium", 1.F, 0.631372549F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1246:3: note: in expansion of macro ‘reg_named_color’
 1246 |   reg_named_color("bromine", 0.650980392F, 0.160784314F, 0.160784314F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1247:3: note: in expansion of macro ‘reg_named_color’
 1247 |   reg_named_color("krypton", 0.360784314F, 0.721568627F, 0.819607843F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1248:3: note: in expansion of macro ‘reg_named_color’
 1248 |   reg_named_color("rubidium", 0.439215686F, 0.180392157F, 0.690196078F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1249:3: note: in expansion of macro ‘reg_named_color’
 1249 |   reg_named_color("strontium", 0.F, 1.F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1250:3: note: in expansion of macro ‘reg_named_color’
 1250 |   reg_named_color("yttrium", 0.580392157F, 1.F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1251:3: note: in expansion of macro ‘reg_named_color’
 1251 |   reg_named_color("zirconium", 0.580392157F, 0.878431373F, 0.878431373F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1252:3: note: in expansion of macro ‘reg_named_color’
 1252 |   reg_named_color("niobium", 0.450980392F, 0.760784314F, 0.788235294F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1253:3: note: in expansion of macro ‘reg_named_color’
 1253 |   reg_named_color("molybdenum", 0.329411765F, 0.709803922F, 0.709803922F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1254:3: note: in expansion of macro ‘reg_named_color’
 1254 |   reg_named_color("technetium", 0.231372549F, 0.619607843F, 0.619607843F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1255:3: note: in expansion of macro ‘reg_named_color’
 1255 |   reg_named_color("ruthenium", 0.141176471F, 0.560784314F, 0.560784314F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1256:3: note: in expansion of macro ‘reg_named_color’
 1256 |   reg_named_color("rhodium", 0.039215686F, 0.490196078F, 0.549019608F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1257:3: note: in expansion of macro ‘reg_named_color’
 1257 |   reg_named_color("palladium", 0.F, 0.411764706F, 0.521568627F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1258:3: note: in expansion of macro ‘reg_named_color’
 1258 |   reg_named_color("silver", 0.752941176F, 0.752941176F, 0.752941176F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1259:3: note: in expansion of macro ‘reg_named_color’
 1259 |   reg_named_color("cadmium", 1.F, 0.850980392F, 0.560784314F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1260:3: note: in expansion of macro ‘reg_named_color’
 1260 |   reg_named_color("indium", 0.650980392F, 0.458823529F, 0.450980392F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1261:3: note: in expansion of macro ‘reg_named_color’
 1261 |   reg_named_color("tin", 0.4F, 0.501960784F, 0.501960784F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1262:3: note: in expansion of macro ‘reg_named_color’
 1262 |   reg_named_color("antimony", 0.619607843F, 0.388235294F, 0.709803922F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1263:3: note: in expansion of macro ‘reg_named_color’
 1263 |   reg_named_color("tellurium", 0.831372549F, 0.478431373F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1264:3: note: in expansion of macro ‘reg_named_color’
 1264 |   reg_named_color("iodine", 0.580392157F, 0.F, 0.580392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1265:3: note: in expansion of macro ‘reg_named_color’
 1265 |   reg_named_color("xenon", 0.258823529F, 0.619607843F, 0.690196078F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1266:3: note: in expansion of macro ‘reg_named_color’
 1266 |   reg_named_color("cesium", 0.341176471F, 0.090196078F, 0.560784314F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1267:3: note: in expansion of macro ‘reg_named_color’
 1267 |   reg_named_color("barium", 0.F, 0.788235294F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1268:3: note: in expansion of macro ‘reg_named_color’
 1268 |   reg_named_color("lanthanum", 0.439215686F, 0.831372549F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1269:3: note: in expansion of macro ‘reg_named_color’
 1269 |   reg_named_color("cerium", 1.F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1270:3: note: in expansion of macro ‘reg_named_color’
 1270 |   reg_named_color("praseodymium", 0.850980392F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1271:3: note: in expansion of macro ‘reg_named_color’
 1271 |   reg_named_color("neodymium", 0.780392157F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1272:3: note: in expansion of macro ‘reg_named_color’
 1272 |   reg_named_color("promethium", 0.639215686F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1273:3: note: in expansion of macro ‘reg_named_color’
 1273 |   reg_named_color("samarium", 0.560784314F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1274:3: note: in expansion of macro ‘reg_named_color’
 1274 |   reg_named_color("europium", 0.380392157F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1275:3: note: in expansion of macro ‘reg_named_color’
 1275 |   reg_named_color("gadolinium", 0.270588235F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1276:3: note: in expansion of macro ‘reg_named_color’
 1276 |   reg_named_color("terbium", 0.188235294F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1277:3: note: in expansion of macro ‘reg_named_color’
 1277 |   reg_named_color("dysprosium", 0.121568627F, 1.F, 0.780392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1278:3: note: in expansion of macro ‘reg_named_color’
 1278 |   reg_named_color("holmium", 0.F, 1.F, 0.611764706F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1279:3: note: in expansion of macro ‘reg_named_color’
 1279 |   reg_named_color("erbium", 0.F, 0.901960784F, 0.458823529F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1280:3: note: in expansion of macro ‘reg_named_color’
 1280 |   reg_named_color("thulium", 0.F, 0.831372549F, 0.321568627F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1281:3: note: in expansion of macro ‘reg_named_color’
 1281 |   reg_named_color("ytterbium", 0.F, 0.749019608F, 0.219607843F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1282:3: note: in expansion of macro ‘reg_named_color’
 1282 |   reg_named_color("lutetium", 0.F, 0.670588235F, 0.141176471F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1283:3: note: in expansion of macro ‘reg_named_color’
 1283 |   reg_named_color("hafnium", 0.301960784F, 0.760784314F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1284:3: note: in expansion of macro ‘reg_named_color’
 1284 |   reg_named_color("tantalum", 0.301960784F, 0.650980392F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1285:3: note: in expansion of macro ‘reg_named_color’
 1285 |   reg_named_color("tungsten", 0.129411765F, 0.580392157F, 0.839215686F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1286:3: note: in expansion of macro ‘reg_named_color’
 1286 |   reg_named_color("rhenium", 0.149019608F, 0.490196078F, 0.670588235F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1287:3: note: in expansion of macro ‘reg_named_color’
 1287 |   reg_named_color("osmium", 0.149019608F, 0.4F, 0.588235294F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1288:3: note: in expansion of macro ‘reg_named_color’
 1288 |   reg_named_color("iridium", 0.090196078F, 0.329411765F, 0.529411765F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1289:3: note: in expansion of macro ‘reg_named_color’
 1289 |   reg_named_color("platinum", 0.815686275F, 0.815686275F, 0.878431373F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1290:3: note: in expansion of macro ‘reg_named_color’
 1290 |   reg_named_color("gold", 1.F, 0.819607843F, 0.137254902F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1291:3: note: in expansion of macro ‘reg_named_color’
 1291 |   reg_named_color("mercury", 0.721568627F, 0.721568627F, 0.815686275F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1292:3: note: in expansion of macro ‘reg_named_color’
 1292 |   reg_named_color("thallium", 0.650980392F, 0.329411765F, 0.301960784F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1293:3: note: in expansion of macro ‘reg_named_color’
 1293 |   reg_named_color("lead", 0.341176471F, 0.349019608F, 0.380392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1294:3: note: in expansion of macro ‘reg_named_color’
 1294 |   reg_named_color("bismuth", 0.619607843F, 0.309803922F, 0.709803922F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1295:3: note: in expansion of macro ‘reg_named_color’
 1295 |   reg_named_color("polonium", 0.670588235F, 0.360784314F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1296:3: note: in expansion of macro ‘reg_named_color’
 1296 |   reg_named_color("astatine", 0.458823529F, 0.309803922F, 0.270588235F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1297:3: note: in expansion of macro ‘reg_named_color’
 1297 |   reg_named_color("radon", 0.258823529F, 0.509803922F, 0.588235294F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1298:3: note: in expansion of macro ‘reg_named_color’
 1298 |   reg_named_color("francium", 0.258823529F, 0.F, 0.4F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1299:3: note: in expansion of macro ‘reg_named_color’
 1299 |   reg_named_color("radium", 0.F, 0.490196078F, 0.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1300:3: note: in expansion of macro ‘reg_named_color’
 1300 |   reg_named_color("actinium", 0.439215686F, 0.670588235F, 0.980392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1301:3: note: in expansion of macro ‘reg_named_color’
 1301 |   reg_named_color("thorium", 0.F, 0.729411765F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1302:3: note: in expansion of macro ‘reg_named_color’
 1302 |   reg_named_color("protactinium", 0.F, 0.631372549F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1303:3: note: in expansion of macro ‘reg_named_color’
 1303 |   reg_named_color("uranium", 0.F, 0.560784314F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1304:3: note: in expansion of macro ‘reg_named_color’
 1304 |   reg_named_color("neptunium", 0.F, 0.501960784F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1305:3: note: in expansion of macro ‘reg_named_color’
 1305 |   reg_named_color("plutonium", 0.F, 0.419607843F, 1.F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1306:3: note: in expansion of macro ‘reg_named_color’
 1306 |   reg_named_color("americium", 0.329411765F, 0.360784314F, 0.949019608F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1307:3: note: in expansion of macro ‘reg_named_color’
 1307 |   reg_named_color("curium", 0.470588235F, 0.360784314F, 0.890196078F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1308:3: note: in expansion of macro ‘reg_named_color’
 1308 |   reg_named_color("berkelium", 0.541176471F, 0.309803922F, 0.890196078F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1309:3: note: in expansion of macro ‘reg_named_color’
 1309 |   reg_named_color("californium", 0.631372549F, 0.211764706F, 0.831372549F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1310:3: note: in expansion of macro ‘reg_named_color’
 1310 |   reg_named_color("einsteinium", 0.701960784F, 0.121568627F, 0.831372549F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1311:3: note: in expansion of macro ‘reg_named_color’
 1311 |   reg_named_color("fermium", 0.701960784F, 0.121568627F, 0.729411765F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1312:3: note: in expansion of macro ‘reg_named_color’
 1312 |   reg_named_color("mendelevium", 0.701960784F, 0.050980392F, 0.650980392F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1313:3: note: in expansion of macro ‘reg_named_color’
 1313 |   reg_named_color("nobelium", 0.741176471F, 0.050980392F, 0.529411765F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1314:3: note: in expansion of macro ‘reg_named_color’
 1314 |   reg_named_color("lawrencium", 0.780392157F, 0.F, 0.4F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1315:3: note: in expansion of macro ‘reg_named_color’
 1315 |   reg_named_color("rutherfordium", 0.8F, 0.F, 0.349019608F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1316:3: note: in expansion of macro ‘reg_named_color’
 1316 |   reg_named_color("dubnium", 0.819607843F, 0.F, 0.309803922F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1317:3: note: in expansion of macro ‘reg_named_color’
 1317 |   reg_named_color("seaborgium", 0.850980392F, 0.F, 0.270588235F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1318:3: note: in expansion of macro ‘reg_named_color’
 1318 |   reg_named_color("bohrium", 0.878431373F, 0.F, 0.219607843F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1319:3: note: in expansion of macro ‘reg_named_color’
 1319 |   reg_named_color("hassium", 0.901960784F, 0.F, 0.180392157F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1320:3: note: in expansion of macro ‘reg_named_color’
 1320 |   reg_named_color("meitnerium", 0.921568627F, 0.F, 0.149019608F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1321:3: note: in expansion of macro ‘reg_named_color’
 1321 |   reg_named_color("deuterium", 0.9F, 0.9F, 0.9F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1322:3: note: in expansion of macro ‘reg_named_color’
 1322 |   reg_named_color("lonepair", 0.5F, 0.5F, 0.5F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map<std::__cxx11::basic_string<char>, int>::mapped_type’ {aka ‘int’} and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1023 |     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1323:3: note: in expansion of macro ‘reg_named_color’
 1323 |   reg_named_color("pseudoatom", 0.9F, 0.9F, 0.9F);
      |   ^~~~~~~~~~~~~~~
layer1/Color.cpp: In function ‘void ColorUpdateFromLut(PyMOLGlobals*, int)’:
layer1/Color.cpp:1695:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1695 |   for(i = 0; i < I->Color.size(); i++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer1/Color.cpp:1699:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1699 |     if(index < I->Color.size()) {
      |        ~~~~~~^~~~~~~~~~~~~~~~~
layer1/Color.cpp: In function ‘const float* ColorGet(PyMOLGlobals*, int)’:
layer1/Color.cpp:1808:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1808 |   if((index >= 0) && (index < I->Color.size())) {
      |                       ~~~~~~^~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Scene.cpp -o build/temp.linux-x86_64-3.9/layer1/Scene.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Color.cpp: In function ‘const float* ColorGetRaw(PyMOLGlobals*, int)’:
layer1/Color.cpp:1835:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1835 |   if((index >= 0) && (index < I->Color.size())) {
      |                       ~~~~~~^~~~~~~~~~~~~~~~~
layer1/Color.cpp: In function ‘int ColorGetEncoded(PyMOLGlobals*, int, float*)’:
layer1/Color.cpp:1853:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1853 |   if((index >= 0) && (index < I->Color.size())) {
      |                       ~~~~~~^~~~~~~~~~~~~~~~~
layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitiveName(PyMOLGlobals*, const Sequence&, const char*) [with Sequence = std::vector<ExtRec>]’:
layer1/Color.cpp:304:35:   required from here
layer1/Color.cpp:245:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  245 |   for (int a = 0; a < seq.size(); ++a) {
      |                   ~~^~~~~~~~~~~~
layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitiveName(PyMOLGlobals*, const Sequence&, const char*) [with Sequence = std::vector<ColorRec>]’:
layer1/Color.cpp:626:38:   required from here
layer1/Color.cpp:245:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitivePrefix(PyMOLGlobals*, const Sequence&, const char*, int&) [with Sequence = std::vector<ColorRec>]’:
layer1/Color.cpp:741:42:   required from here
layer1/Color.cpp:275:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  275 |   for (int a = 0; a < seq.size(); ++a) {
      |                   ~~^~~~~~~~~~~~
layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitivePrefix(PyMOLGlobals*, const Sequence&, const char*, int&) [with Sequence = std::vector<ExtRec>]’:
layer1/Color.cpp:743:54:   required from here
layer1/Color.cpp:275:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Shaker.cpp -o build/temp.linux-x86_64-3.9/layer1/Shaker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Scene.cpp: In function ‘int SceneViewEqual(float*, float*)’:
layer1/Scene.cpp:127:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare]
  127 |   for(i = 0; i < cSceneViewSize; i++) {
      |              ~~^~~~~~~~~~~~~~~~
layer1/Scene.cpp: In function ‘void SceneFree(PyMOLGlobals*)’:
layer1/Scene.cpp:4071:3: warning: deleting object of polymorphic class type ‘CScene’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
 4071 |   delete G->Scene;
      |   ^~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/CifFile.cpp -o build/temp.linux-x86_64-3.9/layer2/CifFile.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SymOp.cpp -o build/temp.linux-x86_64-3.9/layer1/SymOp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/SymOp.cpp: In member function ‘pymol::SymOp::to_string[abi:cxx11]() const’:
layer1/SymOp.cpp:37:32: warning: ‘%d’ directive output may be truncated writing between 1 and 4 bytes into a region of size between 0 and 5 [-Wformat-truncation=]
   37 |   std::snprintf(code, 8, "%u_%d%d%d", index + 1, x + 5, y + 5, z + 5);
      |                                ^~
layer1/SymOp.cpp:37:26: note: directive argument in the range [-123, 132]
   37 |   std::snprintf(code, 8, "%u_%d%d%d", index + 1, x + 5, y + 5, z + 5);
      |                          ^~~~~~~~~~~
layer1/SymOp.cpp:37:26: note: directive argument in the range [-123, 132]
In file included from /usr/include/stdio.h:900,
                 from /usr/include/c++/11/cstdio:42,
                 from /usr/include/c++/11/ext/string_conversions.h:43,
                 from /usr/include/c++/11/bits/basic_string.h:6608,
                 from /usr/include/c++/11/string:55,
                 from layer1/SymOp.h:9,
                 from layer1/SymOp.cpp:7:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 6 and 17 bytes into a destination of size 8
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SymOpPConv.cpp -o build/temp.linux-x86_64-3.9/layer1/SymOpPConv.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SymOpTools.cpp -o build/temp.linux-x86_64-3.9/layer1/SymOpTools.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/CifMoleculeReader.cpp -o build/temp.linux-x86_64-3.9/layer2/CifMoleculeReader.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Symmetry.cpp -o build/temp.linux-x86_64-3.9/layer1/Symmetry.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/CifMoleculeReader.cpp: In member function ‘void seqvec_t::set(int, const char*)’:
layer2/CifMoleculeReader.cpp:108:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  108 |     if (i > size())
      |         ~~^~~~~~~~
layer2/CifMoleculeReader.cpp: In member function ‘const char* seqvec_t::get(int) const’:
layer2/CifMoleculeReader.cpp:114:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  114 |     if (i < 1 || i > size())
      |                  ~~^~~~~~~~
layer2/CifMoleculeReader.cpp: In function ‘CoordSet** read_pdbx_struct_assembly(PyMOLGlobals*, const pymol::cif_data*, const AtomInfoType*, const CoordSet*, const char*)’:
layer2/CifMoleculeReader.cpp:827:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  827 |       while (j < c_src_len * c_it->size()) {
      |              ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Text.cpp -o build/temp.linux-x86_64-3.9/layer1/Text.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SceneMouse.cpp -o build/temp.linux-x86_64-3.9/layer1/SceneMouse.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/SceneMouse.cpp: In function ‘void SceneClickPickBond(PyMOLGlobals*, int, int, int, const NamedPicking&)’:
layer1/SceneMouse.cpp:513:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare]
  513 |     if (atIndex == LastPicked.src.index)
      |         ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Control.cpp -o build/temp.linux-x86_64-3.9/layer1/Control.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/SceneMouse.cpp: In function ‘SceneClickTransformObject(PyMOLGlobals*, pymol::CObject*, NamedPicking const&, int, bool)’:
layer1/SceneMouse.cpp:455:32: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 237 [-Wformat-truncation=]
  455 |           " You clicked %s -> (%s)\n", buffer.c_str(), name ENDFB(G);
      |                                ^~                      ~~~~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/c++/11/cstdio:42,
                 from /usr/include/c++/11/ext/string_conversions.h:43,
                 from /usr/include/c++/11/bits/basic_string.h:6608,
                 from /usr/include/c++/11/string:55,
                 from /usr/include/c++/11/bits/locale_classes.h:40,
                 from /usr/include/c++/11/bits/ios_base.h:41,
                 from /usr/include/c++/11/ios:42,
                 from /usr/include/c++/11/ostream:38,
                 from include/pymol/zstring_view.h:12,
                 from layer1/SceneMouse.h:4,
                 from layer1/SceneMouse.cpp:1:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output 21 or more bytes (assuming 276) into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
In file included from layer0/vla.h:7,
                 from layer1/Symmetry.h:26,
                 from layer1/PyMOLObject.h:27,
                 from layer1/Scene.h:22,
                 from layer1/Control.cpp:25:
layer1/Control.cpp: In function ‘void ControlFree(PyMOLGlobals*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CControl’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer1/Control.cpp:410:3: note: in expansion of macro ‘DeleteP’
  410 |   DeleteP(G->Control);
      |   ^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/ScenePicking.cpp -o build/temp.linux-x86_64-3.9/layer1/ScenePicking.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Extrude.cpp -o build/temp.linux-x86_64-3.9/layer1/Extrude.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/ScenePicking.cpp: In function ‘SceneRenderPicking(PyMOLGlobals*, int, int*, int, Picking*, int, int, Multipick*, SceneUnitContext*, unsigned int)’:
layer1/ScenePicking.cpp:249:7: warning: ‘previous.src.index’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  249 |       if (pik->src.index != previous.src.index ||
      |       ^~
layer1/ScenePicking.cpp:238:11: note: ‘previous.src.index’ was declared here
  238 |   Picking previous;
      |           ^~~~~~~~
In file included from /usr/include/string.h:535,
                 from layer0/os_std.h:25,
                 from layer2/CifMoleculeReader.cpp:16:
In function ‘strncpy’,
    inlined from ‘bond_dict_t::make_key(char const*)’ at layer2/CifBondDict.h:93:12,
    inlined from ‘bond_dict_t::get(PyMOLGlobals*, char const*, bool)’ at layer2/CifMoleculeReader.cpp:2320:22:
/usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   95 |   return __builtin___strncpy_chk (__dest, __src, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
   96 |                                   __glibc_objsize (__dest));
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SceneRay.cpp -o build/temp.linux-x86_64-3.9/layer1/SceneRay.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Extrude.cpp: In function ‘ExtrudeComputeTangents(CExtrude*)’:
layer1/Extrude.cpp:741:13: warning: ‘*_64’ may be used uninitialized [-Wmaybe-uninitialized]
  741 |   *(v1++) = *(v++);             /* first segment */
      |             ^~~~~~
layer1/Extrude.cpp:742:13: warning: ‘MEM[(float *)_64 + 4B]’ may be used uninitialized [-Wmaybe-uninitialized]
  742 |   *(v1++) = *(v++);
      |             ^~~~~~
layer1/Extrude.cpp:743:13: warning: ‘MEM[(float *)_64 + 8B]’ may be used uninitialized [-Wmaybe-uninitialized]
  743 |   *(v1++) = *(v++);
      |             ^~~~~~
layer1/Extrude.cpp: In function ‘ExtrudeCGOSurfaceTube(CExtrude const*, CGO*, cCylCap, float const*, bool, int)’:
layer1/Extrude.cpp:948:46: warning: ‘stop’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  948 |             if(color_override && (b > start) && (b < stop))
      |                ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
layer1/Extrude.cpp:948:37: warning: ‘start’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  948 |             if(color_override && (b > start) && (b < stop))
      |                                  ~~~^~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Font.cpp -o build/temp.linux-x86_64-3.9/layer1/Font.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUT.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUT.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/CoordSet.cpp -o build/temp.linux-x86_64-3.9/layer2/CoordSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SceneRender.cpp -o build/temp.linux-x86_64-3.9/layer1/SceneRender.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer3/Executive.h:27,
                 from layer2/CoordSet.cpp:54:
layer2/CoordSet.cpp: In member function ‘int CoordSet::atmToIdx(int) const’:
layer2/CoordSet.cpp:134:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  134 |   assert(atm < AtmToIdx.size());
      |          ~~~~^~~~~~~~~~~~~~~~~
layer2/CoordSet.cpp: In member function ‘void CoordSet::updateNonDiscreteAtmToIdx(unsigned int)’:
layer2/CoordSet.cpp:140:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  140 |   assert(!Obj || natom == Obj->NAtom);
      |                  ~~~~~~^~~~~~~~~~~~~
layer2/CoordSet.cpp:145:16: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘unsigned int’ [-Wsign-compare]
  145 |     assert(atm < natom);
      |            ~~~~^~~~~~~
layer2/CoordSet.cpp: In member function ‘int CoordSet::extendIndices(int)’:
layer2/CoordSet.cpp:1572:21: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare]
 1572 |     assert(NAtIndex <= nAtom);
      |            ~~~~~~~~~^~~~~~~~
layer2/CoordSet.cpp:1573:18: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare]
 1573 |     if (NAtIndex < nAtom) {
      |         ~~~~~~~~~^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUT8x13.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUT8x13.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/CoordSet.cpp: In function ‘void CoordSetAtomToPDBStrVLA(PyMOLGlobals*, char**, int*, const AtomInfoType*, const float*, int, const PDBInfoRec*, const double*)’:
layer2/CoordSet.cpp:1014:14: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying 6 bytes from a string of the same length [-Wstringop-truncation]
 1014 |       strncpy(anisoline, "ANISOU", 6);
      |       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUT9x15.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUT9x15.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUTHel10.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel10.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUTHel12.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel12.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUTHel18.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel18.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontType.cpp -o build/temp.linux-x86_64-3.9/layer1/FontType.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/ScrollBar.cpp -o build/temp.linux-x86_64-3.9/layer1/ScrollBar.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/DistSet.cpp -o build/temp.linux-x86_64-3.9/layer2/DistSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectGadgetRamp.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectGadgetRamp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepDistLabel.cpp -o build/temp.linux-x86_64-3.9/layer2/RepDistLabel.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/DistSet.cpp: In function ‘int DistSetGetLabelVertex(DistSet*, int, float*)’:
layer2/DistSet.cpp:43:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::array<float, 3> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   43 |   if (at >= 0 && at < I->LabCoord.size()) {
      |                  ~~~^~~~~~~~~~~~~~~~~~~~
layer2/DistSet.cpp: In member function ‘pymol::Result<std::array<float, 3> > DistSet::getLabelOffset(int) const’:
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()) {
      |                  ~~~~^~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/GadgetSet.cpp -o build/temp.linux-x86_64-3.9/layer2/GadgetSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectGroup.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectGroup.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepDot.cpp -o build/temp.linux-x86_64-3.9/layer2/RepDot.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/HydrogenAdder.cpp -o build/temp.linux-x86_64-3.9/layer2/HydrogenAdder.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMap.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/TypeFace.cpp -o build/temp.linux-x86_64-3.9/layer1/TypeFace.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/View.cpp -o build/temp.linux-x86_64-3.9/layer1/View.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/HydrogenAdder.cpp: In function ‘int ObjectMoleculeAddSeleHydrogensRefactored(ObjectMolecule*, int, int)’:
layer2/HydrogenAdder.cpp:283:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  283 |   for (unsigned atm = 0; atm < n_atom_old; atm++) {
      |                          ~~~~^~~~~~~~~~~~
layer2/HydrogenAdder.cpp:301:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  301 |   for (unsigned atm = 0; atm < n_atom_old; ++atm) {
      |                          ~~~~^~~~~~~~~~~~
layer2/HydrogenAdder.cpp:349:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  349 |     for (unsigned idx = 0; idx < cs->NIndex; ++idx) {
      |                            ~~~~^~~~~~~~~~~~
layer2/RepDot.cpp: In function ‘RepDotDoNew(CoordSet*, cRepDot_t, int)’:
layer2/RepDot.cpp:463:46: warning: ‘vn’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  463 |     I->VN = ReallocForSure(I->VN, float, (vn - I->VN));
      |                                              ^
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepEllipsoid.cpp -o build/temp.linux-x86_64-3.9/layer2/RepEllipsoid.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMap.cpp: In function ‘int ObjectMapValidXtal(ObjectMap*, int)’:
layer2/ObjectMap.cpp:133:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  133 |   if((state >= 0) && (state < I->State.size())) {
      |                       ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapTrim(ObjectMap*, int, float*, float*, int)’:
layer2/ObjectMap.cpp:914:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  914 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
      |                              ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapDouble(ObjectMap*, int)’:
layer2/ObjectMap.cpp:931:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  931 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
      |                              ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapHalve(ObjectMap*, int, int)’:
layer2/ObjectMap.cpp:946:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  946 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
      |                              ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘void ObjectMapRegeneratePoints(ObjectMap*)’:
layer2/ObjectMap.cpp:1189:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1189 |   for (i=0; i<om->State.size();i++){
      |             ~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘PyObject* ObjectMapAllStatesAsPyList(ObjectMap*)’:
layer2/ObjectMap.cpp:1279:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1279 |   for(a = 0; a < I->State.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapAllStatesFromPyList(ObjectMap*, PyObject*)’:
layer2/ObjectMap.cpp:1437:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1437 |     for(a = 0; a < I->State.size(); a++) {
      |                ~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapNewCopy(PyMOLGlobals*, const ObjectMap*, ObjectMap**, int, int)’:
layer2/ObjectMap.cpp:1509:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1509 |       for(state = 0; state < src->State.size(); state++) {
      |                      ~~~~~~^~~~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp:1518:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1518 |       if(source_state < src->State.size()) {
      |          ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘ObjectMapState* ObjectMapStatePrime(ObjectMap*, int)’:
layer2/ObjectMap.cpp:1535:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 1535 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘void ObjectMapUpdateExtents(ObjectMap*)’:
layer2/ObjectMap.cpp:1548:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1548 |   for(a = 0; a < I->State.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In member function ‘virtual void ObjectMap::invalidate(cRep_t, cRepInv_t, int)’:
layer2/ObjectMap.cpp:1674:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1674 |     for(a = 0; a < I->State.size(); a++) {
      |                ~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapCCP4StrToMap(ObjectMap*, char*, int, int, int, int)’:
layer2/ObjectMap.cpp:2297:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
 2297 |   if(bytes < 256 * sizeof(int)) {
      |      ~~~~~~^~~~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp:2307:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2307 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’:
layer2/ObjectMap.cpp:2942:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2942 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapXPLORStrToMap(ObjectMap*, char*, int, int)’:
layer2/ObjectMap.cpp:3216:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 3216 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapFLDStrToMap(ObjectMap*, char*, int, int, int)’:
layer2/ObjectMap.cpp:3437:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 3437 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapBRIXStrToMap(ObjectMap*, char*, int, int, int)’:
layer2/ObjectMap.cpp:3766:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 3766 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int)’:
layer2/ObjectMap.cpp:4172:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 4172 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadCCP4(PyMOLGlobals*, ObjectMap*, const char*, int, int, int, int, int)’:
layer2/ObjectMap.cpp:4694:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 4694 |       if(state < I->State.size()) {
      |          ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘int ObjectMapACNTStrToMap(ObjectMap*, char*, int, int, int)’:
layer2/ObjectMap.cpp:5245:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 5245 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadXPLOR(PyMOLGlobals*, ObjectMap*, const char*, int, int, int)’:
layer2/ObjectMap.cpp:5557:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 5557 |         if(state < I->State.size()) {
      |            ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadChemPyBrick(PyMOLGlobals*, ObjectMap*, PyObject*, int, int, int)’:
layer2/ObjectMap.cpp:5711:24: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 5711 |     if(I->State.size() <= state) {
      |        ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadChemPyMap(PyMOLGlobals*, ObjectMap*, PyObject*, int, int, int)’:
layer2/ObjectMap.cpp:5809:24: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 5809 |     if(I->State.size() <= state) {
      |        ~~~~~~~~~~~~~~~~^~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer2/ObjectMap.h:25,
                 from layer2/ObjectMap.cpp:27:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int, int}]’:
layer2/ObjectMap.cpp:198:30:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’:
layer2/ObjectMap.cpp:1605:14:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/MmodTyping.cpp -o build/temp.linux-x86_64-3.9/layer2/MmodTyping.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’
layer2/ObjectMap.cpp:5967:46:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
In file included from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:21,
                 from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5,
                 from layer0/os_numpy.h:8,
                 from layer2/ObjectMap.cpp:22:
/usr/lib64/python3.9/site-packages/numpy/core/include/numpy/__multiarray_api.h: At global scope:
/usr/lib64/python3.9/site-packages/numpy/core/include/numpy/__multiarray_api.h:1477:1: warning: ‘int _import_array()’ defined but not used [-Wunused-function]
 1477 | _import_array(void)
      | ^~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/MmtfMoleculeReader.cpp -o build/temp.linux-x86_64-3.9/layer2/MmtfMoleculeReader.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Wizard.cpp -o build/temp.linux-x86_64-3.9/layer1/Wizard.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepLabel.cpp -o build/temp.linux-x86_64-3.9/layer2/RepLabel.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/MmtfMoleculeReader.cpp: In function ‘ObjectMolecule* ObjectMoleculeReadMmtfStr(PyMOLGlobals*, ObjectMolecule*, const char*, int, int, int, int, int, int)’:
layer2/MmtfMoleculeReader.cpp:223:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  223 |         for (int l = 0, offset = atomIndex; l < group->bondAtomListCount / 2; ++l) {
      |                                             ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/vla.h:10,
                 from layer1/Symmetry.h:26,
                 from layer1/PyMOLObject.h:27,
                 from layer2/ObjectMolecule.h:24,
                 from layer2/MmtfMoleculeReader.cpp:9:
layer2/MmtfMoleculeReader.cpp:276:34: warning: comparison of integer expressions of different signedness: ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  276 |     assert(cset->IdxToAtm.size() == cset->getNIndex());
      |            ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
layer2/MmtfMoleculeReader.cpp:287:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  287 |   for (int l = 0; l < container->bondAtomListCount / 2; ++l) {
      |                   ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/Mol2Typing.cpp -o build/temp.linux-x86_64-3.9/layer2/Mol2Typing.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Wizard.cpp: In member function ‘virtual int CWizard::release(int, int, int, int)’:
layer1/Wizard.cpp:571:18: warning: unused variable ‘wiz’ [-Wunused-variable]
  571 |         if (auto wiz = WizardGet(G)) {
      |                  ^~~
layer1/Wizard.cpp: In member function ‘virtual void CWizard::draw(CGO*)’:
layer1/Wizard.cpp:727:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
  727 |     else
      |     ^~~~
layer1/Wizard.cpp:729:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
  729 |       drawTopEdge();
      |       ^~~~~~~~~~~
In file included from layer1/Wizard.cpp:27:
layer1/Wizard.cpp: In function ‘void WizardFree(PyMOLGlobals*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CWizard’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer1/Wizard.cpp:845:3: note: in expansion of macro ‘DeleteP’
  845 |   DeleteP(G->Wizard);
      |   ^~~~~~~
layer2/ObjectMap.cpp: In function ‘ObjectMapDump(ObjectMap const*, char const*, int, int)’:
layer2/ObjectMap.cpp:5982:24: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 239 [-Wformat-truncation=]
 5982 |       " ObjectMapDump: %s written to %s\n", om->Name, fname ENDFB(om->G);
      |                        ^~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output 30 or more bytes (assuming 285) into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/MolV3000.cpp -o build/temp.linux-x86_64-3.9/layer2/MolV3000.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/AssemblyHelpers.cpp -o build/temp.linux-x86_64-3.9/layer2/AssemblyHelpers.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepMesh.cpp -o build/temp.linux-x86_64-3.9/layer2/RepMesh.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectAlignment.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectAlignment.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/AtomInfo.cpp -o build/temp.linux-x86_64-3.9/layer2/AtomInfo.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
layer2/ObjectMap.cpp:2961:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
 2961 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
      |                      ^~     ~~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp:2970:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
 2970 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
      |                      ^~     ~~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp:2976:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
 2976 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
      |                      ^~     ~~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp:3058:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
 3058 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
      |                      ^~     ~~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer2/RepMesh.cpp:28:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’:
layer2/RepMesh.cpp:970:27:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer2/ObjectMap.cpp: In function ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’:
layer2/ObjectMap.cpp:4290:18: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=]
 4290 |     " ObjectMap: %s\n", cc ENDFB(I->G);
      |                  ^~     ~~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
layer2/ObjectMap.cpp:4290:18: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=]
 4290 |     " ObjectMap: %s\n", cc ENDFB(I->G);
      |                  ^~     ~~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
layer2/AtomInfo.cpp: In function ‘bool AtomResiFromResv(char*, size_t, int, char)’:
layer2/AtomInfo.cpp:817:56: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  817 |     return snprintf(resi, size, "%d%c", resv, inscode) < size;
      |            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
layer2/AtomInfo.cpp:818:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  818 |   return snprintf(resi, size, "%d", resv) < size;
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
layer2/RepMesh.cpp: In function ‘RepMeshNew(CoordSet*, int)’:
layer2/RepMesh.cpp:1053:13: warning: ‘field’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1053 |     DeleteP(field);
      |             ^~~~~
In file included from layer0/Map.h:24,
                 from layer1/Basis.h:20,
                 from layer1/Ray.h:24,
                 from layer1/PyMOLObject.h:24,
                 from layer2/ObjectAlignment.h:22,
                 from layer2/ObjectAlignment.cpp:27:
layer2/ObjectAlignment.cpp: In member function ‘ObjectAlignment::update()’:
layer0/Vector.h:322:10: warning: ‘MEM[(float *)&gvert + 8B]’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  322 |   dst[2] = src[2];
      |   ~~~~~~~^~~~~~
layer2/ObjectAlignment.cpp:926:39: note: ‘MEM[(float *)&gvert + 8B]’ was declared here
  926 |               float mean[3], vert[3], gvert[3];
      |                                       ^~~~~
In file included from layer0/Map.h:24,
                 from layer1/Basis.h:20,
                 from layer1/Ray.h:24,
                 from layer1/PyMOLObject.h:24,
                 from layer2/ObjectAlignment.h:22,
                 from layer2/ObjectAlignment.cpp:27:
layer0/Vector.h:321:10: warning: ‘MEM[(float *)&gvert + 4B]’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  321 |   dst[1] = src[1];
      |   ~~~~~~~^~~~~~
layer2/ObjectAlignment.cpp:926:39: note: ‘MEM[(float *)&gvert + 4B]’ was declared here
  926 |               float mean[3], vert[3], gvert[3];
      |                                       ^~~~~
In file included from layer0/Map.h:24,
                 from layer1/Basis.h:20,
                 from layer1/Ray.h:24,
                 from layer1/PyMOLObject.h:24,
                 from layer2/ObjectAlignment.h:22,
                 from layer2/ObjectAlignment.cpp:27:
layer0/Vector.h:320:10: warning: ‘MEM[(float *)&gvert]’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  320 |   dst[0] = src[0];
      |   ~~~~~~~^~~~~~
layer2/ObjectAlignment.cpp:926:39: note: ‘MEM[(float *)&gvert]’ was declared here
  926 |               float mean[3], vert[3], gvert[3];
      |                                       ^~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepNonbonded.cpp -o build/temp.linux-x86_64-3.9/layer2/RepNonbonded.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMesh.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMesh.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/AtomInfoHistory.cpp -o build/temp.linux-x86_64-3.9/layer2/AtomInfoHistory.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectCGO.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectCGO.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepNonbondedSphere.cpp -o build/temp.linux-x86_64-3.9/layer2/RepNonbondedSphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectCGO.cpp: In function ‘PyObject* ObjectCGOAllStatesAsPyList(ObjectCGO*)’:
layer2/ObjectCGO.cpp:53:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   53 |   for(a = 0; a < I->State.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer2/ObjectCGO.cpp: In function ‘int ObjectCGOAllStatesFromPyList(ObjectCGO*, PyObject*, int)’:
layer2/ObjectCGO.cpp:104:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  104 |     for(a = 0; a < I->State.size(); a++) {
      |                ~~^~~~~~~~~~~~~~~~~
layer2/ObjectCGO.cpp: In member function ‘virtual void ObjectCGO::invalidate(cRep_t, cRepInv_t, int)’:
layer2/ObjectCGO.cpp:205:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  205 |     if((state >= 0) && (state < I->State.size())) {
      |                         ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectCGO.cpp: In member function ‘virtual void ObjectCGO::render(RenderInfo*)’:
layer2/ObjectCGO.cpp:488:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  488 |         if (!ray)
      |         ^~
layer2/ObjectCGO.cpp:490:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  490 |           ObjectCGORenderState(G, pass, ray, I, info, sobj, color, ramp, use_shader, cgo_lighting);
      |           ^~~~~~~~~~~~~~~~~~~~
In file included from layer2/ObjectCGO.cpp:24:
layer2/ObjectCGO.h: In copy constructor ‘ObjectCGOState::ObjectCGOState(const ObjectCGOState&)’:
layer2/ObjectCGO.h:28:17: warning: ‘ObjectCGOState::G’ will be initialized after [-Wreorder]
   28 |   PyMOLGlobals* G;
      |                 ^
layer2/ObjectCGO.h:27:25: warning:   ‘pymol::cache_ptr<CGO> ObjectCGOState::renderCGO’ [-Wreorder]
   27 |   pymol::cache_ptr<CGO> renderCGO;
      |                         ^~~~~~~~~
layer2/ObjectCGO.cpp:517:1: warning:   when initialized here [-Wreorder]
  517 | ObjectCGOState::ObjectCGOState(const ObjectCGOState& other)
      | ^~~~~~~~~~~~~~
In file included from layer2/ObjectCGO.cpp:24:
layer2/ObjectCGO.h:29:58: warning: ‘ObjectCGOState::hasOpaque’ will be initialized after [-Wreorder]
   29 |   bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque;
      |                                                          ^~~~~~~~~
layer2/ObjectCGO.h:29:44: warning:   ‘bool ObjectCGOState::cgo_lighting’ [-Wreorder]
   29 |   bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque;
      |                                            ^~~~~~~~~~~~
layer2/ObjectCGO.cpp:517:1: warning:   when initialized here [-Wreorder]
  517 | ObjectCGOState::ObjectCGOState(const ObjectCGOState& other)
      | ^~~~~~~~~~~~~~
layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGOFromCGO(PyMOLGlobals*, ObjectCGO*, CGO*, int)’:
layer2/ObjectCGO.cpp:602:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  602 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGODefine(PyMOLGlobals*, ObjectCGO*, PyObject*, int)’:
layer2/ObjectCGO.cpp:667:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  667 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGOFromFloatArray(PyMOLGlobals*, ObjectCGO*, float*, int, int, int)’:
layer2/ObjectCGO.cpp:725:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  725 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/BondTypeHistory.cpp -o build/temp.linux-x86_64-3.9/layer2/BondTypeHistory.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMesh.cpp: In member function ‘ObjectMesh::update()’:
layer2/ObjectMesh.cpp:502:41: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=]
  502 |           "ObjectMeshUpdate-Error: map '%s' has been deleted.\n", ms->MapName
      |                                         ^~
In file included from layer1/Ortho.h:32,
                 from layer1/Scene.h:23,
                 from layer2/ObjectMesh.cpp:33:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 50 and 305 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer2/ObjectMesh.cpp:535:40: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=]
  535 |               " ObjectMesh: updating \"%s\".\n", I->Name ENDFB(G);
      |                                        ^~
In file included from layer1/Ortho.h:32,
                 from layer1/Scene.h:23,
                 from layer2/ObjectMesh.cpp:33:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 27 and 282 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/SideChainHelper.cpp -o build/temp.linux-x86_64-3.9/layer2/SideChainHelper.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectCallback.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectCallback.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMesh.cpp: In function ‘ObjectMeshDump(ObjectMesh*, char const*, int, int)’:
layer2/ObjectMesh.cpp:329:27: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=]
  329 |         " ObjectMeshDump: %s written to %s\n", I->Name, fname ENDFB(I->G);
      |                           ^~
In file included from layer1/Ortho.h:32,
                 from layer1/Scene.h:23,
                 from layer2/ObjectMesh.cpp:33:
layer0/Feedback.h:274:15: note: ‘snprintf’ output 31 or more bytes (assuming 286) into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepRibbon.cpp -o build/temp.linux-x86_64-3.9/layer2/RepRibbon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMolecule.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from layer1/PyMOLObject.h:26,
                 from layer2/ObjectMolecule.h:24,
                 from layer2/SideChainHelper.h:9,
                 from layer2/SideChainHelper.cpp:10:
layer2/SideChainHelper.cpp: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
  436 |   int i = *out;
      |           ^~~~
In file included from layer2/ObjectMolecule.h:25,
                 from layer2/SideChainHelper.h:9,
                 from layer2/SideChainHelper.cpp:10:
layer2/AtomInfo.h:505:5: note: ‘out’ was declared here
  505 |   V out;
      |     ^~~
In file included from layer1/PyMOLObject.h:26,
                 from layer2/ObjectMolecule.h:24,
                 from layer2/SideChainHelper.h:9,
                 from layer2/SideChainHelper.cpp:10:
layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
  436 |   int i = *out;
      |           ^~~~
In file included from layer2/ObjectMolecule.h:25,
                 from layer2/SideChainHelper.h:9,
                 from layer2/SideChainHelper.cpp:10:
layer2/AtomInfo.h:505:5: note: ‘out’ was declared here
  505 |   V out;
      |     ^~~
In file included from layer1/PyMOLObject.h:26,
                 from layer2/ObjectMolecule.h:24,
                 from layer2/SideChainHelper.h:9,
                 from layer2/SideChainHelper.cpp:10:
layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
  436 |   int i = *out;
      |           ^~~~
In file included from layer2/ObjectMolecule.h:25,
                 from layer2/SideChainHelper.h:9,
                 from layer2/SideChainHelper.cpp:10:
layer2/AtomInfo.h:505:5: note: ‘out’ was declared here
  505 |   V out;
      |     ^~~
In file included from layer1/PyMOLObject.h:26,
                 from layer2/ObjectMolecule.h:24,
                 from layer2/SideChainHelper.h:9,
                 from layer2/SideChainHelper.cpp:10:
layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
  436 |   int i = *out;
      |           ^~~~
In file included from layer2/ObjectMolecule.h:25,
                 from layer2/SideChainHelper.h:9,
                 from layer2/SideChainHelper.cpp:10:
layer2/AtomInfo.h:505:5: note: ‘out’ was declared here
  505 |   V out;
      |     ^~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/VFont.cpp -o build/temp.linux-x86_64-3.9/layer2/VFont.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectDist.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectDist.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMolecule.cpp: In function ‘int ObjectMoleculeFillOpenValences(ObjectMolecule*, int)’:
layer2/ObjectMolecule.cpp:3531:14: warning: comparison of integer expressions of different signedness: ‘const unsigned int’ and ‘signed char’ [-Wsign-compare]
 3531 |       if((nn >= ai->valence) || (!flag))
      |           ~~~^~~~~~~~~~~~~~
layer2/ObjectMolecule.cpp: In function ‘pymol::Result<> ObjectMoleculeAddBondByIndices(ObjectMolecule*, unsigned int, unsigned int, int)’:
layer2/ObjectMolecule.cpp:4328:12: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
 4328 |   if (atm1 >= I->NAtom || atm2 >= I->NAtom) {
      |       ~~~~~^~~~~~~~~~~
layer2/ObjectMolecule.cpp:4328:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
 4328 |   if (atm1 >= I->NAtom || atm2 >= I->NAtom) {
      |                           ~~~~~^~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepSphere.cpp -o build/temp.linux-x86_64-3.9/layer2/RepSphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMolecule.cpp: In member function ‘bool ObjectMolecule::atomHasAnyCoordinates(size_t) const’:
layer2/ObjectMolecule.cpp:11713:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
11713 |   for (size_t i = 0; i < NCSet; ++i) {
      |                      ~~^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/AtomIterators.cpp -o build/temp.linux-x86_64-3.9/layer3/AtomIterators.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectDist.cpp: In function ‘int ObjectDistMoveWithObject(ObjectDist*, ObjectMolecule*)’:
layer2/ObjectDist.cpp:111:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  111 |   for (int i=0; i<I->DSet.size(); i++) {
      |                 ~^~~~~~~~~~~~~~~
layer2/ObjectDist.cpp: In function ‘void ObjectDistUpdateExtents(ObjectDist*)’:
layer2/ObjectDist.cpp:136:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  136 |   for(int a = 0; a < I->DSet.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~
layer2/ObjectDist.cpp: In function ‘PyObject* ObjectDistDSetAsPyList(ObjectDist*)’:
layer2/ObjectDist.cpp:148:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  148 |   for(int a = 0; a < I->DSet.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~
layer2/ObjectDist.cpp: In function ‘int ObjectDistDSetFromPyList(ObjectDist*, PyObject*)’:
layer2/ObjectDist.cpp:165:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  165 |     for(int a = 0; a < I->DSet.size(); a++) {
      |                    ~~^~~~~~~~~~~~~~~~
layer2/ObjectDist.cpp: In member function ‘virtual void ObjectDist::update()’:
layer2/ObjectDist.cpp:241:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  241 |   for(int a = 0; a < I->DSet.size(); a++)
      |                  ~~^~~~~~~~~~~~~~~~
layer2/ObjectDist.cpp: In function ‘void ObjectDistInvalidateRep(ObjectDist*, cRep_t)’:
layer2/ObjectDist.cpp:257:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  257 |   for(a = 0; a < I->DSet.size(); a++)
      |              ~~^~~~~~~~~~~~~~~~
layer3/AtomIterators.cpp: In member function ‘virtual bool SeleAtomIterator::next()’:
layer3/AtomIterators.cpp:61:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   61 |   while ((++a) < I->Table.size()) {
      |          ~~~~~~^~~~~~~~~~~~~~~~~
layer3/AtomIterators.cpp: In member function ‘virtual bool SeleCoordIterator::next()’:
layer3/AtomIterators.cpp:129:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  129 |   for (a++; a < I->Table.size(); a++) {
      |             ~~^~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/CifDataValueFormatter.cpp -o build/temp.linux-x86_64-3.9/layer3/CifDataValueFormatter.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepSphereGenerate.cpp -o build/temp.linux-x86_64-3.9/layer2/RepSphereGenerate.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/Editor.cpp -o build/temp.linux-x86_64-3.9/layer3/Editor.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectGadget.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectGadget.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeMOLStr2CoordSet(PyMOLGlobals*, char const*, AtomInfoType**, char const**) [clone .constprop.0]’:
layer2/ObjectMolecule.cpp:7579:37: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 224 [-Wformat-truncation=]
 7579 |     " ObjMolMOLStr2CoordSet: title '%s'\n", nameTmp ENDFB(G)
      |                                     ^~      ~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer2/ObjectMolecule.cpp:31:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 34 and 289 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer2/ObjectMolecule.cpp:7627:16: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation]
 7627 |         strncpy(atInfo[a].elem, cc, cElemNameLen);
      |         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Editor.cpp: In function ‘pymol::Result<> EditorSelect(PyMOLGlobals*, const char*, const char*, const char*, const char*, int, int, int)’:
layer3/Editor.cpp:776:7: warning: variable ‘result’ set but not used [-Wunused-but-set-variable]
  776 |   int result = false;
      |       ^~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepSphereImmediate.cpp -o build/temp.linux-x86_64-3.9/layer2/RepSphereImmediate.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/SpecRec.cpp -o build/temp.linux-x86_64-3.9/layer3/SpecRec.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Editor.cpp: In function ‘EditorDefineExtraPks(PyMOLGlobals*)’:
layer3/Editor.cpp:335:29: warning: ‘%s’ directive writing up to 255 bytes into a region of size 249 [-Wformat-overflow=]
  335 |     sprintf(buffer, "(byres %s)", name);
      |                             ^~    ~~~~
layer3/Editor.cpp:335:12: note: ‘sprintf’ output between 9 and 264 bytes into a destination of size 256
  335 |     sprintf(buffer, "(byres %s)", name);
      |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Editor.cpp:337:31: warning: ‘%s’ directive writing up to 255 bytes into a region of size 247 [-Wformat-overflow=]
  337 |     sprintf(buffer, "(bychain %s)", name);
      |                               ^~    ~~~~
layer3/Editor.cpp:337:12: note: ‘sprintf’ output between 11 and 266 bytes into a destination of size 256
  337 |     sprintf(buffer, "(bychain %s)", name);
      |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Editor.cpp:339:32: warning: ‘%s’ directive writing up to 255 bytes into a region of size 246 [-Wformat-overflow=]
  339 |     sprintf(buffer, "(byobject %s)", name);
      |                                ^~    ~~~~
layer3/Editor.cpp:339:12: note: ‘sprintf’ output between 12 and 267 bytes into a destination of size 256
  339 |     sprintf(buffer, "(byobject %s)", name);
      |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer2/ObjectMolecule.cpp: In member function ‘ObjectMolecule::update()’:
layer2/ObjectMolecule.cpp:10605:82: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=]
10605 |               " ObjectMolecule-DEBUG: updating representations for state %d of \"%s\".\n",
      |                                                                                  ^~
In file included from layer1/Ortho.h:32,
                 from layer2/ObjectMolecule.cpp:31:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 68 and 333 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, float const*, int, int)’:
layer2/ObjectMolecule.cpp:10731:43: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=]
10731 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
      |                                           ^~
10732 |               buffer, v[0], v[1], v[2], state + 1, mode, 0);
      |               ~~~~~~                       
layer2/ObjectMolecule.cpp:10731:21: note: directive argument in the range [-2147483647, 2147483647]
10731 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
      |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer2/ObjectMolecule.cpp:10731:14: note: ‘sprintf’ output between 78 and 2036 bytes into a destination of size 1024
10731 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
      |       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
10732 |               buffer, v[0], v[1], v[2], state + 1, mode, 0);
      |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Editor.cpp: In function ‘EditorPrepareDrag(PyMOLGlobals*, pymol::CObject*, int, int, int, int)’:
layer3/Editor.cpp:1933:29: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=]
 1933 |         " Editor: grabbing (%s).", name ENDFB(G);
      |                             ^~     ~~~~
In file included from layer1/Ortho.h:32,
                 from layer1/ButMode.h:20,
                 from layer3/Editor.cpp:28:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 22 and 277 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/SpecRecSpecial.cpp -o build/temp.linux-x86_64-3.9/layer3/SpecRecSpecial.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepSurface.cpp -o build/temp.linux-x86_64-3.9/layer2/RepSurface.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/Executive.cpp -o build/temp.linux-x86_64-3.9/layer3/Executive.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer4/Cmd.cpp -o build/temp.linux-x86_64-3.9/layer4/Cmd.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/RepSurface.cpp: In function ‘void RepSurfaceSmoothEdges(RepSurface*)’:
layer2/RepSurface.cpp:4403:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 4403 |     for (auto j = 0; j < edges[i].size(); j += 3) {
      |                      ~~^~~~~~~~~~~~~~~~~
layer2/RepSurface.cpp:4415:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 4415 |     for (auto j = 0; j < edges[i].size(); j += 3) {
      |                      ~~^~~~~~~~~~~~~~~~~
layer2/RepSurface.cpp:4426:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 4426 |     for (auto i = 0; i < unique_edges.size(); i += 2) {
      |                      ~~^~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsosurfaceEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, int)’:
layer3/Executive.cpp:986:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  986 |         if(map_state >= mapObj->State.size())
      |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsomeshEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, float)’:
layer3/Executive.cpp:1132:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1132 |         if(map_state >= mapObj->State.size())
      |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveVolume(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int)’:
layer3/Executive.cpp:1305:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1305 |         if(map_state >= mapObj->State.size())
      |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
layer4/Cmd.cpp: In function ‘PyObject* CmdPushUndo(PyObject*, PyObject*)’:
layer4/Cmd.cpp:2216:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
 2216 |     if(ok)
      |     ^~
layer4/Cmd.cpp:2218:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
 2218 |       if(s0[0])
      |       ^~
layer4/Cmd.cpp: In function ‘PyObject* CmdGetMinMax(PyObject*, PyObject*)’:
layer4/Cmd.cpp:4469:7: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable]
 4469 |   int ok = false;
      |       ^~
In file included from /usr/include/c++/11/cassert:44,
                 from /usr/include/glm/detail/func_exponential.inl:8,
                 from /usr/include/glm/exponential.hpp:110,
                 from /usr/include/glm/detail/func_geometric.inl:1,
                 from /usr/include/glm/geometric.hpp:116,
                 from /usr/include/glm/detail/func_matrix.inl:1,
                 from /usr/include/glm/matrix.hpp:161,
                 from /usr/include/glm/detail/type_mat2x2.inl:1,
                 from /usr/include/glm/detail/type_mat2x2.hpp:176,
                 from /usr/include/glm/ext/matrix_double2x2.hpp:5,
                 from /usr/include/glm/mat2x2.hpp:5,
                 from /usr/include/glm/glm.hpp:119,
                 from layer3/Executive.cpp:114:
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSmooth(PyMOLGlobals*, const char*, int, int, int, int, int, int, float, bool)’:
layer3/Executive.cpp:6095:17: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare]
 6095 |   assert(n_atom == SelectorCountAtoms(G, sele, cStateAll));
      |          ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:6155:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare]
 6155 |       for (int c = 0; c < n_atom; ++c) {
      |                       ~~^~~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveMapSet(PyMOLGlobals*, const char*, int, const char*, int, int, int, int)’:
layer3/Executive.cpp:6325:34: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 6325 |             if(obj->State.size() > max_n_state)
      |                ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
layer3/Executive.cpp:6436:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6436 |                     if(src_state < obj->State.size()) {
      |                        ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘float ExecutiveRMSPairs(PyMOLGlobals*, const std::vector<SelectorTmp>&, int, bool)’:
layer3/Executive.cpp:11035:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
11035 |   for(a = 0; a < pairs; a++) {
      |              ~~^~~~~~~
In file included from layer4/Cmd.cpp:77:
layer1/PConv.h: In instantiation of ‘PyObject* PConvToPyObject(const std::array<_Tp, _Nm>&) [with T = float; long unsigned int N = 3; PyObject = _object]’:
layer4/Cmd.cpp:380:27:   required from ‘PyObject* APIResult(PyMOLGlobals*, pymol::Result<T>&) [with T = std::array<float, 3>; PyObject = _object]’
layer4/Cmd.cpp:4034:19:   required from here
layer1/PConv.h:259:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  259 |   for (int i = 0; i < N; ++i) {
      |                   ~~^~~
layer3/Executive.cpp:11040:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
11040 |     if(a < (pairs - 1))
      |        ~~^~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveColor(PyMOLGlobals*, const char*, const char*, int, int)’:
layer3/Executive.cpp:12401:7: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable]
12401 |   int ok = false;
      |       ^~
layer3/Executive.cpp: In function ‘void ExecutiveSymExp(PyMOLGlobals*, const char*, const char*, const char*, float, int, int)’:
layer3/Executive.cpp:14066:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
14066 |             for (unsigned idx = 0; idx < cs->NIndex; ++idx) {
      |                                    ~~~~^~~~~~~~~~~~
layer3/Executive.cpp:14093:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
14093 |             for (unsigned atm = 0; atm < new_obj->NAtom; ++atm) {
      |                                    ~~~~^~~~~~~~~~~~~~~~
In file included from layer3/Executive.cpp:51:
layer3/Executive.cpp: In lambda function:
layer0/ListMacros.h:100:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
  100 |         else \
      |         ^~~~
layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
  141 |    ListDetach(List,copy,Link,ElemType); \
      |    ^~~~~~~~~~
layer3/Executive.cpp:14194:7: note: in expansion of macro ‘ListDelete’
14194 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
      |       ^~~~~~~~~~
layer0/ListMacros.h:102:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
  102 |           (Elem)->Link = NULL; \
      |           ^
layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
  141 |    ListDetach(List,copy,Link,ElemType); \
      |    ^~~~~~~~~~
layer3/Executive.cpp:14194:7: note: in expansion of macro ‘ListDelete’
14194 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
      |       ^~~~~~~~~~
layer3/Executive.cpp: In lambda function:
layer0/ListMacros.h:100:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
  100 |         else \
      |         ^~~~
layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
  141 |    ListDetach(List,copy,Link,ElemType); \
      |    ^~~~~~~~~~
layer3/Executive.cpp:14206:7: note: in expansion of macro ‘ListDelete’
14206 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
      |       ^~~~~~~~~~
layer0/ListMacros.h:102:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
  102 |           (Elem)->Link = NULL; \
      |           ^
layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
  141 |    ListDetach(List,copy,Link,ElemType); \
      |    ^~~~~~~~~~
layer3/Executive.cpp:14206:7: note: in expansion of macro ‘ListDelete’
14206 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
      |       ^~~~~~~~~~
layer3/Executive.cpp: In member function ‘virtual int CExecutive::click(int, int, int, int)’:
layer3/Executive.cpp:14873:68: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
14873 |               if(((panel->is_group) && (((xx) - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
      |                                        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:14874:69: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
14874 |                  ((!panel->is_group) && (((xx) - 1) / DIP2PIXEL(8)) > panel->nest_level)) {
      |                                         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In member function ‘virtual int CExecutive::release(int, int, int, int)’:
layer3/Executive.cpp:15162:65: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
15162 |                (((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
      |                                       ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:15163:66: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
15163 |                 ((!panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > panel->nest_level))) {
      |                                        ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In member function ‘virtual int CExecutive::drag(int, int, int)’:
layer3/Executive.cpp:15304:70: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
15304 |                   if(((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
      |                                            ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:15305:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
15305 |                      ((!panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > panel->nest_level)) {
      |                                             ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:15340:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
15340 |                   if(!((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1))) {
      |                                             ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer0/OOMac.h:22,
                 from layer3/Executive.cpp:37:
layer3/Executive.cpp: In function ‘void ExecutiveFree(PyMOLGlobals*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CExecutive’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer3/Executive.cpp:16294:3: note: in expansion of macro ‘DeleteP’
16294 |   DeleteP(G->Executive);
      |   ^~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSliceNew(PyMOLGlobals*, const char*, const char*, int, int)’:
layer3/Executive.cpp:16607:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
16607 |         if(map_state >= mapObj->State.size())
      |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
In file included from layer3/Executive.h:38,
                 from layer3/Executive.cpp:38:
layer0/TrackerList.h: In instantiation of ‘pymol::TrackerAdapter<T>::TrackerAdapterIterator<IsConst>::TrackerAdapterIterator(CTracker*, int) [with bool IsConst = false; T = SpecRec]’:
layer0/TrackerList.h:99:29:   required from ‘pymol::TrackerAdapter<T>::iterator pymol::TrackerAdapter<T>::begin() [with T = SpecRec; pymol::TrackerAdapter<T>::iterator = pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>]’
layer3/Executive.cpp:202:62:   required from here
layer0/TrackerList.h:80:15: warning: ‘pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>::m_tracker’ will be initialized after [-Wreorder]
   80 |     CTracker* m_tracker;
      |               ^~~~~~~~~
layer0/TrackerList.h:79:9: warning:   ‘int pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>::m_iter_id’ [-Wreorder]
   79 |     int m_iter_id = -1;
      |         ^~~~~~~~~
layer0/TrackerList.h:35:14: warning:   when initialized here [-Wreorder]
   35 |     explicit TrackerAdapterIterator(CTracker* tracker, int list_id)
      |              ^~~~~~~~~~~~~~~~~~~~~~
In function ‘ObjectMoleculeXYZStr2CoordSet(PyMOLGlobals*, char const*, AtomInfoType**, char const**)’,
    inlined from ‘ObjectMoleculeReadStr(PyMOLGlobals*, ObjectMolecule*, char const**, cLoadType_t, int, int, int, int, char*, short, _OVLexicon*)’ at layer2/ObjectMolecule.cpp:8551:43:
layer2/ObjectMolecule.cpp:2898:16: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation]
 2898 |         strncpy(ai->elem, cc, cElemNameLen);
      |         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMolecule2.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule2.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMolecule2.cpp: In function ‘bool ObjectMoleculeConnect(ObjectMolecule*, int&, pymol::vla<BondType>&, CoordSet*, int, int, bool)’:
layer2/ObjectMolecule2.cpp:3750:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
 3750 |     for (unsigned i = 0; i < cs->NIndex; ++i) {
      |                          ~~^~~~~~~~~~~~
layer2/ObjectMolecule2.cpp: In lambda function:
layer2/ObjectMolecule2.cpp:3779:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
 3779 |         if (i <= j && !symop)
      |             ~~^~~~
layer2/ObjectMolecule2.cpp: In function ‘bool ObjectMoleculeConnect(ObjectMolecule*, int&, pymol::vla<BondType>&, CoordSet*, int, int, bool)’:
layer2/ObjectMolecule2.cpp:3884:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
 3884 |       for (unsigned i = 0; i < cs->NIndex; ++i) {
      |                            ~~^~~~~~~~~~~~
layer2/ObjectMolecule2.cpp:3900:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
 3900 |     for (unsigned a = 0; a < cs->NTmpBond; ++a) {
      |                          ~~^~~~~~~~~~~~~~
layer2/ObjectMolecule2.cpp:3950:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
 3950 |     for (unsigned a = 0; a < cs->NTmpLinkBond; ++a) {
      |                          ~~^~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepWireBond.cpp -o build/temp.linux-x86_64-3.9/layer2/RepWireBond.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘ExecutiveRemoveAtoms(PyMOLGlobals*, char const*, int)’:
layer3/Executive.cpp:9007:58: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 207 and 217 [-Wformat-truncation=]
 9007 |                 " Remove: eliminated %d atoms in model \"%s\".\n",
      |                                                          ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 42 and 307 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp: In function ‘ExecutiveSetBondSettingFromString(PyMOLGlobals*, int, char const*, char const*, char const*, int, int, int)’:
layer3/Executive.cpp:11424:28: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
11424 |                 " Setting: %s set for %d bonds in object \"%s\".\n",
      |                            ^~
11425 |                 name, nSet, obj->Name ENDF(G);
      |                 ~~~~        
layer3/Executive.cpp:11424:17: note: directive argument in the range [1, 2147483647]
11424 |                 " Setting: %s set for %d bonds in object \"%s\".\n",
      |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 42 and 560 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp: In function ‘ExecutiveGetBondSetting(PyMOLGlobals*, int, char*, char const*, int, int, int)’:
layer3/Executive.cpp:11505:26: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
11505 |               " Getting: %s for %d bonds in object \"%s\".\n",
      |                          ^~
11506 |               name, nSet, obj->Name ENDF(G);
      |               ~~~~        
layer3/Executive.cpp:11505:15: note: directive argument in the range [1, 2147483647]
11505 |               " Getting: %s for %d bonds in object \"%s\".\n",
      |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 38 and 556 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp: In function ‘ExecutiveSetBondSetting(PyMOLGlobals*, int, _object*, char const*, char const*, int, int, int)’:
layer3/Executive.cpp:11605:62: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 217 [-Wformat-truncation=]
11605 |                   " Setting: %s set for %d bonds in object \"%s\".\n",
      |                                                              ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 42 or more bytes (assuming 306) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp: In function ‘ExecutiveUnsetBondSetting(PyMOLGlobals*, int, char const*, char const*, int, int, int)’:
layer3/Executive.cpp:11684:26: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
11684 |               " Setting: %s unset for %d bonds in object \"%s\".\n",
      |                          ^~
11685 |               name, nSet, rec->obj->Name ENDF(G);
      |               ~~~~        
layer3/Executive.cpp:11684:15: note: directive argument in the range [1, 2147483647]
11684 |               " Setting: %s unset for %d bonds in object \"%s\".\n",
      |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 44 and 562 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp: In function ‘ExecutiveSetObjSettingFromString(PyMOLGlobals*, int, char const*, pymol::CObject*, int, int, int)’:
layer3/Executive.cpp:12226:30: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12226 |                   " Setting: %s set to %s in object \"%s\", state %d.\n",
      |                              ^~
12227 |                   name, value2, obj->Name, state + 1 ENDF(G);
      |                   ~~~~        
layer3/Executive.cpp:12226:19: note: directive argument in the range [1, 2147483647]
12226 |                   " Setting: %s set to %s in object \"%s\", state %d.\n",
      |                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1584 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12218:30: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12218 |                   " Setting: %s set to %s in object \"%s\".\n",
      |                              ^~
12219 |                   name, value2, obj->Name ENDF(G);
      |                   ~~~~        
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1566 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12197:29: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12197 |           PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G);
      |                             ^~                ~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 21 and 1298 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp: In function ‘ExecutiveSetSettingFromString(PyMOLGlobals*, int, char const*, char const*, int, int, int)’:
layer3/Executive.cpp:12129:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12129 |                         " Setting: %s set for %d atoms in object \"%s\".\n",
      |                                    ^~
12130 |                         name, op.i4, rec->obj->Name ENDF(G);
      |                         ~~~~        
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 42 and 561 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12097:32: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12097 |                     " Setting: %s set to %s in %d objects, state %d.\n",
      |                                ^~
12098 |                     name, value2, nObj, state + 1 ENDF(G);
      |                     ~~~~        
layer3/Executive.cpp:12097:21: note: directive argument in the range [1, 2147483647]
12097 |                     " Setting: %s set to %s in %d objects, state %d.\n",
      |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:12097:21: note: directive argument in the range [1, 2147483647]
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1338 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12094:32: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12094 |                     " Setting: %s set to %s in %d objects.\n", name, value2, nObj ENDF(G);
      |                                ^~                              ~~~~
layer3/Executive.cpp:12094:21: note: directive argument in the range [1, 2147483647]
12094 |                     " Setting: %s set to %s in %d objects.\n", name, value2, nObj ENDF(G);
      |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1320 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12161:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12161 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
      |                                    ^~
12162 |                         name, value2, rec->obj->Name, state + 1 ENDF(G);
      |                         ~~~~        
layer3/Executive.cpp:12161:25: note: directive argument in the range [1, 2147483647]
12161 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
      |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1584 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12153:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12153 |                         " Setting: %s set to %s in object \"%s\".\n",
      |                                    ^~
12154 |                         name, value2, rec->obj->Name ENDF(G);
      |                         ~~~~        
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1566 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12057:29: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
12057 |           PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G);
      |                             ^~                ~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output between 21 and 1298 bytes into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer2/ObjectMolecule2.cpp: In function ‘ObjectMoleculeAddPseudoatom(ObjectMolecule*, int, char const*, char const*, char const*, char const*, char const*, char const*, float, int, float, float, char const*, float const*, int, int, int, int)’:
layer2/ObjectMolecule2.cpp:335:27: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=]
  335 |         " ObjMol: created %s/%s/%s/%s`%d%c/%s\n",
      |                           ^~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectMolecule2.cpp:24:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 26 and 291 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/Sculpt.cpp -o build/temp.linux-x86_64-3.9/layer2/Sculpt.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer4/Menu.cpp -o build/temp.linux-x86_64-3.9/layer4/Menu.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘ExecutiveSetSymmetry(PyMOLGlobals*, pymol::zstring_view, int, CSymmetry const&, bool)’:
layer3/Executive.cpp:5951:43: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 202 [-Wformat-truncation=]
 5951 |       " %s-Details: Updated symmetry for '%s'\n", __func__, obj->Name ENDFB(G);
      |                                           ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 56 and 311 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp:5942:46: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 199 [-Wformat-truncation=]
 5942 |       " %s-Warning: Cannot set symmetry for '%s' (type %s)\n", __func__,
      |                                              ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 84 and 339 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMolecule3.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule3.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer4/PopUp.cpp -o build/temp.linux-x86_64-3.9/layer4/PopUp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMolecule3.cpp: In function ‘std::vector<int> ObjectMoleculeGetMolMappingVec(const ObjectMolecule&)’:
layer2/ObjectMolecule3.cpp:42:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
   42 |   for (size_t b = 0; b < objmol.NBond; ++b) {
      |                      ~~^~~~~~~~~~~~~~
layer2/ObjectMolecule3.cpp: In function ‘void ObjectMoleculePBCUnwrap(ObjectMolecule&, bool)’:
layer2/ObjectMolecule3.cpp:151:34: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  151 |       for (unsigned atm = 0; atm != objmol.NAtom; ++atm) {
      |                              ~~~~^~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘ExecutiveBond(PyMOLGlobals*, char const*, char const*, int, int, int, pymol::zstring_view)’:
layer3/Executive.cpp:9358:53: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 214 and 224 [-Wformat-truncation=]
 9358 |                   " Bond: %d bonds added to model \"%s\".\n", cnt, rec->obj->Name
      |                                                     ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 35 and 300 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp:9371:67: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 200 and 210 [-Wformat-truncation=]
 9371 |                   " Valence: %d bond valences adjusted in model \"%s\".\n", cnt,
      |                                                                   ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 49 and 314 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp:9383:59: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 218 [-Wformat-truncation=]
 9383 |                   " Unbond: %d bonds removed from model \"%s\".\n",
      |                                                           ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 41 and 306 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectSlice.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectSlice.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from layer0/OOMac.h:22,
                 from layer4/PopUp.cpp:23:
layer4/PopUp.cpp: In function ‘void PopUpFree(Block*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CPopUp’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer4/PopUp.cpp:401:3: note: in expansion of macro ‘DeleteP’
  401 |   DeleteP(I);
      |   ^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer5/PyMOL.cpp -o build/temp.linux-x86_64-3.9/layer5/PyMOL.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/SculptCache.cpp -o build/temp.linux-x86_64-3.9/layer2/SculptCache.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectSlice.cpp: In function ‘PyObject* ObjectSliceAllStatesAsPyList(ObjectSlice*)’:
layer2/ObjectSlice.cpp:78:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   78 |   for(a = 0; a < I->State.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::invalidate(cRep_t, cRepInv_t, int)’:
layer2/ObjectSlice.cpp:210:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  210 |   for(a = 0; a < State.size(); a++) {
      |              ~~^~~~~~~~~~~~~~
layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::update()’:
layer2/ObjectSlice.cpp:633:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  633 |   for(a = 0; a < I->State.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp: In function ‘void ObjectSliceDrag(ObjectSlice*, int, int, float*, float*, float*)’:
layer2/ObjectSlice.cpp:679:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  679 |     if(state < I->State.size())
      |        ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp: In function ‘int ObjectSliceGetVertex(ObjectSlice*, int, int, float*)’:
layer2/ObjectSlice.cpp:750:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  750 |     if(state < I->State.size())
      |        ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::render(RenderInfo*)’:
layer2/ObjectSlice.cpp:925:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  925 |       if(state < I->State.size())
      |          ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp:967:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  967 |         if(cur_state >= I->State.size())
      |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp:981:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  981 |     if(state < I->State.size())
      |        ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp:1226:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1226 |     if(cur_state >= I->State.size())
      |        ~~~~~~~~~~^~~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp: In function ‘ObjectSliceState* ObjectSliceStateGetActive(ObjectSlice*, int)’:
layer2/ObjectSlice.cpp:1244:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1244 |     if(state < I->State.size()) {
      |        ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectSlice.cpp: In function ‘ObjectSlice* ObjectSliceFromMap(PyMOLGlobals*, ObjectSlice*, ObjectMap*, int, int)’:
layer2/ObjectSlice.cpp:1285:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 1285 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectSlice.cpp: In function ‘void ObjectSliceRecomputeExtent(ObjectSlice*)’:
layer2/ObjectSlice.cpp:1362:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1362 |   for(a = 0; a < I->State.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/ov_utility.cpp -o build/temp.linux-x86_64-3.9/ov/src/ov_utility.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘ExecutiveUnsetSetting(PyMOLGlobals*, int, pymol::zstring_view, int, int, int)’:
layer3/Executive.cpp:12338:68: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 215 [-Wformat-truncation=]
12338 |                       " Setting: %s unset for %d atoms in object \"%s\".\n",
      |                                                                    ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 44 or more bytes (assuming 299) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12360:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=]
12360 |                         " Setting: %s unset in object \"%s\", state %d.\n",
      |                                                         ^~
layer3/Executive.cpp:12360:25: note: directive argument in the range [1, 2147483647]
12360 |                         " Setting: %s unset in object \"%s\", state %d.\n",
      |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 41 or more bytes (assuming 305) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:12354:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=]
12354 |                         " Setting: %s unset in object \"%s\".\n",
      |                                                         ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 32 or more bytes (assuming 287) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer2/ObjectSlice.cpp: In member function ‘ObjectSlice::update()’:
layer2/ObjectSlice.cpp:639:42: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 225 [-Wformat-truncation=]
  639 |           "ObjectSliceUpdate-Error: map '%s' has been deleted.\n", oss->MapName
      |                                          ^~
In file included from layer1/Ortho.h:32,
                 from layer1/Scene.h:23,
                 from layer2/ObjectSlice.cpp:34:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 51 and 306 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer2/ObjectSlice.cpp:650:39: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 231 [-Wformat-truncation=]
  650 |             " ObjectSlice: updating \"%s\".\n", I->Name ENDFB(I->G);
      |                                       ^~
In file included from layer1/Ortho.h:32,
                 from layer1/Scene.h:23,
                 from layer2/ObjectSlice.cpp:34:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 28 and 283 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp: In function ‘ExecutiveSetSetting(PyMOLGlobals*, int, _object*, pymol::zstring_view, int, int, int)’:
layer3/Executive.cpp:11877:70: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 217 [-Wformat-truncation=]
11877 |                           " Setting: %s set for %d atoms in object \"%s\".\n",
      |                                                                      ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 42 or more bytes (assuming 297) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:11788:42: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
11788 |                     " Setting: %s set to %s in %d objects, state %d.\n",
      |                                          ^~
11789 |                     name, value, nObj, state + 1 ENDF(G);
      |                           ~~~~~           
layer3/Executive.cpp:11788:21: note: directive argument in the range [1, 2147483647]
11788 |                     " Setting: %s set to %s in %d objects, state %d.\n",
      |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:11788:21: note: directive argument in the range [1, 2147483647]
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 43 or more bytes (assuming 1084) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:11785:42: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
11785 |                     " Setting: %s set to %s in %d objects.\n", name, value, nObj ENDF(G);
      |                                          ^~                          ~~~~~
layer3/Executive.cpp:11785:21: note: directive argument in the range [1, 2147483647]
11785 |                     " Setting: %s set to %s in %d objects.\n", name, value, nObj ENDF(G);
      |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 34 or more bytes (assuming 1066) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:11909:46: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
11909 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
      |                                              ^~
11910 |                         name, value, rec->obj->Name, state + 1 ENDF(G);
      |                               ~~~~~           
layer3/Executive.cpp:11909:25: note: directive argument in the range [1, 2147483647]
11909 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
      |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 43 or more bytes (assuming 1330) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:11902:46: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
11902 |                         " Setting: %s set to %s in object \"%s\".\n",
      |                                              ^~
11903 |                         name, value, rec->obj->Name ENDF(G);
      |                               ~~~~~           
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 34 or more bytes (assuming 1312) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer3/Executive.cpp:11744:39: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
11744 |           PRINTF " Setting: %s set to %s.\n", name, value ENDF(G);
      |                                       ^~            ~~~~~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:282:53: note: ‘snprintf’ output 21 or more bytes (assuming 1044) into a destination of size 255
  282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |                                                     ^
layer5/PyMOL.cpp: In function ‘PyMOLreturn_status Loader(CPyMOL*, const char*, const char*, int, const char*, const char*, int, int, int, int, int, int)’:
layer5/PyMOL.cpp:1546:27: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘long unsigned int’ [-Wsign-compare]
 1546 |         if((stop - start) >= sizeof(WordType))
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
In file included from layer5/PyMOL.cpp:23:
layer5/PyMOL.cpp: In function ‘void PyMOL_Stop(CPyMOL*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CMovie’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer5/PyMOL.cpp:1987:3: note: in expansion of macro ‘DeleteP’
 1987 |   DeleteP(G->Movie);
      |   ^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectSurface.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectSurface.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘ExecutiveManageObject(PyMOLGlobals*, pymol::CObject*, int, int)’:
layer3/Executive.cpp:14447:37: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=]
14447 |         " Executive-Warning: name \"%s\" collides with a selection language keyword.\n",
      |                                     ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 73 and 328 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp:14442:36: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=]
14442 |         " Executive: object name \"%s\" is illegal -- renamed to 'all_'.\n", obj->Name
      |                                    ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 61 and 316 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp:14473:11: warning: ‘strcpy’ offset 0 is out of the bounds [0, 0] [-Warray-bounds]
14473 |     strcpy(rec->name, obj->Name);
      |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘ExecutiveCopy(PyMOLGlobals*, char const*, char const*, int)’:
layer3/Executive.cpp:9665:25: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=]
 9665 |     " Executive: object %s created.\n", oDst->Name ENDFB(G);
      |                         ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 30 and 285 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp: In function ‘ExecutiveManageSelection(PyMOLGlobals*, char const*)’:
layer3/Executive.cpp:14559:11: warning: ‘strcpy’ offset 0 is out of the bounds [0, 0] [-Warray-bounds]
14559 |     strcpy(rec->name, name);
      |     ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectSurface.cpp: In function ‘PyObject* ObjectSurfaceAllStatesAsPyList(ObjectSurface*)’:
layer2/ObjectSurface.cpp:83:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   83 |   for(int a = 0; a < I->State.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
layer2/ObjectSurface.cpp: In function ‘void ObjectSurfaceDump(ObjectSurface*, const char*, int, int)’:
layer2/ObjectSurface.cpp:236:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  236 |     if(state < I->State.size()) {
      |        ~~~~~~^~~~~~~~~~~~~~~~~
layer2/ObjectSurface.cpp: In member function ‘virtual void ObjectSurface::invalidate(cRep_t, cRepInv_t, int)’:
layer2/ObjectSurface.cpp:281:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  281 |     for(int a = 0; a < I->State.size(); a++) {
      |                    ~~^~~~~~~~~~~~~~~~~
layer2/ObjectSurface.cpp: In function ‘int ObjectSurfaceInvalidateMapName(ObjectSurface*, const char*, const char*)’:
layer2/ObjectSurface.cpp:311:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  311 |   for(int a = 0; a < I->State.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
layer2/ObjectSurface.cpp: In function ‘ObjectSurface* ObjectSurfaceFromBox(PyMOLGlobals*, ObjectSurface*, ObjectMap*, int, int, float*, float*, float, cIsosurfaceMode, float, pymol::vla<float>&&, cIsosurfaceSide, int)’:
layer2/ObjectSurface.cpp:1029:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 1029 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectSurface.cpp: In function ‘int ObjectSurfaceSetLevel(ObjectSurface*, float, int, int)’:
layer2/ObjectSurface.cpp:1125:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1125 |     for(int a = 0; a < I->State.size(); a++) {
      |                    ~~^~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In member function ‘CExecutive::drag(int, int, int)’:
layer3/Executive.cpp:15471:55: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=]
15471 |                   sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n",
      |                                                       ^~
15472 |                           order_input, (location == -2) ? "upper" : "current");
      |                           ~~~~~~~~~~~                  
layer3/Executive.cpp:15471:26: note: ‘sprintf’ output between 32 and 1057 bytes into a destination of size 1024
15471 |                   sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n",
      |                   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
15472 |                           order_input, (location == -2) ? "upper" : "current");
      |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer5/TestPyMOL.cpp -o build/temp.linux-x86_64-3.9/layer5/TestPyMOL.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘ExecutiveSpectrum(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, float, float, int, int, pymol::zstring_view, int, int, int)’:
layer3/Executive.cpp:4764:24: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
 4764 |                 strncpy(value_s, raw_ptr, sizeof(value_e));
      |                 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer2/ObjectSurface.cpp: In function ‘ObjectSurfaceDump(ObjectSurface*, char const*, int, int)’:
layer2/ObjectSurface.cpp:268:30: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
  268 |         " ObjectSurfaceDump: %s written to %s\n", I->Name, fname ENDFB(I->G);
      |                              ^~
In file included from layer1/Ortho.h:32,
                 from layer1/Scene.h:23,
                 from layer2/ObjectSurface.cpp:35:
layer0/Feedback.h:274:15: note: ‘snprintf’ output 34 or more bytes (assuming 289) into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer2/ObjectSurface.cpp: In member function ‘ObjectSurface::update()’:
layer2/ObjectSurface.cpp:493:43: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=]
  493 |               " ObjectSurface: updating \"%s\".\n", I->Name ENDFB(I->G);
      |                                           ^~
In file included from layer1/Ortho.h:32,
                 from layer1/Scene.h:23,
                 from layer2/ObjectSurface.cpp:35:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 30 and 285 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer5/main.cpp -o build/temp.linux-x86_64-3.9/layer5/main.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘ExecutiveGroup(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, int, int)’:
layer3/Executive.cpp:2259:40: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
 2259 |                   " Executive: adding '%s' to group '%s'.\n", rec.name, rec.group_name
      |                                        ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 36 and 546 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp: In function ‘ExecutiveSetName(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, bool)’:
layer3/Executive.cpp:3523:41: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 222 [-Wformat-truncation=]
 3523 |       " Warning: Invalid characters in '%s' have been replaced or stripped\n",
      |                                         ^~
 3524 |       name ENDFB(G);
      |       ~~~~                               
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 67 and 322 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectVolume.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectVolume.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’:
layer3/Executive.cpp:5070:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 213 [-Wformat-truncation=]
 5070 |             " Executive: skipping unrecognized object \"%s\" of type %d.\n",
      |                                                         ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 56 and 321 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer3/Executive.cpp:5095:58: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 210 [-Wformat-truncation=]
 5095 |           "ExectiveSetNamedEntries-Error: after object \"%s\".\n", rec->name ENDFB(G);
      |                                                          ^~
In file included from layer1/Ortho.h:32,
                 from layer3/ExecutiveDef.h:3,
                 from layer3/Executive.h:29,
                 from layer3/Executive.cpp:38:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 49 and 304 bytes into a destination of size 255
  274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
      |               ^
layer2/ObjectVolume.cpp: In function ‘PyObject* ObjectVolumeAllStatesAsPyList(ObjectVolume*)’:
layer2/ObjectVolume.cpp:127:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  127 |   for(int a = 0; a < I->State.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
layer2/ObjectVolume.cpp: In function ‘int ObjectVolumeAllStatesFromPyList(ObjectVolume*, PyObject*)’:
layer2/ObjectVolume.cpp:248:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  248 |     for(int a = 0; a < I->State.size(); a++) {
      |                    ~~^~~~~~~~~~~~~~~~~
layer2/ObjectVolume.cpp: In function ‘int ObjectVolumeInvalidateMapName(ObjectVolume*, const char*, const char*)’:
layer2/ObjectVolume.cpp:313:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  313 |   for(int a = 0; a < I->State.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::invalidate(cRep_t, cRepInv_t, int)’:
layer2/ObjectVolume.cpp:341:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  341 |     for(a = 0; a < I->State.size(); a++) {
      |                ~~^~~~~~~~~~~~~~~~~
layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::update()’:
layer2/ObjectVolume.cpp:402:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  402 |   for(int a = 0; a < I->State.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
layer2/ObjectVolume.cpp:440:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<float>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  440 |         for (i = 0; i < vs->Ramp.size(); i += 5) {
      |                     ~~^~~~~~~~~~~~~~~~~
layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::render(RenderInfo*)’:
layer2/ObjectVolume.cpp:759:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  759 |   for(a = 0; a < I->State.size(); ++a) {
      |              ~~^~~~~~~~~~~~~~~~~
layer2/ObjectVolume.cpp: In function ‘ObjectVolume* ObjectVolumeFromXtalSym(PyMOLGlobals*, ObjectVolume*, ObjectMap*, CSymmetry*, int, int, float*, float*, float, int, float, float*, int)’:
layer2/ObjectVolume.cpp:1131:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 1131 |   if(I->State.size() <= state) {
      |      ~~~~~~~~~~~~~~~~^~~~~~~~
layer2/ObjectVolume.cpp: In function ‘void ObjectVolumeRecomputeExtent(ObjectVolume*)’:
layer2/ObjectVolume.cpp:1232:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1232 |   for(int a = 0; a < I->State.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer2/ObjectMap.h:25,
                 from layer2/ObjectVolume.h:20,
                 from layer2/ObjectVolume.cpp:29:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = unsigned char; SizeTs = {int, int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = unsigned char; SizeTs = {int, int, int}]’
layer2/ObjectVolume.cpp:534:44:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer2/ObjectVolume.cpp: At global scope:
layer2/ObjectVolume.cpp:657:15: warning: ‘size_t createPreintegrationTexture(PyMOLGlobals*, const float*, int)’ defined but not used [-Wunused-function]
  657 | static size_t createPreintegrationTexture(PyMOLGlobals * G, const float *Table, const int count)
      |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVContext.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVContext.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
ov/src/OVContext.cpp: In function ‘void OVContext_Del(OVContext*)’:
ov/src/OVContext.cpp:21:13: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable]
   21 |     OVHeap *heap = I->heap;
      |             ^~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVHeap.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVHeap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVHeapArray.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVHeapArray.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectVolume.cpp: In function ‘ObjectVolumeStateGetMapState(ObjectVolumeState*)’:
layer2/ObjectVolume.cpp:74:33: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=]
   74 |       "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName
      |                                 ^~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer2/ObjectVolume.cpp:20:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 46 and 301 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVLexicon.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVLexicon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVOneToAny.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVOneToAny.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVOneToOne.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVOneToOne.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVRandom.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVRandom.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepAngle.cpp -o build/temp.linux-x86_64-3.9/layer2/RepAngle.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepCartoon.cpp -o build/temp.linux-x86_64-3.9/layer2/RepCartoon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/ExecutivePython.cpp -o build/temp.linux-x86_64-3.9/layer3/ExecutivePython.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/RepCartoon.cpp: In function ‘Rep* RepCartoonNew(CoordSet*, int)’:
layer2/RepCartoon.cpp:3731:11: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class CCInOut’; use assignment or value-initialization instead [-Wclass-memaccess]
 3731 |     memset(car,      0, sizeof(*car)      * nAtIndex);
      |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer2/RepCartoon.cpp:44:7: note: ‘class CCInOut’ declared here
   44 | class CCInOut {
      |       ^~~~~~~
layer3/ExecutivePython.cpp: In function ‘pymol::Result<> ExecutiveSetRawAlignment(PyMOLGlobals*, pymol::zstring_view, PyObject*, pymol::zstring_view, int, int)’:
layer3/ExecutivePython.cpp:171:23: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare]
  171 |   for(size_t c = 0; c < n_cols; ++c) {
      |                     ~~^~~~~~~~
layer3/ExecutivePython.cpp:180:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare]
  180 |     for(size_t i = 0; i < n_idx; ++i) {
      |                       ~~^~~~~~~
In file included from layer2/CoordSet.h:24,
                 from layer2/RepCartoon.h:21,
                 from layer2/RepCartoon.cpp:27:
layer2/RepCartoon.cpp: In function ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’:
layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
  436 |   int i = *out;
      |           ^~~~
In file included from layer2/ObjectMolecule.h:25,
                 from layer2/CoordSet.h:25,
                 from layer2/RepCartoon.h:21,
                 from layer2/RepCartoon.cpp:27:
layer2/AtomInfo.h:505:5: note: ‘out’ was declared here
  505 |   V out;
      |     ^~~
In file included from layer2/CoordSet.h:24,
                 from layer2/RepCartoon.h:21,
                 from layer2/RepCartoon.cpp:27:
layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
  436 |   int i = *out;
      |           ^~~~
In file included from layer2/ObjectMolecule.h:25,
                 from layer2/CoordSet.h:25,
                 from layer2/RepCartoon.h:21,
                 from layer2/RepCartoon.cpp:27:
layer2/AtomInfo.h:505:5: note: ‘out’ was declared here
  505 |   V out;
      |     ^~~
layer2/RepCartoon.cpp: In function ‘do_ring(PyMOLGlobals*, nuc_acid_data*, int, int*, ObjectMolecule*, CoordSet*, float, CGO*, int, float, int, int, int, float, float, int*, float*, float)’:
layer2/RepCartoon.cpp:1007:65: warning: ‘i’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1007 |                     float ladder_alpha = 1.0f - AtomSettingGetWD(G, ai_i[i], cSetting_cartoon_transparency, 1.0f - alpha);
      |                                                 ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/MaeExportHelpers.cpp -o build/temp.linux-x86_64-3.9/layer3/MaeExportHelpers.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from layer1/Symmetry.h:26,
                 from layer2/CoordSet.h:22,
                 from layer2/RepCartoon.h:21,
                 from layer2/RepCartoon.cpp:27:
layer2/RepCartoon.cpp: In function ‘GenerateRepCartoonCGO(CoordSet*, ObjectMolecule*, nuc_acid_data*, short, float*, int, float*, float*, float*, CCInOut const*, int*, int*, int*, float*, float)’:
layer0/vla.h:118:60: warning: ‘atom_index2’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  118 |   template <typename S> T* operator+(S i) { return m_vla + i; }
      |                                                            ^
layer2/RepCartoon.cpp:1593:20: note: ‘atom_index2’ was declared here
 1593 |   int atom_index1, atom_index2, *s,
      |                    ^~~~~~~~~~~
In file included from layer2/AtomInfo.h:23,
                 from layer3/MaeExportHelpers.h:11,
                 from layer3/MaeExportHelpers.cpp:11:
layer3/MaeExportHelpers.cpp: In function ‘MaeExportGetAtomStyle(PyMOLGlobals*, SeleCoordIterator const&)’:
layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
  436 |   int i = *out;
      |           ^~~~
In file included from layer3/MaeExportHelpers.h:11,
                 from layer3/MaeExportHelpers.cpp:11:
layer2/AtomInfo.h:505:5: note: ‘out’ was declared here
  505 |   V out;
      |     ^~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/MoleculeExporter.cpp -o build/temp.linux-x86_64-3.9/layer3/MoleculeExporter.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepCylBond.cpp -o build/temp.linux-x86_64-3.9/layer2/RepCylBond.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepDihedral.cpp -o build/temp.linux-x86_64-3.9/layer2/RepDihedral.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepDistDash.cpp -o build/temp.linux-x86_64-3.9/layer2/RepDistDash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/MovieScene.cpp -o build/temp.linux-x86_64-3.9/layer3/MovieScene.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/PlugIOManager.cpp -o build/temp.linux-x86_64-3.9/layer3/PlugIOManager.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/PlugIOManager.cpp: In function ‘ObjectMap* PlugIOManagerLoadVol(PyMOLGlobals*, ObjectMap*, const char*, int, int, const char*)’:
layer3/PlugIOManager.cpp:416:34: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  416 |             if(obj->State.size() <= state) {
      |                ~~~~~~~~~~~~~~~~~~^~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer2/ObjectMap.h:25,
                 from layer3/PlugIOManager.h:23,
                 from layer3/PlugIOManager.cpp:24:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’:
layer0/Field.h:114:19:   required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’
layer3/PlugIOManager.cpp:541:21:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer3/PlugIOManager.cpp: In function ‘PlugIOManagerLoad’:
layer3/PlugIOManager.cpp:946:65: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 200 [-Wformat-truncation=]
  946 |         " PlugIOManagerLoad: can't load trajectory into object '%s'\n", obj->Name ENDFB(G);
      |                                                                 ^~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/python3.9/Python.h:25,
                 from layer0/os_python.h:34,
                 from layer3/PlugIOManager.cpp:20:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 58 and 313 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/RingFinder.cpp -o build/temp.linux-x86_64-3.9/layer3/RingFinder.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/RingFinder.cpp: In member function ‘void AbstractRingFinder::recursion(int, int)’:
layer3/RingFinder.cpp:23:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   23 |     } else if (depth < m_indices.size() - 1) {
      |                ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/Seeker.cpp -o build/temp.linux-x86_64-3.9/layer3/Seeker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Seeker.cpp: In function ‘void SeekerRefresh(PyMOLGlobals*, std::vector<CSeqRow>&)’:
layer3/Seeker.cpp:485:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  485 |   for(int b = 0; b < nRow; b++) {
      |                  ~~^~~~~~
layer3/Seeker.cpp: In function ‘void SeekerUpdate(PyMOLGlobals*)’:
layer3/Seeker.cpp:1150:23: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 1150 |           if(row->len < min_pad) {
      |              ~~~~~~~~~^~~~~~~~~
layer3/Seeker.cpp:1186:23: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 1186 |           if(row->len < min_pad) {
      |              ~~~~~~~~~^~~~~~~~~
layer3/Seeker.cpp: In lambda function:
layer3/Seeker.cpp:1248:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
 1248 |             for(int i = 0; i < str_size; i++){
      |                            ~~^~~~~~~~~~
layer3/Seeker.cpp: In function ‘void SeekerUpdate(PyMOLGlobals*)’:
layer3/Seeker.cpp:1930:27: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 1930 |           if(row->ext_len < stop)
      |              ~~~~~~~~~~~~~^~~~~~
In file included from layer0/vla.h:7,
                 from layer1/Symmetry.h:26,
                 from layer1/PyMOLObject.h:27,
                 from layer1/Seq.h:21,
                 from layer3/Seeker.cpp:26:
layer3/Seeker.cpp: In function ‘void SeekerFree(PyMOLGlobals*)’:
layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CSeeker’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
layer3/Seeker.cpp:1964:3: note: in expansion of macro ‘DeleteP’
 1964 |   DeleteP(G->Seeker);
      |   ^~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/Selector.cpp -o build/temp.linux-x86_64-3.9/layer3/Selector.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Selector.cpp: In member function ‘virtual bool SelectorAtomIterator::next()’:
layer3/Selector.cpp:185:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  185 |   if ((++a) >= selector->Table.size())
      |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘bool SelectorIsSelectionDiscrete(PyMOLGlobals*, SelectorID_t, bool)’:
layer3/Selector.cpp:1028:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1028 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorClassifyAtoms(PyMOLGlobals*, int, int, ObjectMolecule*)’:
layer3/Selector.cpp:1082:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1082 |   while(a < I->Table.size()) {
      |         ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:1106:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1106 |       while(a1 < I->Table.size()) {
      |             ~~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘const char* SelectorGetNameFromIndex(PyMOLGlobals*, SelectorID_t)’:
layer3/Selector.cpp:1519:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<SelectionInfoRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1519 |   for(int a = 1; a < I->Info.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’:
layer3/Selector.cpp:1653:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1653 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:1680:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1680 |             while(a1 < I->Table.size()) {
      |                   ~~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:1874:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1874 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                               ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘PyObject* SelectorColorectionGet(PyMOLGlobals*, const char*)’:
layer3/Selector.cpp:2687:18: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2687 |     for(b = 0; b < n_used; b++) {
      |                ~~^~~~~~~~
layer3/Selector.cpp:2703:16: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2703 |   for(a = 0; a < n_used; a++) {
      |              ~~^~~~~~~~
layer3/Selector.cpp:2715:18: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 2715 |     for(b = 0; b < n_used; b++) {
      |                ~~^~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorColorectionApply(PyMOLGlobals*, PyObject*, const char*)’:
layer3/Selector.cpp:2763:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
 2763 |     for(b = 0; b < n_used; b++) {       /* update selection indices */
      |                ~~^~~~~~~~
layer3/Selector.cpp:2768:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 2768 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:2772:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
 2772 |       for(b = 0; b < n_used; b++) {
      |                  ~~^~~~~~~~
layer3/Selector.cpp: In function ‘PyObject* SelectorSecretsAsPyList(PyMOLGlobals*)’:
layer3/Selector.cpp:2873:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<SelectionInfoRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 2873 |   for(int a = 0; a < I->Info.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘PyObject* SelectorAsPyList(PyMOLGlobals*, SelectorID_t)’:
layer3/Selector.cpp:2952:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 2952 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                         ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorCountStates(PyMOLGlobals*, int)’:
layer3/Selector.cpp:3446:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3446 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                         ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorCheckIntersection(PyMOLGlobals*, int, int)’:
layer3/Selector.cpp:3470:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3470 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorCountAtoms(PyMOLGlobals*, int, int)’:
layer3/Selector.cpp:3488:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3488 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘void SelectorSetDeleteFlagOnSelectionInObject(PyMOLGlobals*, int, ObjectMolecule*, signed char)’:
layer3/Selector.cpp:3503:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3503 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int* SelectorGetIndexVLAImpl(PyMOLGlobals*, CSelector*, SelectorID_t)’:
layer3/Selector.cpp:3589:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3589 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                         ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘void SelectorLogSele(PyMOLGlobals*, const char*)’:
layer3/Selector.cpp:3648:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3648 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘ObjectMolecule* SelectorGetSingleObjectMolecule(PyMOLGlobals*, SelectorID_t)’:
layer3/Selector.cpp:3813:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3813 |   for (a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                          ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘ObjectMolecule* SelectorGetFirstObjectMolecule(PyMOLGlobals*, SelectorID_t)’:
layer3/Selector.cpp:3843:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3843 |   for (a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                          ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘ObjectMolecule** SelectorGetObjectMoleculeVLA(PyMOLGlobals*, SelectorID_t)’:
layer3/Selector.cpp:3867:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 3867 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                         ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorSubdivide(PyMOLGlobals*, const char*, SelectorID_t, SelectorID_t, SelectorID_t, SelectorID_t, const char*, const char*, int*)’:
layer3/Selector.cpp:4266:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 4266 |       for(a = 0; a < I->Table.size(); a++)
      |                  ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorGetSeleNCSet(PyMOLGlobals*, SelectorID_t)’:
layer3/Selector.cpp:4570:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 4570 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorGetArrayNCSet(PyMOLGlobals*, const sele_array_t&, int)’:
layer3/Selector.cpp:4600:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 4600 |   for(a = start; a < I->Table.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorMapMaskVDW(PyMOLGlobals*, int, ObjectMapState*, float, int)’:
layer3/Selector.cpp:4761:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 4761 |   for(a = 0; a < I->Table.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorMapGaussian(PyMOLGlobals*, int, ObjectMapState*, float, int, int, int, int, float)’:
layer3/Selector.cpp:5121:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 5121 |   for(a = 0; a < I->Table.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:5165:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 5165 |   for(a = 0; a < I->Table.size(); a++) {
      |              ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorMapCoulomb(PyMOLGlobals*, int, ObjectMapState*, float, int, int, int, float)’:
layer3/Selector.cpp:5373:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 5373 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                         ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorCreateObjectMolecule(PyMOLGlobals*, SelectorID_t, const char*, int, int, int, int, int, int, int)’:
layer3/Selector.cpp:6062:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
 6062 |   if(ob)
      |   ^~
layer3/Selector.cpp:6066:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
 6066 |     SelectorUpdateTable(G, source, -1);
      |     ^~~~~~~~~~~~~~~~~~~
layer3/Selector.cpp:6077:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6077 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In lambda function:
layer3/Selector.cpp:6103:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6103 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                         ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:6133:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6133 |   for(a = cNDummyModels; a < I->Obj.size(); a++) {  /* find bonds wholly contained in the selection */
      |                          ~~^~~~~~~~~~~~~~~
layer3/Selector.cpp:6159:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6159 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:6200:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6200 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:6224:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6224 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)  /* any selected atoms in this state? */
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorEmbedSelection(PyMOLGlobals*, const int*, pymol::zstring_view, ObjectMolecule*, int, int)’:
layer3/Selector.cpp:6660:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6660 |   for(a = start; a < I->Table.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘sele_array_t SelectorSelectFromTagDict(PyMOLGlobals*, const std::unordered_map<int, int>&)’:
layer3/Selector.cpp:6755:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6755 |       for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                 ~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer2/ObjectMap.h:25,
                 from layer3/Selector.h:27,
                 from layer3/Selector.cpp:39:
layer3/Selector.cpp: In function ‘void SelectorUpdateTableSingleObject(PyMOLGlobals*, ObjectMolecule*, int, bool)’:
layer3/Selector.cpp:6997:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 6997 |   assert(c == I->Table.size());
      |          ~~^~~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘sele_array_t SelectorGetSeleArrayForAtomIndices(CSelector*, ObjectMolecule*, const int*, int, bool)’:
layer3/Selector.cpp:7010:26: warning: comparison of integer expressions of different signedness: ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
 7010 |   assert(I->Table.size() == cNDummyAtoms + obj->NAtom);
      |          ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorModulate1(PyMOLGlobals*, EvalElem*, int)’:
layer3/Selector.cpp:7293:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7293 |           for (a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                  ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7316:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7316 |                   for(a = 0; ok && a < I->Table.size(); a++) {
      |                                    ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7379:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7379 |       for(a = 0; a < I->Table.size(); a++) {
      |                  ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7393:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7393 |           for(a = 0; a < I->Table.size(); a++) {
      |                      ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7416:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7416 |                   for(a = 0; ok && a < I->Table.size(); a++) {
      |                                    ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7457:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7457 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorSelect0(PyMOLGlobals*, EvalElem*)’:
layer3/Selector.cpp:7490:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7490 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7501:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7501 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7506:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7506 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7513:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7513 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7517:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7517 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7521:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7521 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7525:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7525 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7529:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7529 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7538:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7538 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7555:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7555 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7560:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7560 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7565:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7565 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7570:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7570 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7575:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7575 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7580:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7580 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7585:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7585 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7589:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7589 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7593:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7593 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7598:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7598 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7603:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7603 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7610:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7610 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7626:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7626 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7632:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7632 |     for(a = 0; a < I->Table.size(); a++) {
      |                ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7641:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7641 |     for(a = 0; a < I->Table.size(); a++) {
      |                ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7653:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7653 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:7673:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 7673 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘pymol::Result<> SelectorSelect1(PyMOLGlobals*, EvalElem*, int)’:
layer3/Selector.cpp:8378:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8378 |           for(a = cNDummyModels; a < I->Obj.size(); a++)
      |                                  ~~^~~~~~~~~~~~~~~
layer3/Selector.cpp:8388:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8388 |             else if(model > I->Obj.size())
      |                     ~~~~~~^~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorSelect2(PyMOLGlobals*, EvalElem*, int)’:
layer3/Selector.cpp:8470:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8470 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8474:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8474 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                               ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8522:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8522 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8533:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8533 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8544:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8544 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8555:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8555 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8570:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8570 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8581:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8581 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8592:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8592 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8603:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8603 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8618:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8618 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8629:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8629 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8640:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8640 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:8651:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 8651 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                                   ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorLogic1(PyMOLGlobals*, EvalElem*, int)’:
layer3/Selector.cpp:9128:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 9128 |           for(a = 0; a < I->Table.size(); a++) {
      |                      ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:9157:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 9157 |                   for(a = 0; a < I->Table.size(); a++) {
      |                              ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘int SelectorOperator22(PyMOLGlobals*, EvalElem*, int)’:
layer3/Selector.cpp:9416:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare]
 9416 |           for(a = 0; a < table_size; a++) {
      |                      ~~^~~~~~~~~~~~
layer3/Selector.cpp:9438:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 9438 |                   for(a = 0; a < I->Table.size(); a++) {
      |                              ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:9468:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 9468 |         for(a = 0; a < I->Table.size(); a++) {
      |                    ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:9473:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 9473 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
      |                             ~~^~~~~~~~~~~~~~~~~
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)’:
layer3/Selector.cpp:9622:17: 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]
 9622 |   while(ok && c < word.size()) {
      |               ~~^~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘DistSet* SelectorGetDistSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, float, float*)’:
layer3/Selector.cpp:10213:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
10213 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘DistSet* SelectorGetAngleSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, int, int, float*, int*)’:
layer3/Selector.cpp:10495:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
10495 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:10519:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
10519 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                             ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp: In function ‘DistSet* SelectorGetDihedralSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, int, int, int, int, float*, int*)’:
layer3/Selector.cpp:10724:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
10724 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                           ~~^~~~~~~~~~~~~~~~~
layer3/Selector.cpp:10801:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
10801 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
      |                               ~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/cassert:44,
                 from layer0/Field.h:24,
                 from layer0/Isosurf.h:24,
                 from layer2/ObjectMap.h:25,
                 from layer3/Selector.h:27,
                 from layer3/Selector.cpp:39:
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int, int}]’:
layer3/Selector.cpp:4800:18:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
  100 |     assert(sizeof...(pos) <= n_dim());
      |            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’:
layer3/Selector.cpp:5309:20:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
layer3/Selector.cpp: In function ‘SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’:
layer3/Selector.cpp:1722:70: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 207 [-Wformat-truncation=]
 1722 |                     " AssignSS-Warning: Ignoring incomplete residue /%s/%s/%s/%d%c ...\n",
      |                                                                      ^~
In file included from /usr/include/stdio.h:900,
                 from /usr/include/c++/11/cstdio:42,
                 from /usr/include/c++/11/ext/string_conversions.h:43,
                 from /usr/include/c++/11/bits/basic_string.h:6608,
                 from /usr/include/c++/11/string:55,
                 from layer3/Selector.cpp:20:
/usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 59 and 324 bytes into a destination of size 255
   54 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   55 |                                    __glibc_objsize (__s), __fmt,
      |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   56 |                                    __va_arg_pack ());
      |                                    ~~~~~~~~~~~~~~~~~
g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/SelectorTmp.cpp -o build/temp.linux-x86_64-3.9/layer3/SelectorTmp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-x86_64-3.9/build/generated/ShaderText.o build/temp.linux-x86_64-3.9/contrib/mmtf-c/mmtf_parser.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/inthash.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o build/temp.linux-x86_64-3.9/layer0/Block.o build/temp.linux-x86_64-3.9/layer0/CarveHelper.o build/temp.linux-x86_64-3.9/layer0/ContourSurf.o build/temp.linux-x86_64-3.9/layer0/Crystal.o build/temp.linux-x86_64-3.9/layer0/Deferred.o build/temp.linux-x86_64-3.9/layer0/Err.o build/temp.linux-x86_64-3.9/layer0/Feedback.o build/temp.linux-x86_64-3.9/layer0/Field.o build/temp.linux-x86_64-3.9/layer0/File.o build/temp.linux-x86_64-3.9/layer0/GenericBuffer.o build/temp.linux-x86_64-3.9/layer0/GraphicsUtil.o build/temp.linux-x86_64-3.9/layer0/Isosurf.o build/temp.linux-x86_64-3.9/layer0/Map.o build/temp.linux-x86_64-3.9/layer0/Match.o build/temp.linux-x86_64-3.9/layer0/Matrix.o build/temp.linux-x86_64-3.9/layer0/MemoryDebug.o build/temp.linux-x86_64-3.9/layer0/MemoryUsage.o build/temp.linux-x86_64-3.9/layer0/MyPNG.o build/temp.linux-x86_64-3.9/layer0/Parse.o build/temp.linux-x86_64-3.9/layer0/Pixmap.o build/temp.linux-x86_64-3.9/layer0/PostProcess.o build/temp.linux-x86_64-3.9/layer0/ShaderMgr.o build/temp.linux-x86_64-3.9/layer0/ShaderPrg.o build/temp.linux-x86_64-3.9/layer0/Sphere.o build/temp.linux-x86_64-3.9/layer0/Tetsurf.o build/temp.linux-x86_64-3.9/layer0/Texture.o build/temp.linux-x86_64-3.9/layer0/Tracker.o build/temp.linux-x86_64-3.9/layer0/Triangle.o build/temp.linux-x86_64-3.9/layer0/Util.o build/temp.linux-x86_64-3.9/layer0/Util2.o build/temp.linux-x86_64-3.9/layer0/Vector.o build/temp.linux-x86_64-3.9/layer0/Word.o build/temp.linux-x86_64-3.9/layer0/ccealignmodule.o build/temp.linux-x86_64-3.9/layer0/marching_cubes.o build/temp.linux-x86_64-3.9/layer0/os_gl.o build/temp.linux-x86_64-3.9/layer1/Basis.o build/temp.linux-x86_64-3.9/layer1/ButMode.o build/temp.linux-x86_64-3.9/layer1/CGO.o build/temp.linux-x86_64-3.9/layer1/COLLADA.o build/temp.linux-x86_64-3.9/layer1/Character.o build/temp.linux-x86_64-3.9/layer1/Color.o build/temp.linux-x86_64-3.9/layer1/Control.o build/temp.linux-x86_64-3.9/layer1/Extrude.o build/temp.linux-x86_64-3.9/layer1/Font.o build/temp.linux-x86_64-3.9/layer1/FontGLUT.o build/temp.linux-x86_64-3.9/layer1/FontGLUT8x13.o build/temp.linux-x86_64-3.9/layer1/FontGLUT9x15.o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel10.o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel12.o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel18.o build/temp.linux-x86_64-3.9/layer1/FontType.o build/temp.linux-x86_64-3.9/layer1/Movie.o build/temp.linux-x86_64-3.9/layer1/Ortho.o build/temp.linux-x86_64-3.9/layer1/P.o build/temp.linux-x86_64-3.9/layer1/PConv.o build/temp.linux-x86_64-3.9/layer1/Picking.o build/temp.linux-x86_64-3.9/layer1/Pop.o build/temp.linux-x86_64-3.9/layer1/PyMOLObject.o build/temp.linux-x86_64-3.9/layer1/Ray.o build/temp.linux-x86_64-3.9/layer1/Rep.o build/temp.linux-x86_64-3.9/layer1/Scene.o build/temp.linux-x86_64-3.9/layer1/SceneMouse.o build/temp.linux-x86_64-3.9/layer1/ScenePicking.o build/temp.linux-x86_64-3.9/layer1/SceneRay.o build/temp.linux-x86_64-3.9/layer1/SceneRender.o build/temp.linux-x86_64-3.9/layer1/ScrollBar.o build/temp.linux-x86_64-3.9/layer1/Seq.o build/temp.linux-x86_64-3.9/layer1/Setting.o build/temp.linux-x86_64-3.9/layer1/Shaker.o build/temp.linux-x86_64-3.9/layer1/SymOp.o build/temp.linux-x86_64-3.9/layer1/SymOpPConv.o build/temp.linux-x86_64-3.9/layer1/SymOpTools.o build/temp.linux-x86_64-3.9/layer1/Symmetry.o build/temp.linux-x86_64-3.9/layer1/Text.o build/temp.linux-x86_64-3.9/layer1/TypeFace.o build/temp.linux-x86_64-3.9/layer1/View.o build/temp.linux-x86_64-3.9/layer1/Wizard.o build/temp.linux-x86_64-3.9/layer2/AssemblyHelpers.o build/temp.linux-x86_64-3.9/layer2/AtomInfo.o build/temp.linux-x86_64-3.9/layer2/AtomInfoHistory.o build/temp.linux-x86_64-3.9/layer2/BondTypeHistory.o build/temp.linux-x86_64-3.9/layer2/CifFile.o build/temp.linux-x86_64-3.9/layer2/CifMoleculeReader.o build/temp.linux-x86_64-3.9/layer2/CoordSet.o build/temp.linux-x86_64-3.9/layer2/DistSet.o build/temp.linux-x86_64-3.9/layer2/GadgetSet.o build/temp.linux-x86_64-3.9/layer2/HydrogenAdder.o build/temp.linux-x86_64-3.9/layer2/MmodTyping.o build/temp.linux-x86_64-3.9/layer2/MmtfMoleculeReader.o build/temp.linux-x86_64-3.9/layer2/Mol2Typing.o build/temp.linux-x86_64-3.9/layer2/MolV3000.o build/temp.linux-x86_64-3.9/layer2/ObjectAlignment.o build/temp.linux-x86_64-3.9/layer2/ObjectCGO.o build/temp.linux-x86_64-3.9/layer2/ObjectCallback.o build/temp.linux-x86_64-3.9/layer2/ObjectDist.o build/temp.linux-x86_64-3.9/layer2/ObjectGadget.o build/temp.linux-x86_64-3.9/layer2/ObjectGadgetRamp.o build/temp.linux-x86_64-3.9/layer2/ObjectGroup.o build/temp.linux-x86_64-3.9/layer2/ObjectMap.o build/temp.linux-x86_64-3.9/layer2/ObjectMesh.o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule.o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule2.o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule3.o build/temp.linux-x86_64-3.9/layer2/ObjectSlice.o build/temp.linux-x86_64-3.9/layer2/ObjectSurface.o build/temp.linux-x86_64-3.9/layer2/ObjectVolume.o build/temp.linux-x86_64-3.9/layer2/RepAngle.o build/temp.linux-x86_64-3.9/layer2/RepCartoon.o build/temp.linux-x86_64-3.9/layer2/RepCylBond.o build/temp.linux-x86_64-3.9/layer2/RepDihedral.o build/temp.linux-x86_64-3.9/layer2/RepDistDash.o build/temp.linux-x86_64-3.9/layer2/RepDistLabel.o build/temp.linux-x86_64-3.9/layer2/RepDot.o build/temp.linux-x86_64-3.9/layer2/RepEllipsoid.o build/temp.linux-x86_64-3.9/layer2/RepLabel.o build/temp.linux-x86_64-3.9/layer2/RepMesh.o build/temp.linux-x86_64-3.9/layer2/RepNonbonded.o build/temp.linux-x86_64-3.9/layer2/RepNonbondedSphere.o build/temp.linux-x86_64-3.9/layer2/RepRibbon.o build/temp.linux-x86_64-3.9/layer2/RepSphere.o build/temp.linux-x86_64-3.9/layer2/RepSphereGenerate.o build/temp.linux-x86_64-3.9/layer2/RepSphereImmediate.o build/temp.linux-x86_64-3.9/layer2/RepSurface.o build/temp.linux-x86_64-3.9/layer2/RepWireBond.o build/temp.linux-x86_64-3.9/layer2/Sculpt.o build/temp.linux-x86_64-3.9/layer2/SculptCache.o build/temp.linux-x86_64-3.9/layer2/SideChainHelper.o build/temp.linux-x86_64-3.9/layer2/VFont.o build/temp.linux-x86_64-3.9/layer3/AtomIterators.o build/temp.linux-x86_64-3.9/layer3/CifDataValueFormatter.o build/temp.linux-x86_64-3.9/layer3/Editor.o build/temp.linux-x86_64-3.9/layer3/Executive.o build/temp.linux-x86_64-3.9/layer3/ExecutivePython.o build/temp.linux-x86_64-3.9/layer3/MaeExportHelpers.o build/temp.linux-x86_64-3.9/layer3/MoleculeExporter.o build/temp.linux-x86_64-3.9/layer3/MovieScene.o build/temp.linux-x86_64-3.9/layer3/PlugIOManager.o build/temp.linux-x86_64-3.9/layer3/RingFinder.o build/temp.linux-x86_64-3.9/layer3/Seeker.o build/temp.linux-x86_64-3.9/layer3/Selector.o build/temp.linux-x86_64-3.9/layer3/SelectorTmp.o build/temp.linux-x86_64-3.9/layer3/SpecRec.o build/temp.linux-x86_64-3.9/layer3/SpecRecSpecial.o build/temp.linux-x86_64-3.9/layer4/Cmd.o build/temp.linux-x86_64-3.9/layer4/Menu.o build/temp.linux-x86_64-3.9/layer4/PopUp.o build/temp.linux-x86_64-3.9/layer5/PyMOL.o build/temp.linux-x86_64-3.9/layer5/TestPyMOL.o build/temp.linux-x86_64-3.9/layer5/main.o build/temp.linux-x86_64-3.9/ov/src/OVContext.o build/temp.linux-x86_64-3.9/ov/src/OVHeap.o build/temp.linux-x86_64-3.9/ov/src/OVHeapArray.o build/temp.linux-x86_64-3.9/ov/src/OVLexicon.o build/temp.linux-x86_64-3.9/ov/src/OVOneToAny.o build/temp.linux-x86_64-3.9/ov/src/OVOneToOne.o build/temp.linux-x86_64-3.9/ov/src/OVRandom.o build/temp.linux-x86_64-3.9/ov/src/ov_utility.o -L/usr/lib64 -L/usr/lib -L/usr/lib64 -lpng -lfreetype -lxml2 -lGL -lGLEW -lnetcdf -o build/lib.linux-x86_64-3.9/pymol/_cmd.cpython-39-x86_64-linux-gnu.so -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:62:16: warning: type ‘struct parm’ violates the C++ One Definition Rule [-Wodr]
   62 | typedef struct parm {
      |                ^
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:59:16: note: a different type is defined in another translation unit
   59 | typedef struct parm {
      |                ^
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:63:8: note: the first difference of corresponding definitions is field ‘title’
   63 |   char title[85];
      |        ^
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:60:17: note: a field with different name is defined in another translation unit
   60 |         char    ititl[81];
      |                 ^
contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:33:3: warning: type ‘struct parmdata’ violates the C++ One Definition Rule [-Wodr]
   33 | } parmdata;
      |   ^
contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:32:3: note: a different type is defined in another translation unit
   32 | } parmdata;
      |   ^
contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:28:15: note: the first difference of corresponding definitions is field ‘prm’
   28 |   parmstruct *prm;
      |               ^
contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:28:13: note: a field with different name is defined in another translation unit
   28 |   ReadPARM *rp;
      |             ^
layer0/Isosurf.cpp:47:16: warning: type ‘struct PointType’ violates the C++ One Definition Rule [-Wodr]
   47 | typedef struct PointType {
      |                ^
layer0/Tetsurf.cpp:46:3: note: a different type is defined in another translation unit
   46 | } PointType;
      |   ^
layer0/Isosurf.cpp:49:7: note: the first difference of corresponding definitions is field ‘NLink’
   49 |   int NLink;
      |       ^
layer0/Tetsurf.cpp:43:9: note: a field with different name is defined in another translation unit
   43 |   float Normal[3];
      |         ^
ov/src/OVOneToAny.cpp:15:3: warning: type ‘struct up_element’ violates the C++ One Definition Rule [-Wodr]
   15 | } up_element;
      |   ^
ov/src/OVOneToOne.cpp:15:3: note: a different type is defined in another translation unit
   15 | } up_element;
      |   ^
ov/src/OVOneToOne.cpp:14:25: note: the first difference of corresponding definitions is field ‘reverse_next’
   14 |   ov_size forward_next, reverse_next;
      |                         ^
ov/src/OVOneToOne.cpp:15:3: note: a type with different number of fields is defined in another translation unit
   15 | } up_element;
      |   ^
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘recreate_command_line’:
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1334:11: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=]
 1334 |   line[0] = '\0';
      |           ^
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1333:26: note: destination object of size 0 allocated by ‘malloc’
 1333 |   line = (char *) malloc (sizeof(char) * len);
      |                          ^
layer3/Executive.cpp: In function ‘ExecutiveManageObject’:
layer3/Executive.cpp:14473:11: warning: ‘strcpy’ writing between 1 and 256 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=]
14473 |     strcpy(rec->name, obj->Name);
      |           ^
layer3/Executive.cpp: In function ‘ExecutiveManageSelection’:
layer3/Executive.cpp:14559:11: warning: ‘strcpy’ writing 1 or more bytes into a region of size 0 overflows the destination [-Wstringop-overflow=]
14559 |     strcpy(rec->name, name);
      |           ^
building 'chempy.champ._champ' extension
creating build/temp.linux-x86_64-3.9/contrib/champ
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/champ.c -o build/temp.linux-x86_64-3.9/contrib/champ/champ.o
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/champ_module.c -o build/temp.linux-x86_64-3.9/contrib/champ/champ_module.o
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/chiral.c -o build/temp.linux-x86_64-3.9/contrib/champ/chiral.o
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/err2.c -o build/temp.linux-x86_64-3.9/contrib/champ/err2.o
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/feedback2.c -o build/temp.linux-x86_64-3.9/contrib/champ/feedback2.o
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/list.c -o build/temp.linux-x86_64-3.9/contrib/champ/list.o
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/os_memory.c -o build/temp.linux-x86_64-3.9/contrib/champ/os_memory.o
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/sort.c -o build/temp.linux-x86_64-3.9/contrib/champ/sort.o
contrib/champ/os_memory.c: In function ‘OSMemoryZero’:
contrib/champ/os_memory.c:55:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
   55 |   while(count&&(((int)p)&mask)) {
      |                  ^
contrib/champ/os_memory.c: In function ‘OSMemoryHashAdd’:
contrib/champ/os_memory.c:137:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
  137 |   hash=(int)rec;
      |        ^
contrib/champ/os_memory.c: In function ‘OSMemoryHashRemove’:
contrib/champ/os_memory.c:150:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
  150 |   hash=(int)rec;
      |        ^
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/strblock.c -o build/temp.linux-x86_64-3.9/contrib/champ/strblock.o
gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/vla.c -o build/temp.linux-x86_64-3.9/contrib/champ/vla.o
gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-x86_64-3.9/contrib/champ/champ.o build/temp.linux-x86_64-3.9/contrib/champ/champ_module.o build/temp.linux-x86_64-3.9/contrib/champ/chiral.o build/temp.linux-x86_64-3.9/contrib/champ/err2.o build/temp.linux-x86_64-3.9/contrib/champ/feedback2.o build/temp.linux-x86_64-3.9/contrib/champ/list.o build/temp.linux-x86_64-3.9/contrib/champ/os_memory.o build/temp.linux-x86_64-3.9/contrib/champ/sort.o build/temp.linux-x86_64-3.9/contrib/champ/strblock.o build/temp.linux-x86_64-3.9/contrib/champ/vla.o -L/usr/lib64 -o build/lib.linux-x86_64-3.9/chempy/champ/_champ.cpython-39-x86_64-linux-gnu.so
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.BiOfGJ
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64
++ dirname /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64
+ cd pymol-open-source-2.5.0
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 '
+ /usr/bin/python3 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64 --use-msgpackc=c++11 --use-openmp=yes --pymol-path=/usr/lib64/python3.9/site-packages/pymol
running install
running install_lib
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.9/chempy/bmin/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.9/chempy/bmin/commands.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.9/chempy/bmin/realtime.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.9/chempy/bmin/state.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.9/chempy/bmin/util.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.9/chempy/champ/_champ.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.9/chempy/champ/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.9/chempy/champ/amber99.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.9/chempy/champ/assign.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.9/chempy/champ/formal_charges.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fast
copying build/lib.linux-x86_64-3.9/chempy/fast/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fast
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fragments
copying build/lib.linux-x86_64-3.9/chempy/fragments/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fragments
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf
copying build/lib.linux-x86_64-3.9/chempy/mmtf/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf
copying build/lib.linux-x86_64-3.9/chempy/mmtf/io.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.9/chempy/tinker/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.9/chempy/tinker/amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.9/chempy/tinker/keyword.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.9/chempy/tinker/realtime.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.9/chempy/tinker/state.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.9/chempy/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/arc.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/bond_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/bond_mmff.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/bonds.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/brick.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/cc1.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/charge.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/cif.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/cpv.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/dictdb.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/gamess1.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/gms.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/hetatm.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/io.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/lst.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/mae.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/map.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/mass.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/mmd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/models.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/mol.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/mol2.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/neighbor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/pdb.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/pkl.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/place.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/protein.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/protein_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/protein_amber99.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/protein_mmff.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/protein_residues.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/sdf.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/solvate.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/water_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/water_residues.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
copying build/lib.linux-x86_64-3.9/chempy/xyz.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/askpartial.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/change_confirm.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/colors.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/create_shortcut.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/fetch.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/help_shortcut.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_aln.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_mae.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_map.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_mtz.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_traj.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/movieexport.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/pluginitem.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/pluginmanager.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/png.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/props.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/render.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/save_molecule.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/save_object.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/shortcut_menu.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.9/pmg_qt/forms/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.9/pmg_qt/syntax/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.9/pmg_qt/syntax/pml.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.9/pmg_qt/syntax/pmlparser.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.9/pmg_qt/syntax/python.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.9/pmg_qt/TextEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/advanced_settings_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/builder.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/file_dialogs.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/keymapping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/mimic_pmg_tk.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/mimic_tk.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/properties_dialog.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/pymol_gl_widget.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/pymol_qt_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/shortcut_menu_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.9/pmg_qt/volume.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/demo
copying build/lib.linux-x86_64-3.9/pmg_tk/skins/demo/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/demo
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal
copying build/lib.linux-x86_64-3.9/pmg_tk/skins/normal/ModalWindow.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal
copying build/lib.linux-x86_64-3.9/pmg_tk/skins/normal/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal
copying build/lib.linux-x86_64-3.9/pmg_tk/skins/normal/builder.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal
copying build/lib.linux-x86_64-3.9/pmg_tk/skins/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/startup
copying build/lib.linux-x86_64-3.9/pmg_tk/startup/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/startup
copying build/lib.linux-x86_64-3.9/pmg_tk/ColorEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.9/pmg_tk/Demo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.9/pmg_tk/PyMOLMapLoad.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.9/pmg_tk/SetEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.9/pmg_tk/Setting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.9/pmg_tk/TextEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.9/pmg_tk/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.9/pmg_tk/volume.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.9/pmg_tk/PMGApp.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/_cmd.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt
copying build/lib.linux-x86_64-3.9/pymol/Qt/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt
copying build/lib.linux-x86_64-3.9/pymol/Qt/utils.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.9/pymol/plugins/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.9/pymol/plugins/installation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.9/pymol/plugins/legacysupport.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.9/pymol/plugins/managergui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.9/pymol/plugins/managergui_qt.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.9/pymol/plugins/repository.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/stereochemistry
copying build/lib.linux-x86_64-3.9/pymol/stereochemistry/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/stereochemistry
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/annotation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/appearance.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/benchmark.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/box.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/charge.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/cleanup.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/command.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/demo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/density.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/distance.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/dragging.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/filter.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/label.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/measurement.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/message.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/mutagenesis.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/nucmutagenesis.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/openvr.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/pair_fit.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/pseudoatom.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/renaming.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/sculpting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/security.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/stereodemo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/wizard/toggle.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.9/pymol/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/__main__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/api.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/callback.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/cgo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/checking.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/cmd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/colorprinting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/colorramping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/commanding.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/completing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/computing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/constants.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/constants_palette.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/controlling.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/creating.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/diagnosing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/editing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/editor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/experimenting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/exporting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/externing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/feedingback.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/fitting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/headering.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/helping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/importing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/internal.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/invocation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/keyboard.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/keywords.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/lazyio.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/locking.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/menu.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/monitoring.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/morphing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/movie.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/moving.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/mpeg_encode.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/parser.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/parsing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/povray.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/preset.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/pymolhttpd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/querying.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/rpc.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/save_shortcut.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/selecting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/selector.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/seqalign.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/setting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/shortcut.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/shortcut_dict.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/shortcut_manager.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/util.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/vfont.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/viewing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/wizarding.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/xray.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying build/lib.linux-x86_64-3.9/pymol/xwin.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2
copying build/lib.linux-x86_64-3.9/pymol2/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2
copying build/lib.linux-x86_64-3.9/pymol2/cmd2.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/commands.py to commands.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/realtime.py to realtime.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/state.py to state.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/util.py to util.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/amber99.py to amber99.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/assign.py to assign.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/formal_charges.py to formal_charges.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fast/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fragments/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf/io.py to io.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/amber.py to amber.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/keyword.py to keyword.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/realtime.py to realtime.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/state.py to state.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/arc.py to arc.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bond_amber.py to bond_amber.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bond_mmff.py to bond_mmff.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bonds.py to bonds.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/brick.py to brick.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/cc1.py to cc1.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/charge.py to charge.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/cif.py to cif.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/cpv.py to cpv.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/dictdb.py to dictdb.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/gamess1.py to gamess1.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/gms.py to gms.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/hetatm.py to hetatm.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/io.py to io.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/lst.py to lst.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mae.py to mae.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/map.py to map.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mass.py to mass.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmd.py to mmd.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/models.py to models.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mol.py to mol.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mol2.py to mol2.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/neighbor.py to neighbor.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/pdb.py to pdb.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/pkl.py to pkl.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/place.py to place.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein.py to protein.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein_amber.py to protein_amber.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein_amber99.py to protein_amber99.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein_mmff.py to protein_mmff.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein_residues.py to protein_residues.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/sdf.py to sdf.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/solvate.py to solvate.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/water_amber.py to water_amber.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/water_residues.py to water_residues.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/xyz.py to xyz.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax/pml.py to pml.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax/pmlparser.py to pmlparser.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax/python.py to python.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/TextEditor.py to TextEditor.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/advanced_settings_gui.py to advanced_settings_gui.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/builder.py to builder.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/file_dialogs.py to file_dialogs.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/keymapping.py to keymapping.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/mimic_pmg_tk.py to mimic_pmg_tk.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/mimic_tk.py to mimic_tk.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/properties_dialog.py to properties_dialog.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/pymol_gl_widget.py to pymol_gl_widget.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/pymol_qt_gui.py to pymol_qt_gui.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/shortcut_menu_gui.py to shortcut_menu_gui.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/volume.py to volume.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/demo/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal/ModalWindow.py to ModalWindow.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal/builder.py to builder.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/startup/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/ColorEditor.py to ColorEditor.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/Demo.py to Demo.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/PyMOLMapLoad.py to PyMOLMapLoad.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/SetEditor.py to SetEditor.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/Setting.py to Setting.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/TextEditor.py to TextEditor.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/volume.py to volume.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/PMGApp.py to PMGApp.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt/utils.py to utils.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/installation.py to installation.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/legacysupport.py to legacysupport.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/managergui.py to managergui.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/managergui_qt.py to managergui_qt.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/repository.py to repository.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/stereochemistry/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/annotation.py to annotation.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/appearance.py to appearance.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/benchmark.py to benchmark.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/box.py to box.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/charge.py to charge.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/cleanup.py to cleanup.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/command.py to command.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/demo.py to demo.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/density.py to density.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/distance.py to distance.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/dragging.py to dragging.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/filter.py to filter.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/label.py to label.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/measurement.py to measurement.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/message.py to message.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/mutagenesis.py to mutagenesis.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/nucmutagenesis.py to nucmutagenesis.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/openvr.py to openvr.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/pair_fit.py to pair_fit.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/pseudoatom.py to pseudoatom.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/renaming.py to renaming.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/sculpting.py to sculpting.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/security.py to security.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/stereodemo.py to stereodemo.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/toggle.py to toggle.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/__main__.py to __main__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/_gui.py to _gui.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/api.py to api.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/callback.py to callback.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/cgo.py to cgo.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/checking.py to checking.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/cmd.py to cmd.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/colorprinting.py to colorprinting.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/colorramping.py to colorramping.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/commanding.py to commanding.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/completing.py to completing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/computing.py to computing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/constants.py to constants.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/constants_palette.py to constants_palette.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/controlling.py to controlling.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/creating.py to creating.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/diagnosing.py to diagnosing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/editing.py to editing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/editor.py to editor.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/experimenting.py to experimenting.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/exporting.py to exporting.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/externing.py to externing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/feedingback.py to feedingback.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/fitting.py to fitting.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/gui.py to gui.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/headering.py to headering.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/helping.py to helping.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/importing.py to importing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/internal.py to internal.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/invocation.py to invocation.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/keyboard.py to keyboard.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/keywords.py to keywords.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/lazyio.py to lazyio.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/locking.py to locking.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/menu.py to menu.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/monitoring.py to monitoring.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/morphing.py to morphing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/movie.py to movie.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/moving.py to moving.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/mpeg_encode.py to mpeg_encode.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/parser.py to parser.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/parsing.py to parsing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/povray.py to povray.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/preset.py to preset.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymolhttpd.py to pymolhttpd.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/querying.py to querying.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/rpc.py to rpc.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/save_shortcut.py to save_shortcut.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/selecting.py to selecting.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/selector.py to selector.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/seqalign.py to seqalign.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/setting.py to setting.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/shortcut.py to shortcut.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/shortcut_dict.py to shortcut_dict.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/shortcut_manager.py to shortcut_manager.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/util.py to util.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/vfont.py to vfont.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/viewing.py to viewing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizarding.py to wizarding.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/xray.py to xray.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/xwin.py to xwin.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2/cmd2.py to cmd2.cpython-39.pyc
writing byte-compilation script '/tmp/tmp35sggsew.py'
/usr/bin/python3 /tmp/tmp35sggsew.py
removing /tmp/tmp35sggsew.py
running install_egg_info
Writing /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol-2.5.0-py3.9.egg-info
copying LICENSE -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol
copying data -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/data
copying test -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test
copying examples -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/examples
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/bin
+ rm -rfv /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/bin/__pycache__
+ echo '#!/bin/sh'
+ echo 'export PYMOL_PATH=/usr/lib64/python3.9/site-packages/pymol'
+ echo 'exec /usr/bin/python3 /usr/lib64/python3.9/site-packages/pymol/__init__.py "$@"'
+ cp -a data examples test /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/examples/devel/link_demo.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/examples/devel/particle01.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/examples/devel/particle02.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test/inp/B03.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test/inp/B05.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test/inp/B11.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test/ref/T01.log
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/examples/devel/link_demo.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/examples/devel/particle01.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/examples/devel/particle02.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/test/inp/B03.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/test/inp/B05.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/test/inp/B11.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/test/ref/T01.log
+ mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/bin
+ install -p -m 755 pymol /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/bin/
+ desktop-file-install --vendor= --dir=/builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/applications /builddir/build/SOURCES/pymol.desktop
+ mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/pixmaps
+ install -p -m 644 /builddir/build/SOURCES/pymol.png /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/pixmaps/
+ mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/metainfo
+ install -p -m 644 /builddir/build/SOURCES/pymol.appdata.xml /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/metainfo/
+ appstream-util validate-relax --nonet /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64//usr/share/metainfo/pymol.appdata.xml
/builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64//usr/share/metainfo/pymol.appdata.xml: OK
+ /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 2.5.0-7.el9 --unique-debug-suffix -2.5.0-7.el9.x86_64 --unique-debug-src-base pymol-2.5.0-7.el9.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/pymol-open-source-2.5.0
extracting debug info from /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/_champ.cpython-39-x86_64-linux-gnu.so
extracting debug info from /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/_cmd.cpython-39-x86_64-linux-gnu.so
original debug info size: 61316kB, size after compression: 44920kB
/usr/bin/sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match.
51230 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0
Bytecompiling .py files below /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib/debug/usr/lib64/python3.9 using python3.9
Bytecompiling .py files below /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/lib64/python3.9 using python3.9
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
*** WARNING: ./usr/src/debug/pymol-2.5.0-7.el9.x86_64/layer3/MaeExportHelpers.h is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-2.5.0-7.el9.x86_64/layer3/MaeExportHelpers.cpp is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-2.5.0-7.el9.x86_64/layer0/GraphicsUtil.h is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-2.5.0-7.el9.x86_64/layer0/GraphicsUtil.cpp is executable but has no shebang, removing executable bit
mangling shebang in /usr/bin/pymol from /bin/sh to #!/usr/bin/sh
Processing files: pymol-2.5.0-7.el9.x86_64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.xYRBbB
+ umask 022
+ cd /builddir/build/BUILD
+ cd pymol-open-source-2.5.0
+ DOCDIR=/builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/doc/pymol
+ export LC_ALL=C
+ LC_ALL=C
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/doc/pymol
+ cp -pr AUTHORS /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/doc/pymol
+ cp -pr DEVELOPERS /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/doc/pymol
+ cp -pr README.md /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/doc/pymol
+ cp -pr ChangeLog /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/doc/pymol
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.YV7ztD
+ umask 022
+ cd /builddir/build/BUILD
+ cd pymol-open-source-2.5.0
+ LICENSEDIR=/builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/licenses/pymol
+ export LC_ALL=C
+ LC_ALL=C
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/licenses/pymol
+ cp -pr LICENSE /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64/usr/share/licenses/pymol
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: PyMOL(x86-64) = 0:2.5.0-7.el9 application() application(pymol.desktop) metainfo() metainfo(pymol.appdata.xml) pymol = 2.5.0-7.el9 pymol(x86-64) = 2.5.0-7.el9 python3.9dist(pymol) = 2.5 python3dist(pymol) = 2.5
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/sh libGL.so.1()(64bit) libGLEW.so.2.2()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libfreetype.so.6()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(OMP_1.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.27)(64bit) libm.so.6(GLIBC_2.29)(64bit) libnetcdf.so.19()(64bit) libpng16.so.16()(64bit) libpng16.so.16(PNG16_0)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.5)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.14)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) libxml2.so.2()(64bit) libxml2.so.2(LIBXML2_2.4.30)(64bit) libxml2.so.2(LIBXML2_2.6.0)(64bit) libxml2.so.2(LIBXML2_2.6.3)(64bit) python(abi) = 3.9 rtld(GNU_HASH)
Processing files: pymol-debugsource-2.5.0-7.el9.x86_64
Provides: pymol-debugsource = 2.5.0-7.el9 pymol-debugsource(x86-64) = 2.5.0-7.el9
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: pymol-debuginfo-2.5.0-7.el9.x86_64
Provides: debuginfo(build-id) = 4a2d6d40ed92082a475dd62feb88e3e19d53e8e0 debuginfo(build-id) = d46197d2641c1f92e5b6ea5c665fbbe09336bda7 pymol-debuginfo = 2.5.0-7.el9 pymol-debuginfo(x86-64) = 2.5.0-7.el9
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: pymol-debugsource(x86-64) = 2.5.0-7.el9
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64
Wrote: /builddir/build/RPMS/pymol-2.5.0-7.el9.x86_64.rpm
Wrote: /builddir/build/RPMS/pymol-debugsource-2.5.0-7.el9.x86_64.rpm
Wrote: /builddir/build/RPMS/pymol-debuginfo-2.5.0-7.el9.x86_64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.D7qRCf
+ umask 022
+ cd /builddir/build/BUILD
+ cd pymol-open-source-2.5.0
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/pymol-2.5.0-7.el9.x86_64
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild pymol-2.5.0-7.el9.src.rpm
Finish: build phase for pymol-2.5.0-7.el9.src.rpm
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/rhel+epel-9-x86_64-1777473279.065068/root/var/log/dnf.rpm.log
/var/lib/mock/rhel+epel-9-x86_64-1777473279.065068/root/var/log/dnf.librepo.log
/var/lib/mock/rhel+epel-9-x86_64-1777473279.065068/root/var/log/dnf.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-2.5.0-7.el9.src.rpm) Config(child) 3 minutes 33 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-debugsource",
            "epoch": null,
            "version": "2.5.0",
            "release": "7.el9",
            "arch": "x86_64"
        },
        {
            "name": "pymol",
            "epoch": null,
            "version": "2.5.0",
            "release": "7.el9",
            "arch": "x86_64"
        },
        {
            "name": "pymol-debuginfo",
            "epoch": null,
            "version": "2.5.0",
            "release": "7.el9",
            "arch": "x86_64"
        },
        {
            "name": "pymol",
            "epoch": null,
            "version": "2.5.0",
            "release": "7.el9",
            "arch": "src"
        }
    ]
}
RPMResults finished