Warning: Permanently added '3.235.91.55' (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/10406371-epel-8-x86_64 --chroot epel-8-x86_64


Version: 1.8
PID: 12693
Logging PID: 12695
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': False,
 'build_id': 10406371,
 'buildroot_pkgs': [],
 'chroot': 'epel-8-x86_64',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': '1e4db6fc8df90fa0c140532569b11ed67b455f9f',
 '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-8-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': '10406371-epel-8-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-qx4p5jtx/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-qx4p5jtx/pymol', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-qx4p5jtx/pymol'...

Running: git checkout 1e4db6fc8df90fa0c140532569b11ed67b455f9f --

cmd: ['git', 'checkout', '1e4db6fc8df90fa0c140532569b11ed67b455f9f', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-qx4p5jtx/pymol
rc: 0
stdout: 
stderr: Note: switching to '1e4db6fc8df90fa0c140532569b11ed67b455f9f'.

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 1e4db6f automatic import of pymol

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-qx4p5jtx/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  17.6M      0 --:--:-- --:--:-- --:--:-- 17.6M
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  1695k      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-qx4p5jtx/pymol/pymol.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-qx4p5jtx/pymol --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1777472477.301044 -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-qx4p5jtx/pymol/pymol.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-qx4p5jtx/pymol --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1777472477.301044 -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-qx4p5jtx/pymol/pymol.spec)  Config(rhel+epel-8-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-8-x86_64-bootstrap-1777472477.301044/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/ubi8/ubi
INFO: Pulling image: registry.access.redhat.com/ubi8/ubi
INFO: Tagging container image as mock-bootstrap-cdbb3e37-1495-44ae-b49d-35700b50bd97
INFO: Checking that 7b87ee2a5285e48ae08d44c2e82291f8b8be607f8ecb7cbfda78394cd9e1bfc7 image matches host's architecture
INFO: Copy content of container 7b87ee2a5285e48ae08d44c2e82291f8b8be607f8ecb7cbfda78394cd9e1bfc7 to /var/lib/mock/rhel+epel-8-x86_64-bootstrap-1777472477.301044/root
INFO: mounting 7b87ee2a5285e48ae08d44c2e82291f8b8be607f8ecb7cbfda78394cd9e1bfc7 with podman image mount
INFO: image 7b87ee2a5285e48ae08d44c2e82291f8b8be607f8ecb7cbfda78394cd9e1bfc7 as /var/lib/containers/storage/overlay/11bc33e7672cb3ce5926fb949361613014e31a33a9312f57106c4ef5c81269af/merged
INFO: umounting image 7b87ee2a5285e48ae08d44c2e82291f8b8be607f8ecb7cbfda78394cd9e1bfc7 (/var/lib/containers/storage/overlay/11bc33e7672cb3ce5926fb949361613014e31a33a9312f57106c4ef5c81269af/merged) with podman image umount
INFO: Removing image mock-bootstrap-cdbb3e37-1495-44ae-b49d-35700b50bd97
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-8-x86_64-1777472477.301044/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-4.14.3-32.el8_10.x86_64
  python3-dnf-4.7.0-21.el8_10.noarch
  python3-dnf-plugins-core-4.0.21-25.el8.noarch
  yum-4.7.0-21.el8_10.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                                 9.1 kB/s |  30 kB     00:03    
Red Hat Enterprise Linux - BaseOS               130 MB/s | 128 MB     00:00    
Red Hat Enterprise Linux - AppStream            102 MB/s |  82 MB     00:00    
Red Hat Enterprise Linux - CodeReady Linux Buil  17 MB/s |  13 MB     00:00    
Extra Packages for Enterprise Linux 8 - x86_64   37 MB/s |  14 MB     00:00    
Dependencies resolved.
===========================================================================================
 Package                       Arch    Version                        Repository       Size
===========================================================================================
Installing:
 bash                          x86_64  4.4.20-6.el8_10                rhel-baseos     1.5 M
 bzip2                         x86_64  1.0.6-28.el8_10                rhel-baseos      60 k
 coreutils                     x86_64  8.30-17.el8_10                 rhel-baseos     1.2 M
 cpio                          x86_64  2.12-11.el8                    rhel-baseos     266 k
 diffutils                     x86_64  3.6-6.el8                      rhel-baseos     359 k
 epel-rpm-macros               noarch  8-43                           epel             27 k
 findutils                     x86_64  1:4.6.0-24.el8_10              rhel-baseos     526 k
 gawk                          x86_64  4.2.1-4.el8                    rhel-baseos     1.1 M
 gcc                           x86_64  8.5.0-28.el8_10                rhel-appstream   23 M
 gcc-c++                       x86_64  8.5.0-28.el8_10                rhel-appstream   12 M
 grep                          x86_64  3.1-6.el8                      rhel-baseos     274 k
 gzip                          x86_64  1.9-13.el8_5                   rhel-baseos     167 k
 info                          x86_64  6.5-7.el8                      rhel-baseos     198 k
 make                          x86_64  1:4.2.1-11.el8                 rhel-baseos     498 k
 patch                         x86_64  2.7.6-11.el8                   rhel-baseos     138 k
 redhat-release                x86_64  8.10-0.3.el8                   rhel-baseos      45 k
 redhat-rpm-config             noarch  131-1.el8                      rhel-appstream   91 k
 rpm-build                     x86_64  4.14.3-32.el8_10               rhel-appstream  175 k
 sed                           x86_64  4.5-5.el8_10                   rhel-baseos     298 k
 tar                           x86_64  2:1.30-11.el8_10               rhel-baseos     838 k
 unzip                         x86_64  6.0-48.el8_10                  rhel-baseos     196 k
 util-linux                    x86_64  2.32.1-48.el8_10               rhel-baseos     2.5 M
 which                         x86_64  2.21-21.el8_10                 rhel-baseos      50 k
 xz                            x86_64  5.2.4-4.el8_6                  rhel-baseos     153 k
Installing dependencies:
 annobin                       x86_64  11.13-2.el8                    rhel-appstream  972 k
 ansible-srpm-macros           noarch  1-12.el8                       epel             21 k
 audit-libs                    x86_64  3.1.2-1.el8_10.1               rhel-baseos     125 k
 basesystem                    noarch  11-5.el8                       rhel-baseos      11 k
 binutils                      x86_64  2.30-128.el8_10                rhel-baseos     5.8 M
 brotli                        x86_64  1.0.6-4.el8_10                 rhel-baseos     322 k
 bzip2-libs                    x86_64  1.0.6-28.el8_10                rhel-baseos      48 k
 ca-certificates               noarch  2025.2.80_v9.0.304-80.2.el8_10 rhel-baseos     1.0 M
 chkconfig                     x86_64  1.19.2-1.el8                   rhel-baseos     199 k
 coreutils-common              x86_64  8.30-17.el8_10                 rhel-baseos     2.0 M
 cpp                           x86_64  8.5.0-28.el8_10                rhel-appstream   10 M
 cracklib                      x86_64  2.9.6-15.el8                   rhel-baseos      93 k
 cracklib-dicts                x86_64  2.9.6-15.el8                   rhel-baseos     4.0 M
 crypto-policies               noarch  20230731-1.git3177e06.el8      rhel-baseos      64 k
 curl                          x86_64  7.61.1-34.el8_10.11            rhel-baseos     354 k
 cyrus-sasl-lib                x86_64  2.1.27-6.el8_5                 rhel-baseos     123 k
 dwz                           x86_64  0.12-10.el8                    rhel-appstream  109 k
 efi-srpm-macros               noarch  3-3.el8                        rhel-appstream   22 k
 elfutils                      x86_64  0.190-2.el8                    rhel-baseos     571 k
 elfutils-default-yama-scope   noarch  0.190-2.el8                    rhel-baseos      53 k
 elfutils-libelf               x86_64  0.190-2.el8                    rhel-baseos     233 k
 elfutils-libs                 x86_64  0.190-2.el8                    rhel-baseos     305 k
 expat                         x86_64  2.5.0-1.el8_10                 rhel-baseos     131 k
 file                          x86_64  5.33-27.el8_10                 rhel-baseos      78 k
 file-libs                     x86_64  5.33-27.el8_10                 rhel-baseos     544 k
 filesystem                    x86_64  3.8-6.el8                      rhel-baseos     1.1 M
 fpc-srpm-macros               noarch  1.3-1.el8                      epel            8.2 k
 gc                            x86_64  7.6.4-3.el8                    rhel-appstream  109 k
 gcc-plugin-annobin            x86_64  8.5.0-28.el8_10                rhel-appstream   37 k
 gdb-headless                  x86_64  8.2-20.el8                     rhel-appstream  3.7 M
 gdbm                          x86_64  1:1.18-2.el8                   rhel-baseos     130 k
 gdbm-libs                     x86_64  1:1.18-2.el8                   rhel-baseos      60 k
 ghc-srpm-macros               noarch  1.4.2-7.el8                    rhel-appstream  9.4 k
 glib2                         x86_64  2.56.4-168.el8_10              rhel-baseos     2.5 M
 glibc                         x86_64  2.28-251.el8_10.31             rhel-baseos     2.2 M
 glibc-all-langpacks           x86_64  2.28-251.el8_10.31             rhel-baseos      26 M
 glibc-common                  x86_64  2.28-251.el8_10.31             rhel-baseos     1.0 M
 glibc-devel                   x86_64  2.28-251.el8_10.31             rhel-baseos      90 k
 glibc-gconv-extra             x86_64  2.28-251.el8_10.31             rhel-baseos     1.6 M
 glibc-headers                 x86_64  2.28-251.el8_10.31             rhel-baseos     495 k
 gmp                           x86_64  1:6.1.2-11.el8                 rhel-baseos     318 k
 gnupg2                        x86_64  2.2.20-4.el8_10                rhel-baseos     2.4 M
 gnutls                        x86_64  3.6.16-8.el8_10.5              rhel-baseos     1.0 M
 go-srpm-macros                noarch  2-17.el8                       rhel-appstream   13 k
 guile                         x86_64  5:2.0.14-7.el8                 rhel-appstream  3.5 M
 ima-evm-utils                 x86_64  1.3.2-12.el8                   rhel-baseos      64 k
 isl                           x86_64  0.16.1-6.el8                   rhel-appstream  841 k
 kernel-headers                x86_64  4.18.0-553.120.1.el8_10        rhel-baseos      12 M
 keyutils-libs                 x86_64  1.5.10-9.el8                   rhel-baseos      34 k
 krb5-libs                     x86_64  1.18.2-32.el8_10               rhel-baseos     846 k
 libacl                        x86_64  2.2.53-3.el8                   rhel-baseos      35 k
 libarchive                    x86_64  3.3.3-7.el8_10                 rhel-baseos     359 k
 libassuan                     x86_64  2.5.1-3.el8                    rhel-baseos      83 k
 libatomic_ops                 x86_64  7.6.2-3.el8                    rhel-appstream   38 k
 libattr                       x86_64  2.4.48-3.el8                   rhel-baseos      27 k
 libbabeltrace                 x86_64  1.5.4-4.el8                    rhel-baseos     200 k
 libblkid                      x86_64  2.32.1-48.el8_10               rhel-baseos     220 k
 libcap                        x86_64  2.48-6.el8_9                   rhel-baseos      74 k
 libcap-ng                     x86_64  0.7.11-1.el8                   rhel-baseos      33 k
 libcom_err                    x86_64  1.45.6-7.el8_10                rhel-baseos      49 k
 libcurl                       x86_64  7.61.1-34.el8_10.11            rhel-baseos     307 k
 libdb                         x86_64  5.3.28-42.el8_4                rhel-baseos     751 k
 libdb-utils                   x86_64  5.3.28-42.el8_4                rhel-baseos     150 k
 libfdisk                      x86_64  2.32.1-48.el8_10               rhel-baseos     253 k
 libffi                        x86_64  3.1-24.el8                     rhel-baseos      38 k
 libgcc                        x86_64  8.5.0-28.el8_10                rhel-baseos      82 k
 libgcrypt                     x86_64  1.8.5-7.el8_6                  rhel-baseos     463 k
 libgomp                       x86_64  8.5.0-28.el8_10                rhel-baseos     209 k
 libgpg-error                  x86_64  1.31-1.el8                     rhel-baseos     242 k
 libidn2                       x86_64  2.2.0-1.el8                    rhel-baseos      94 k
 libipt                        x86_64  1.6.1-8.el8                    rhel-appstream   50 k
 libksba                       x86_64  1.3.5-9.el8_7                  rhel-baseos     134 k
 libmount                      x86_64  2.32.1-48.el8_10               rhel-baseos     236 k
 libmpc                        x86_64  1.1.0-9.1.el8                  rhel-appstream   61 k
 libnghttp2                    x86_64  1.33.0-6.el8_10.2              rhel-baseos      77 k
 libnsl2                       x86_64  1.2.0-2.20180605git4a062cf.el8 rhel-baseos      58 k
 libpkgconf                    x86_64  1.4.2-1.el8                    rhel-baseos      35 k
 libpsl                        x86_64  0.20.2-6.el8                   rhel-baseos      61 k
 libpwquality                  x86_64  1.4.4-6.el8                    rhel-baseos     107 k
 libselinux                    x86_64  2.9-11.el8_10                  rhel-baseos     165 k
 libsemanage                   x86_64  2.9-12.el8_10                  rhel-baseos     169 k
 libsepol                      x86_64  2.9-3.el8                      rhel-baseos     340 k
 libsigsegv                    x86_64  2.11-5.el8                     rhel-baseos      30 k
 libsmartcols                  x86_64  2.32.1-48.el8_10               rhel-baseos     179 k
 libssh                        x86_64  0.9.6-16.el8_10                rhel-baseos     219 k
 libssh-config                 noarch  0.9.6-16.el8_10                rhel-baseos      20 k
 libstdc++                     x86_64  8.5.0-28.el8_10                rhel-baseos     474 k
 libstdc++-devel               x86_64  8.5.0-28.el8_10                rhel-appstream  2.1 M
 libtasn1                      x86_64  4.13-5.el8_10                  rhel-baseos      77 k
 libtirpc                      x86_64  1.1.4-12.el8_10                rhel-baseos     114 k
 libtool-ltdl                  x86_64  2.4.6-25.el8                   rhel-baseos      58 k
 libunistring                  x86_64  0.9.9-3.el8                    rhel-baseos     422 k
 libusbx                       x86_64  1.0.23-4.el8                   rhel-baseos      74 k
 libutempter                   x86_64  1.1.6-14.el8                   rhel-baseos      32 k
 libuuid                       x86_64  2.32.1-48.el8_10               rhel-baseos      99 k
 libverto                      x86_64  0.3.2-2.el8                    rhel-baseos      24 k
 libxcrypt                     x86_64  4.1.1-6.el8                    rhel-baseos      73 k
 libxcrypt-devel               x86_64  4.1.1-6.el8                    rhel-baseos      25 k
 libxml2                       x86_64  2.9.7-21.el8_10.4              rhel-baseos     697 k
 libzstd                       x86_64  1.4.4-1.el8                    rhel-baseos     266 k
 lua-libs                      x86_64  5.3.4-12.el8                   rhel-baseos     118 k
 lua-srpm-macros               noarch  1-13.el8                       epel            9.2 k
 lz4-libs                      x86_64  1.8.3-5.el8_10                 rhel-baseos      66 k
 mpfr                          x86_64  3.1.6-1.el8                    rhel-baseos     221 k
 ncurses                       x86_64  6.1-10.20180224.el8            rhel-baseos     387 k
 ncurses-base                  noarch  6.1-10.20180224.el8            rhel-baseos      81 k
 ncurses-libs                  x86_64  6.1-10.20180224.el8            rhel-baseos     334 k
 nettle                        x86_64  3.4.1-7.el8                    rhel-baseos     301 k
 npth                          x86_64  1.5-4.el8                      rhel-baseos      26 k
 ocaml-srpm-macros             noarch  5-4.el8                        rhel-appstream  9.5 k
 openblas-srpm-macros          noarch  2-2.el8                        rhel-appstream  8.0 k
 openldap                      x86_64  2.4.46-21.el8_10               rhel-baseos     354 k
 openssl-libs                  x86_64  1:1.1.1k-15.el8_6              rhel-baseos     1.5 M
 p11-kit                       x86_64  0.23.22-2.el8                  rhel-baseos     327 k
 p11-kit-trust                 x86_64  0.23.22-2.el8                  rhel-baseos     138 k
 pam                           x86_64  1.3.1-39.el8_10                rhel-baseos     749 k
 pcre                          x86_64  8.42-6.el8                     rhel-baseos     211 k
 pcre2                         x86_64  10.32-3.el8_6                  rhel-baseos     247 k
 perl-srpm-macros              noarch  1-25.el8                       rhel-appstream   11 k
 pkgconf                       x86_64  1.4.2-1.el8                    rhel-baseos      38 k
 pkgconf-m4                    noarch  1.4.2-1.el8                    rhel-baseos      17 k
 pkgconf-pkg-config            x86_64  1.4.2-1.el8                    rhel-baseos      15 k
 platform-python               x86_64  3.6.8-76.el8_10                rhel-baseos      88 k
 platform-python-setuptools    noarch  39.2.0-9.el8_10                rhel-baseos     633 k
 popt                          x86_64  1.18-1.el8                     rhel-baseos      61 k
 publicsuffix-list-dafsa       noarch  20180723-1.el8                 rhel-baseos      56 k
 python-rpm-macros             noarch  3-45.el8                       rhel-appstream   16 k
 python-srpm-macros            noarch  3-45.el8                       rhel-appstream   16 k
 python3-libs                  x86_64  3.6.8-76.el8_10                rhel-baseos     7.9 M
 python3-pip-wheel             noarch  9.0.3-24.el8                   rhel-baseos     866 k
 python3-rpm-macros            noarch  3-45.el8                       rhel-appstream   15 k
 python3-setuptools-wheel      noarch  39.2.0-9.el8_10                rhel-baseos     289 k
 qt5-srpm-macros               noarch  5.15.3-1.el8                   rhel-appstream   11 k
 readline                      x86_64  7.0-10.el8                     rhel-baseos     199 k
 rpm                           x86_64  4.14.3-32.el8_10               rhel-baseos     545 k
 rpm-build-libs                x86_64  4.14.3-32.el8_10               rhel-baseos     158 k
 rpm-libs                      x86_64  4.14.3-32.el8_10               rhel-baseos     348 k
 rust-srpm-macros              noarch  5-2.el8                        rhel-appstream  9.3 k
 setup                         noarch  2.12.2-9.el8                   rhel-baseos     181 k
 shadow-utils                  x86_64  2:4.6-23.el8_10                rhel-baseos     1.2 M
 sqlite-libs                   x86_64  3.26.0-20.el8_10               rhel-baseos     580 k
 systemd-libs                  x86_64  239-82.el8_10.16               rhel-baseos     1.1 M
 tpm2-tss                      x86_64  2.3.2-6.el8                    rhel-baseos     275 k
 tzdata                        noarch  2026a-1.el8                    rhel-baseos     549 k
 xz-libs                       x86_64  5.2.4-4.el8_6                  rhel-baseos      94 k
 zip                           x86_64  3.0-23.el8                     rhel-baseos     270 k
 zlib                          x86_64  1.2.11-25.el8                  rhel-baseos     103 k
 zstd                          x86_64  1.4.4-1.el8                    rhel-appstream  393 k

Transaction Summary
===========================================================================================
Install  172 Packages

Total download size: 164 M
Installed size: 814 M
Downloading Packages:
(1/172): grep-3.1-6.el8.x86_64.rpm              5.4 MB/s | 274 kB     00:00    
(2/172): libassuan-2.5.1-3.el8.x86_64.rpm       2.7 MB/s |  83 kB     00:00    
(3/172): cracklib-2.9.6-15.el8.x86_64.rpm       663 kB/s |  93 kB     00:00    
(4/172): libattr-2.4.48-3.el8.x86_64.rpm        189 kB/s |  27 kB     00:00    
(5/172): cracklib-dicts-2.9.6-15.el8.x86_64.rpm  17 MB/s | 4.0 MB     00:00    
(6/172): libunistring-0.9.9-3.el8.x86_64.rpm    6.8 MB/s | 422 kB     00:00    
(7/172): libsigsegv-2.11-5.el8.x86_64.rpm       107 kB/s |  30 kB     00:00    
(8/172): libutempter-1.1.6-14.el8.x86_64.rpm    146 kB/s |  32 kB     00:00    
(9/172): npth-1.5-4.el8.x86_64.rpm              593 kB/s |  26 kB     00:00    
(10/172): pkgconf-1.4.2-1.el8.x86_64.rpm        401 kB/s |  38 kB     00:00    
(11/172): readline-7.0-10.el8.x86_64.rpm        4.9 MB/s | 199 kB     00:00    
(12/172): pkgconf-pkg-config-1.4.2-1.el8.x86_64 120 kB/s |  15 kB     00:00    
(13/172): zip-3.0-23.el8.x86_64.rpm             5.6 MB/s | 270 kB     00:00    
(14/172): mpfr-3.1.6-1.el8.x86_64.rpm           597 kB/s | 221 kB     00:00    
(15/172): libgpg-error-1.31-1.el8.x86_64.rpm    4.6 MB/s | 242 kB     00:00    
(16/172): libnsl2-1.2.0-2.20180605git4a062cf.el 1.5 MB/s |  58 kB     00:00    
(17/172): basesystem-11-5.el8.noarch.rpm         88 kB/s |  11 kB     00:00    
(18/172): pkgconf-m4-1.4.2-1.el8.noarch.rpm     236 kB/s |  17 kB     00:00    
(19/172): libpkgconf-1.4.2-1.el8.x86_64.rpm     237 kB/s |  35 kB     00:00    
(20/172): diffutils-3.6-6.el8.x86_64.rpm        8.4 MB/s | 359 kB     00:00    
(21/172): libidn2-2.2.0-1.el8.x86_64.rpm        2.1 MB/s |  94 kB     00:00    
(22/172): publicsuffix-list-dafsa-20180723-1.el 319 kB/s |  56 kB     00:00    
(23/172): libusbx-1.0.23-4.el8.x86_64.rpm       1.3 MB/s |  74 kB     00:00    
(24/172): patch-2.7.6-11.el8.x86_64.rpm         953 kB/s | 138 kB     00:00    
(25/172): libzstd-1.4.4-1.el8.x86_64.rpm        3.0 MB/s | 266 kB     00:00    
(26/172): libpsl-0.20.2-6.el8.x86_64.rpm        1.2 MB/s |  61 kB     00:00    
(27/172): popt-1.18-1.el8.x86_64.rpm            1.4 MB/s |  61 kB     00:00    
(28/172): ima-evm-utils-1.3.2-12.el8.x86_64.rpm 1.6 MB/s |  64 kB     00:00    
(29/172): libcap-ng-0.7.11-1.el8.x86_64.rpm     748 kB/s |  33 kB     00:00    
(30/172): libtool-ltdl-2.4.6-25.el8.x86_64.rpm  107 kB/s |  58 kB     00:00    
(31/172): libdb-5.3.28-42.el8_4.x86_64.rpm       16 MB/s | 751 kB     00:00    
(32/172): filesystem-3.8-6.el8.x86_64.rpm       8.0 MB/s | 1.1 MB     00:00    
(33/172): libxcrypt-4.1.1-6.el8.x86_64.rpm      1.6 MB/s |  73 kB     00:00    
(34/172): libdb-utils-5.3.28-42.el8_4.x86_64.rp 2.1 MB/s | 150 kB     00:00    
(35/172): libxcrypt-devel-4.1.1-6.el8.x86_64.rp 664 kB/s |  25 kB     00:00    
(36/172): pcre-8.42-6.el8.x86_64.rpm            8.0 MB/s | 211 kB     00:00    
(37/172): nettle-3.4.1-7.el8.x86_64.rpm         7.1 MB/s | 301 kB     00:00    
(38/172): gzip-1.9-13.el8_5.x86_64.rpm          6.1 MB/s | 167 kB     00:00    
(39/172): cyrus-sasl-lib-2.1.27-6.el8_5.x86_64. 2.9 MB/s | 123 kB     00:00    
(40/172): keyutils-libs-1.5.10-9.el8.x86_64.rpm 754 kB/s |  34 kB     00:00    
(41/172): libsepol-2.9-3.el8.x86_64.rpm         9.3 MB/s | 340 kB     00:00    
(42/172): gawk-4.2.1-4.el8.x86_64.rpm            37 MB/s | 1.1 MB     00:00    
(43/172): cpio-2.12-11.el8.x86_64.rpm           6.0 MB/s | 266 kB     00:00    
(44/172): info-6.5-7.el8.x86_64.rpm             7.0 MB/s | 198 kB     00:00    
(45/172): make-4.2.1-11.el8.x86_64.rpm          8.6 MB/s | 498 kB     00:00    
(46/172): lua-libs-5.3.4-12.el8.x86_64.rpm      988 kB/s | 118 kB     00:00    
(47/172): gdbm-libs-1.18-2.el8.x86_64.rpm       1.5 MB/s |  60 kB     00:00    
(48/172): xz-5.2.4-4.el8_6.x86_64.rpm           1.5 MB/s | 153 kB     00:00    
(49/172): libgcrypt-1.8.5-7.el8_6.x86_64.rpm     17 MB/s | 463 kB     00:00    
(50/172): libbabeltrace-1.5.4-4.el8.x86_64.rpm  1.9 MB/s | 200 kB     00:00    
(51/172): xz-libs-5.2.4-4.el8_6.x86_64.rpm      496 kB/s |  94 kB     00:00    
(52/172): libverto-0.3.2-2.el8.x86_64.rpm       177 kB/s |  24 kB     00:00    
(53/172): gdbm-1.18-2.el8.x86_64.rpm            2.5 MB/s | 130 kB     00:00    
(54/172): pcre2-10.32-3.el8_6.x86_64.rpm        2.1 MB/s | 247 kB     00:00    
(55/172): libksba-1.3.5-9.el8_7.x86_64.rpm      3.5 MB/s | 134 kB     00:00    
(56/172): libffi-3.1-24.el8.x86_64.rpm          940 kB/s |  38 kB     00:00    
(57/172): setup-2.12.2-9.el8.noarch.rpm         6.6 MB/s | 181 kB     00:00    
(58/172): chkconfig-1.19.2-1.el8.x86_64.rpm     3.9 MB/s | 199 kB     00:00    
(59/172): libpwquality-1.4.4-6.el8.x86_64.rpm   1.2 MB/s | 107 kB     00:00    
(60/172): crypto-policies-20230731-1.git3177e06 1.1 MB/s |  64 kB     00:00    
(61/172): libcap-2.48-6.el8_9.x86_64.rpm        1.7 MB/s |  74 kB     00:00    
(62/172): ncurses-libs-6.1-10.20180224.el8.x86_ 3.2 MB/s | 334 kB     00:00    
(63/172): ncurses-base-6.1-10.20180224.el8.noar 1.3 MB/s |  81 kB     00:00    
(64/172): ncurses-6.1-10.20180224.el8.x86_64.rp 3.7 MB/s | 387 kB     00:00    
(65/172): zlib-1.2.11-25.el8.x86_64.rpm         2.5 MB/s | 103 kB     00:00    
(66/172): elfutils-libelf-0.190-2.el8.x86_64.rp 5.3 MB/s | 233 kB     00:00    
(67/172): elfutils-libs-0.190-2.el8.x86_64.rpm  6.7 MB/s | 305 kB     00:00    
(68/172): elfutils-0.190-2.el8.x86_64.rpm       4.8 MB/s | 571 kB     00:00    
(69/172): elfutils-default-yama-scope-0.190-2.e 379 kB/s |  53 kB     00:00    
(70/172): gmp-6.1.2-11.el8.x86_64.rpm           4.9 MB/s | 318 kB     00:00    
(71/172): libacl-2.2.53-3.el8.x86_64.rpm        450 kB/s |  35 kB     00:00    
(72/172): python3-pip-wheel-9.0.3-24.el8.noarch  15 MB/s | 866 kB     00:00    
(73/172): p11-kit-0.23.22-2.el8.x86_64.rpm      2.5 MB/s | 327 kB     00:00    
(74/172): p11-kit-trust-0.23.22-2.el8.x86_64.rp 1.1 MB/s | 138 kB     00:00    
(75/172): libtirpc-1.1.4-12.el8_10.x86_64.rpm   4.2 MB/s | 114 kB     00:00    
(76/172): bzip2-1.0.6-28.el8_10.x86_64.rpm      2.2 MB/s |  60 kB     00:00    
(77/172): redhat-release-8.10-0.3.el8.x86_64.rp 1.1 MB/s |  45 kB     00:00    
(78/172): tpm2-tss-2.3.2-6.el8.x86_64.rpm       3.0 MB/s | 275 kB     00:00    
(79/172): bzip2-libs-1.0.6-28.el8_10.x86_64.rpm 1.9 MB/s |  48 kB     00:00    
(80/172): rpm-4.14.3-32.el8_10.x86_64.rpm        12 MB/s | 545 kB     00:00    
(81/172): rpm-build-libs-4.14.3-32.el8_10.x86_6 2.3 MB/s | 158 kB     00:00    
(82/172): rpm-libs-4.14.3-32.el8_10.x86_64.rpm  4.9 MB/s | 348 kB     00:00    
(83/172): openldap-2.4.46-21.el8_10.x86_64.rpm  5.0 MB/s | 354 kB     00:00    
(84/172): libtasn1-4.13-5.el8_10.x86_64.rpm     1.7 MB/s |  77 kB     00:00    
(85/172): libsemanage-2.9-12.el8_10.x86_64.rpm  3.3 MB/s | 169 kB     00:00    
(86/172): unzip-6.0-48.el8_10.x86_64.rpm        2.5 MB/s | 196 kB     00:00    
(87/172): audit-libs-3.1.2-1.el8_10.1.x86_64.rp 1.5 MB/s | 125 kB     00:00    
(88/172): lz4-libs-1.8.3-5.el8_10.x86_64.rpm    1.1 MB/s |  66 kB     00:00    
(89/172): platform-python-setuptools-39.2.0-9.e  14 MB/s | 633 kB     00:00    
(90/172): krb5-libs-1.18.2-32.el8_10.x86_64.rpm 3.9 MB/s | 846 kB     00:00    
(91/172): python3-setuptools-wheel-39.2.0-9.el8 4.9 MB/s | 289 kB     00:00    
(92/172): bash-4.4.20-6.el8_10.x86_64.rpm        18 MB/s | 1.5 MB     00:00    
(93/172): which-2.21-21.el8_10.x86_64.rpm       619 kB/s |  50 kB     00:00    
(94/172): tar-1.30-11.el8_10.x86_64.rpm          19 MB/s | 838 kB     00:00    
(95/172): libgomp-8.5.0-28.el8_10.x86_64.rpm    3.5 MB/s | 209 kB     00:00    
(96/172): libgcc-8.5.0-28.el8_10.x86_64.rpm     898 kB/s |  82 kB     00:00    
(97/172): sqlite-libs-3.26.0-20.el8_10.x86_64.r 2.5 MB/s | 580 kB     00:00    
(98/172): libstdc++-8.5.0-28.el8_10.x86_64.rpm   11 MB/s | 474 kB     00:00    
(99/172): libcom_err-1.45.6-7.el8_10.x86_64.rpm 1.6 MB/s |  49 kB     00:00    
(100/172): file-5.33-27.el8_10.x86_64.rpm       822 kB/s |  78 kB     00:00    
(101/172): file-libs-5.33-27.el8_10.x86_64.rpm  6.8 MB/s | 544 kB     00:00    
(102/172): ca-certificates-2025.2.80_v9.0.304-8  21 MB/s | 1.0 MB     00:00    
(103/172): expat-2.5.0-1.el8_10.x86_64.rpm      2.9 MB/s | 131 kB     00:00    
(104/172): libssh-0.9.6-16.el8_10.x86_64.rpm    4.2 MB/s | 219 kB     00:00    
(105/172): pam-1.3.1-39.el8_10.x86_64.rpm        16 MB/s | 749 kB     00:00    
(106/172): libssh-config-0.9.6-16.el8_10.noarch 220 kB/s |  20 kB     00:00    
(107/172): findutils-4.6.0-24.el8_10.x86_64.rpm  11 MB/s | 526 kB     00:00    
(108/172): shadow-utils-4.6-23.el8_10.x86_64.rp  40 MB/s | 1.2 MB     00:00    
(109/172): binutils-2.30-128.el8_10.x86_64.rpm   56 MB/s | 5.8 MB     00:00    
(110/172): glib2-2.56.4-168.el8_10.x86_64.rpm    35 MB/s | 2.5 MB     00:00    
(111/172): gnupg2-2.2.20-4.el8_10.x86_64.rpm     28 MB/s | 2.4 MB     00:00    
(112/172): libfdisk-2.32.1-48.el8_10.x86_64.rpm 8.6 MB/s | 253 kB     00:00    
(113/172): libsmartcols-2.32.1-48.el8_10.x86_64 6.7 MB/s | 179 kB     00:00    
(114/172): libmount-2.32.1-48.el8_10.x86_64.rpm 2.3 MB/s | 236 kB     00:00    
(115/172): libuuid-2.32.1-48.el8_10.x86_64.rpm  1.2 MB/s |  99 kB     00:00    
(116/172): brotli-1.0.6-4.el8_10.x86_64.rpm     9.7 MB/s | 322 kB     00:00    
(117/172): util-linux-2.32.1-48.el8_10.x86_64.r  34 MB/s | 2.5 MB     00:00    
(118/172): libselinux-2.9-11.el8_10.x86_64.rpm  5.7 MB/s | 165 kB     00:00    
(119/172): openssl-libs-1.1.1k-15.el8_6.x86_64.  31 MB/s | 1.5 MB     00:00    
(120/172): libblkid-2.32.1-48.el8_10.x86_64.rpm 785 kB/s | 220 kB     00:00    
(121/172): glibc-2.28-251.el8_10.31.x86_64.rpm   45 MB/s | 2.2 MB     00:00    
(122/172): glibc-common-2.28-251.el8_10.31.x86_  14 MB/s | 1.0 MB     00:00    
(123/172): glibc-all-langpacks-2.28-251.el8_10. 103 MB/s |  26 MB     00:00    
(124/172): glibc-devel-2.28-251.el8_10.31.x86_6 257 kB/s |  90 kB     00:00    
(125/172): glibc-gconv-extra-2.28-251.el8_10.31 5.0 MB/s | 1.6 MB     00:00    
(126/172): tzdata-2026a-1.el8.noarch.rpm        9.3 MB/s | 549 kB     00:00    
(127/172): glibc-headers-2.28-251.el8_10.31.x86 2.4 MB/s | 495 kB     00:00    
(128/172): coreutils-8.30-17.el8_10.x86_64.rpm   17 MB/s | 1.2 MB     00:00    
(129/172): coreutils-common-8.30-17.el8_10.x86_  34 MB/s | 2.0 MB     00:00    
(130/172): libcurl-7.61.1-34.el8_10.11.x86_64.r 4.4 MB/s | 307 kB     00:00    
(131/172): curl-7.61.1-34.el8_10.11.x86_64.rpm  2.8 MB/s | 354 kB     00:00    
(132/172): gnutls-3.6.16-8.el8_10.5.x86_64.rpm  6.8 MB/s | 1.0 MB     00:00    
(133/172): libarchive-3.3.3-7.el8_10.x86_64.rpm 4.2 MB/s | 359 kB     00:00    
(134/172): libnghttp2-1.33.0-6.el8_10.2.x86_64. 544 kB/s |  77 kB     00:00    
(135/172): systemd-libs-239-82.el8_10.16.x86_64  35 MB/s | 1.1 MB     00:00    
(136/172): sed-4.5-5.el8_10.x86_64.rpm          1.3 MB/s | 298 kB     00:00    
(137/172): platform-python-3.6.8-76.el8_10.x86_ 1.2 MB/s |  88 kB     00:00    
(138/172): python3-libs-3.6.8-76.el8_10.x86_64.  80 MB/s | 7.9 MB     00:00    
(139/172): libxml2-2.9.7-21.el8_10.4.x86_64.rpm 7.3 MB/s | 697 kB     00:00    
(140/172): ghc-srpm-macros-1.4.2-7.el8.noarch.r 223 kB/s | 9.4 kB     00:00    
(141/172): ocaml-srpm-macros-5-4.el8.noarch.rpm 144 kB/s | 9.5 kB     00:00    
(142/172): kernel-headers-4.18.0-553.120.1.el8_  38 MB/s |  12 MB     00:00    
(143/172): openblas-srpm-macros-2-2.el8.noarch. 122 kB/s | 8.0 kB     00:00    
(144/172): rust-srpm-macros-5-2.el8.noarch.rpm  223 kB/s | 9.3 kB     00:00    
(145/172): perl-srpm-macros-1-25.el8.noarch.rpm 107 kB/s |  11 kB     00:00    
(146/172): libatomic_ops-7.6.2-3.el8.x86_64.rpm 591 kB/s |  38 kB     00:00    
(147/172): isl-0.16.1-6.el8.x86_64.rpm           19 MB/s | 841 kB     00:00    
(148/172): gc-7.6.4-3.el8.x86_64.rpm            867 kB/s | 109 kB     00:00    
(149/172): libipt-1.6.1-8.el8.x86_64.rpm        691 kB/s |  50 kB     00:00    
(150/172): guile-2.0.14-7.el8.x86_64.rpm         29 MB/s | 3.5 MB     00:00    
(151/172): libmpc-1.1.0-9.1.el8.x86_64.rpm      1.2 MB/s |  61 kB     00:00    
(152/172): efi-srpm-macros-3-3.el8.noarch.rpm   260 kB/s |  22 kB     00:00    
(153/172): go-srpm-macros-2-17.el8.noarch.rpm   259 kB/s |  13 kB     00:00    
(154/172): dwz-0.12-10.el8.x86_64.rpm           3.8 MB/s | 109 kB     00:00    
(155/172): zstd-1.4.4-1.el8.x86_64.rpm          2.6 MB/s | 393 kB     00:00    
(156/172): qt5-srpm-macros-5.15.3-1.el8.noarch. 269 kB/s |  11 kB     00:00    
(157/172): python3-rpm-macros-3-45.el8.noarch.r 363 kB/s |  15 kB     00:00    
(158/172): python-rpm-macros-3-45.el8.noarch.rp 203 kB/s |  16 kB     00:00    
(159/172): python-srpm-macros-3-45.el8.noarch.r 390 kB/s |  16 kB     00:00    
(160/172): annobin-11.13-2.el8.x86_64.rpm        19 MB/s | 972 kB     00:00    
(161/172): rpm-build-4.14.3-32.el8_10.x86_64.rp 6.7 MB/s | 175 kB     00:00    
(162/172): redhat-rpm-config-131-1.el8.noarch.r 535 kB/s |  91 kB     00:00    
(163/172): cpp-8.5.0-28.el8_10.x86_64.rpm       120 MB/s |  10 MB     00:00    
(164/172): gdb-headless-8.2-20.el8.x86_64.rpm    23 MB/s | 3.7 MB     00:00    
(165/172): gcc-c++-8.5.0-28.el8_10.x86_64.rpm   147 MB/s |  12 MB     00:00    
(166/172): libstdc++-devel-8.5.0-28.el8_10.x86_  59 MB/s | 2.1 MB     00:00    
(167/172): ansible-srpm-macros-1-12.el8.noarch. 662 kB/s |  21 kB     00:00    
(168/172): epel-rpm-macros-8-43.noarch.rpm      9.7 MB/s |  27 kB     00:00    
(169/172): fpc-srpm-macros-1.3-1.el8.noarch.rpm 3.7 MB/s | 8.2 kB     00:00    
(170/172): lua-srpm-macros-1-13.el8.noarch.rpm  3.9 MB/s | 9.2 kB     00:00    
(171/172): gcc-plugin-annobin-8.5.0-28.el8_10.x 235 kB/s |  37 kB     00:00    
(172/172): gcc-8.5.0-28.el8_10.x86_64.rpm        68 MB/s |  23 MB     00:00    
--------------------------------------------------------------------------------
Total                                            30 MB/s | 164 MB     00:05     
Red Hat Enterprise Linux - BaseOS               3.1 MB/s | 3.1 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-redhat8-release
Key imported successfully
Importing GPG key 0x2FA658E0:
 Userid     : "Red Hat, Inc. (auxiliary key) <security@redhat.com>"
 Fingerprint: 43A6 E49C 4A38 F4BE 9ABF 2A53 4568 9C88 2FA6 58E0
 From       : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat8-release
Key imported successfully
Extra Packages for Enterprise Linux 8 - x86_64  1.6 MB/s | 1.6 kB     00:00    
Importing GPG key 0x2F86D6A1:
 Userid     : "Fedora EPEL (8) <epel@fedoraproject.org>"
 Fingerprint: 94E2 79EB 8D8F 25B2 1810 ADF1 21EA 45AB 2F86 D6A1
 From       : /usr/share/distribution-gpg-keys/epel/RPM-GPG-KEY-EPEL-8
Key imported successfully
Running transaction check
Transaction check succeeded.
Running transaction test
Transaction test succeeded.
Running transaction
  Running scriptlet: filesystem-3.8-6.el8.x86_64                            1/1 
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  Installing       : setup-2.12.2-9.el8.noarch                            7/172 
warning: /etc/hosts created as /etc/hosts.rpmnew

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  Installing       : libtool-ltdl-2.4.6-25.el8.x86_64                   105/172 
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  Installing       : ncurses-6.1-10.20180224.el8.x86_64                 108/172 
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  Installing       : platform-python-setuptools-39.2.0-9.el8_10.noarc   119/172 
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  Installing       : ima-evm-utils-1.3.2-12.el8.x86_64                  129/172 
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  Running scriptlet: info-6.5-7.el8.x86_64                              172/172 
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  Verifying        : cracklib-2.9.6-15.el8.x86_64                         1/172 
  Verifying        : cracklib-dicts-2.9.6-15.el8.x86_64                   2/172 
  Verifying        : grep-3.1-6.el8.x86_64                                3/172 
  Verifying        : libassuan-2.5.1-3.el8.x86_64                         4/172 
  Verifying        : libattr-2.4.48-3.el8.x86_64                          5/172 
  Verifying        : libsigsegv-2.11-5.el8.x86_64                         6/172 
  Verifying        : libunistring-0.9.9-3.el8.x86_64                      7/172 
  Verifying        : libutempter-1.1.6-14.el8.x86_64                      8/172 
  Verifying        : mpfr-3.1.6-1.el8.x86_64                              9/172 
  Verifying        : npth-1.5-4.el8.x86_64                               10/172 
  Verifying        : pkgconf-1.4.2-1.el8.x86_64                          11/172 
  Verifying        : pkgconf-pkg-config-1.4.2-1.el8.x86_64               12/172 
  Verifying        : readline-7.0-10.el8.x86_64                          13/172 
  Verifying        : zip-3.0-23.el8.x86_64                               14/172 
  Verifying        : basesystem-11-5.el8.noarch                          15/172 
  Verifying        : libgpg-error-1.31-1.el8.x86_64                      16/172 
  Verifying        : libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64       17/172 
  Verifying        : libpkgconf-1.4.2-1.el8.x86_64                       18/172 
  Verifying        : libtool-ltdl-2.4.6-25.el8.x86_64                    19/172 
  Verifying        : pkgconf-m4-1.4.2-1.el8.noarch                       20/172 
  Verifying        : publicsuffix-list-dafsa-20180723-1.el8.noarch       21/172 
  Verifying        : diffutils-3.6-6.el8.x86_64                          22/172 
  Verifying        : libidn2-2.2.0-1.el8.x86_64                          23/172 
  Verifying        : patch-2.7.6-11.el8.x86_64                           24/172 
  Verifying        : libusbx-1.0.23-4.el8.x86_64                         25/172 
  Verifying        : libzstd-1.4.4-1.el8.x86_64                          26/172 
  Verifying        : libpsl-0.20.2-6.el8.x86_64                          27/172 
  Verifying        : popt-1.18-1.el8.x86_64                              28/172 
  Verifying        : ima-evm-utils-1.3.2-12.el8.x86_64                   29/172 
  Verifying        : filesystem-3.8-6.el8.x86_64                         30/172 
  Verifying        : libcap-ng-0.7.11-1.el8.x86_64                       31/172 
  Verifying        : libdb-5.3.28-42.el8_4.x86_64                        32/172 
  Verifying        : libdb-utils-5.3.28-42.el8_4.x86_64                  33/172 
  Verifying        : libxcrypt-4.1.1-6.el8.x86_64                        34/172 
  Verifying        : libxcrypt-devel-4.1.1-6.el8.x86_64                  35/172 
  Verifying        : nettle-3.4.1-7.el8.x86_64                           36/172 
  Verifying        : pcre-8.42-6.el8.x86_64                              37/172 
  Verifying        : cyrus-sasl-lib-2.1.27-6.el8_5.x86_64                38/172 
  Verifying        : gzip-1.9-13.el8_5.x86_64                            39/172 
  Verifying        : keyutils-libs-1.5.10-9.el8.x86_64                   40/172 
  Verifying        : libsepol-2.9-3.el8.x86_64                           41/172 
  Verifying        : lua-libs-5.3.4-12.el8.x86_64                        42/172 
  Verifying        : cpio-2.12-11.el8.x86_64                             43/172 
  Verifying        : gawk-4.2.1-4.el8.x86_64                             44/172 
  Verifying        : info-6.5-7.el8.x86_64                               45/172 
  Verifying        : make-1:4.2.1-11.el8.x86_64                          46/172 
  Verifying        : xz-5.2.4-4.el8_6.x86_64                             47/172 
  Verifying        : xz-libs-5.2.4-4.el8_6.x86_64                        48/172 
  Verifying        : gdbm-libs-1:1.18-2.el8.x86_64                       49/172 
  Verifying        : libbabeltrace-1.5.4-4.el8.x86_64                    50/172 
  Verifying        : libgcrypt-1.8.5-7.el8_6.x86_64                      51/172 
  Verifying        : libverto-0.3.2-2.el8.x86_64                         52/172 
  Verifying        : pcre2-10.32-3.el8_6.x86_64                          53/172 
  Verifying        : gdbm-1:1.18-2.el8.x86_64                            54/172 
  Verifying        : libksba-1.3.5-9.el8_7.x86_64                        55/172 
  Verifying        : libffi-3.1-24.el8.x86_64                            56/172 
  Verifying        : libpwquality-1.4.4-6.el8.x86_64                     57/172 
  Verifying        : setup-2.12.2-9.el8.noarch                           58/172 
  Verifying        : chkconfig-1.19.2-1.el8.x86_64                       59/172 
  Verifying        : crypto-policies-20230731-1.git3177e06.el8.noarch    60/172 
  Verifying        : ncurses-libs-6.1-10.20180224.el8.x86_64             61/172 
  Verifying        : libcap-2.48-6.el8_9.x86_64                          62/172 
  Verifying        : ncurses-6.1-10.20180224.el8.x86_64                  63/172 
  Verifying        : ncurses-base-6.1-10.20180224.el8.noarch             64/172 
  Verifying        : zlib-1.2.11-25.el8.x86_64                           65/172 
  Verifying        : elfutils-0.190-2.el8.x86_64                         66/172 
  Verifying        : elfutils-default-yama-scope-0.190-2.el8.noarch      67/172 
  Verifying        : elfutils-libelf-0.190-2.el8.x86_64                  68/172 
  Verifying        : elfutils-libs-0.190-2.el8.x86_64                    69/172 
  Verifying        : gmp-1:6.1.2-11.el8.x86_64                           70/172 
  Verifying        : libacl-2.2.53-3.el8.x86_64                          71/172 
  Verifying        : p11-kit-0.23.22-2.el8.x86_64                        72/172 
  Verifying        : p11-kit-trust-0.23.22-2.el8.x86_64                  73/172 
  Verifying        : python3-pip-wheel-9.0.3-24.el8.noarch               74/172 
  Verifying        : tpm2-tss-2.3.2-6.el8.x86_64                         75/172 
  Verifying        : libtirpc-1.1.4-12.el8_10.x86_64                     76/172 
  Verifying        : redhat-release-8.10-0.3.el8.x86_64                  77/172 
  Verifying        : bzip2-1.0.6-28.el8_10.x86_64                        78/172 
  Verifying        : bzip2-libs-1.0.6-28.el8_10.x86_64                   79/172 
  Verifying        : rpm-4.14.3-32.el8_10.x86_64                         80/172 
  Verifying        : rpm-build-libs-4.14.3-32.el8_10.x86_64              81/172 
  Verifying        : rpm-libs-4.14.3-32.el8_10.x86_64                    82/172 
  Verifying        : openldap-2.4.46-21.el8_10.x86_64                    83/172 
  Verifying        : libtasn1-4.13-5.el8_10.x86_64                       84/172 
  Verifying        : krb5-libs-1.18.2-32.el8_10.x86_64                   85/172 
  Verifying        : libsemanage-2.9-12.el8_10.x86_64                    86/172 
  Verifying        : unzip-6.0-48.el8_10.x86_64                          87/172 
  Verifying        : audit-libs-3.1.2-1.el8_10.1.x86_64                  88/172 
  Verifying        : lz4-libs-1.8.3-5.el8_10.x86_64                      89/172 
  Verifying        : platform-python-setuptools-39.2.0-9.el8_10.noarc    90/172 
  Verifying        : python3-setuptools-wheel-39.2.0-9.el8_10.noarch     91/172 
  Verifying        : sqlite-libs-3.26.0-20.el8_10.x86_64                 92/172 
  Verifying        : bash-4.4.20-6.el8_10.x86_64                         93/172 
  Verifying        : which-2.21-21.el8_10.x86_64                         94/172 
  Verifying        : tar-2:1.30-11.el8_10.x86_64                         95/172 
  Verifying        : libgcc-8.5.0-28.el8_10.x86_64                       96/172 
  Verifying        : libgomp-8.5.0-28.el8_10.x86_64                      97/172 
  Verifying        : libstdc++-8.5.0-28.el8_10.x86_64                    98/172 
  Verifying        : file-5.33-27.el8_10.x86_64                          99/172 
  Verifying        : file-libs-5.33-27.el8_10.x86_64                    100/172 
  Verifying        : libcom_err-1.45.6-7.el8_10.x86_64                  101/172 
  Verifying        : ca-certificates-2025.2.80_v9.0.304-80.2.el8_10.n   102/172 
  Verifying        : expat-2.5.0-1.el8_10.x86_64                        103/172 
  Verifying        : libssh-0.9.6-16.el8_10.x86_64                      104/172 
  Verifying        : libssh-config-0.9.6-16.el8_10.noarch               105/172 
  Verifying        : pam-1.3.1-39.el8_10.x86_64                         106/172 
  Verifying        : binutils-2.30-128.el8_10.x86_64                    107/172 
  Verifying        : findutils-1:4.6.0-24.el8_10.x86_64                 108/172 
  Verifying        : shadow-utils-2:4.6-23.el8_10.x86_64                109/172 
  Verifying        : gnupg2-2.2.20-4.el8_10.x86_64                      110/172 
  Verifying        : glib2-2.56.4-168.el8_10.x86_64                     111/172 
  Verifying        : libblkid-2.32.1-48.el8_10.x86_64                   112/172 
  Verifying        : libfdisk-2.32.1-48.el8_10.x86_64                   113/172 
  Verifying        : libmount-2.32.1-48.el8_10.x86_64                   114/172 
  Verifying        : libsmartcols-2.32.1-48.el8_10.x86_64               115/172 
  Verifying        : libuuid-2.32.1-48.el8_10.x86_64                    116/172 
  Verifying        : util-linux-2.32.1-48.el8_10.x86_64                 117/172 
  Verifying        : brotli-1.0.6-4.el8_10.x86_64                       118/172 
  Verifying        : libselinux-2.9-11.el8_10.x86_64                    119/172 
  Verifying        : openssl-libs-1:1.1.1k-15.el8_6.x86_64              120/172 
  Verifying        : glibc-2.28-251.el8_10.31.x86_64                    121/172 
  Verifying        : glibc-all-langpacks-2.28-251.el8_10.31.x86_64      122/172 
  Verifying        : glibc-common-2.28-251.el8_10.31.x86_64             123/172 
  Verifying        : glibc-devel-2.28-251.el8_10.31.x86_64              124/172 
  Verifying        : glibc-gconv-extra-2.28-251.el8_10.31.x86_64        125/172 
  Verifying        : glibc-headers-2.28-251.el8_10.31.x86_64            126/172 
  Verifying        : tzdata-2026a-1.el8.noarch                          127/172 
  Verifying        : coreutils-8.30-17.el8_10.x86_64                    128/172 
  Verifying        : coreutils-common-8.30-17.el8_10.x86_64             129/172 
  Verifying        : curl-7.61.1-34.el8_10.11.x86_64                    130/172 
  Verifying        : gnutls-3.6.16-8.el8_10.5.x86_64                    131/172 
  Verifying        : libcurl-7.61.1-34.el8_10.11.x86_64                 132/172 
  Verifying        : libnghttp2-1.33.0-6.el8_10.2.x86_64                133/172 
  Verifying        : sed-4.5-5.el8_10.x86_64                            134/172 
  Verifying        : libarchive-3.3.3-7.el8_10.x86_64                   135/172 
  Verifying        : kernel-headers-4.18.0-553.120.1.el8_10.x86_64      136/172 
  Verifying        : systemd-libs-239-82.el8_10.16.x86_64               137/172 
  Verifying        : platform-python-3.6.8-76.el8_10.x86_64             138/172 
  Verifying        : python3-libs-3.6.8-76.el8_10.x86_64                139/172 
  Verifying        : libxml2-2.9.7-21.el8_10.4.x86_64                   140/172 
  Verifying        : ghc-srpm-macros-1.4.2-7.el8.noarch                 141/172 
  Verifying        : ocaml-srpm-macros-5-4.el8.noarch                   142/172 
  Verifying        : openblas-srpm-macros-2-2.el8.noarch                143/172 
  Verifying        : perl-srpm-macros-1-25.el8.noarch                   144/172 
  Verifying        : rust-srpm-macros-5-2.el8.noarch                    145/172 
  Verifying        : libatomic_ops-7.6.2-3.el8.x86_64                   146/172 
  Verifying        : gc-7.6.4-3.el8.x86_64                              147/172 
  Verifying        : guile-5:2.0.14-7.el8.x86_64                        148/172 
  Verifying        : isl-0.16.1-6.el8.x86_64                            149/172 
  Verifying        : libipt-1.6.1-8.el8.x86_64                          150/172 
  Verifying        : zstd-1.4.4-1.el8.x86_64                            151/172 
  Verifying        : libmpc-1.1.0-9.1.el8.x86_64                        152/172 
  Verifying        : efi-srpm-macros-3-3.el8.noarch                     153/172 
  Verifying        : go-srpm-macros-2-17.el8.noarch                     154/172 
  Verifying        : dwz-0.12-10.el8.x86_64                             155/172 
  Verifying        : qt5-srpm-macros-5.15.3-1.el8.noarch                156/172 
  Verifying        : python-rpm-macros-3-45.el8.noarch                  157/172 
  Verifying        : python3-rpm-macros-3-45.el8.noarch                 158/172 
  Verifying        : redhat-rpm-config-131-1.el8.noarch                 159/172 
  Verifying        : python-srpm-macros-3-45.el8.noarch                 160/172 
  Verifying        : annobin-11.13-2.el8.x86_64                         161/172 
  Verifying        : gdb-headless-8.2-20.el8.x86_64                     162/172 
  Verifying        : rpm-build-4.14.3-32.el8_10.x86_64                  163/172 
  Verifying        : cpp-8.5.0-28.el8_10.x86_64                         164/172 
  Verifying        : gcc-8.5.0-28.el8_10.x86_64                         165/172 
  Verifying        : gcc-c++-8.5.0-28.el8_10.x86_64                     166/172 
  Verifying        : gcc-plugin-annobin-8.5.0-28.el8_10.x86_64          167/172 
  Verifying        : libstdc++-devel-8.5.0-28.el8_10.x86_64             168/172 
  Verifying        : ansible-srpm-macros-1-12.el8.noarch                169/172 
  Verifying        : epel-rpm-macros-8-43.noarch                        170/172 
  Verifying        : fpc-srpm-macros-1.3-1.el8.noarch                   171/172 
  Verifying        : lua-srpm-macros-1-13.el8.noarch                    172/172 
Installed products updated.

Installed:
  annobin-11.13-2.el8.x86_64                                                    
  ansible-srpm-macros-1-12.el8.noarch                                           
  audit-libs-3.1.2-1.el8_10.1.x86_64                                            
  basesystem-11-5.el8.noarch                                                    
  bash-4.4.20-6.el8_10.x86_64                                                   
  binutils-2.30-128.el8_10.x86_64                                               
  brotli-1.0.6-4.el8_10.x86_64                                                  
  bzip2-1.0.6-28.el8_10.x86_64                                                  
  bzip2-libs-1.0.6-28.el8_10.x86_64                                             
  ca-certificates-2025.2.80_v9.0.304-80.2.el8_10.noarch                         
  chkconfig-1.19.2-1.el8.x86_64                                                 
  coreutils-8.30-17.el8_10.x86_64                                               
  coreutils-common-8.30-17.el8_10.x86_64                                        
  cpio-2.12-11.el8.x86_64                                                       
  cpp-8.5.0-28.el8_10.x86_64                                                    
  cracklib-2.9.6-15.el8.x86_64                                                  
  cracklib-dicts-2.9.6-15.el8.x86_64                                            
  crypto-policies-20230731-1.git3177e06.el8.noarch                              
  curl-7.61.1-34.el8_10.11.x86_64                                               
  cyrus-sasl-lib-2.1.27-6.el8_5.x86_64                                          
  diffutils-3.6-6.el8.x86_64                                                    
  dwz-0.12-10.el8.x86_64                                                        
  efi-srpm-macros-3-3.el8.noarch                                                
  elfutils-0.190-2.el8.x86_64                                                   
  elfutils-default-yama-scope-0.190-2.el8.noarch                                
  elfutils-libelf-0.190-2.el8.x86_64                                            
  elfutils-libs-0.190-2.el8.x86_64                                              
  epel-rpm-macros-8-43.noarch                                                   
  expat-2.5.0-1.el8_10.x86_64                                                   
  file-5.33-27.el8_10.x86_64                                                    
  file-libs-5.33-27.el8_10.x86_64                                               
  filesystem-3.8-6.el8.x86_64                                                   
  findutils-1:4.6.0-24.el8_10.x86_64                                            
  fpc-srpm-macros-1.3-1.el8.noarch                                              
  gawk-4.2.1-4.el8.x86_64                                                       
  gc-7.6.4-3.el8.x86_64                                                         
  gcc-8.5.0-28.el8_10.x86_64                                                    
  gcc-c++-8.5.0-28.el8_10.x86_64                                                
  gcc-plugin-annobin-8.5.0-28.el8_10.x86_64                                     
  gdb-headless-8.2-20.el8.x86_64                                                
  gdbm-1:1.18-2.el8.x86_64                                                      
  gdbm-libs-1:1.18-2.el8.x86_64                                                 
  ghc-srpm-macros-1.4.2-7.el8.noarch                                            
  glib2-2.56.4-168.el8_10.x86_64                                                
  glibc-2.28-251.el8_10.31.x86_64                                               
  glibc-all-langpacks-2.28-251.el8_10.31.x86_64                                 
  glibc-common-2.28-251.el8_10.31.x86_64                                        
  glibc-devel-2.28-251.el8_10.31.x86_64                                         
  glibc-gconv-extra-2.28-251.el8_10.31.x86_64                                   
  glibc-headers-2.28-251.el8_10.31.x86_64                                       
  gmp-1:6.1.2-11.el8.x86_64                                                     
  gnupg2-2.2.20-4.el8_10.x86_64                                                 
  gnutls-3.6.16-8.el8_10.5.x86_64                                               
  go-srpm-macros-2-17.el8.noarch                                                
  grep-3.1-6.el8.x86_64                                                         
  guile-5:2.0.14-7.el8.x86_64                                                   
  gzip-1.9-13.el8_5.x86_64                                                      
  ima-evm-utils-1.3.2-12.el8.x86_64                                             
  info-6.5-7.el8.x86_64                                                         
  isl-0.16.1-6.el8.x86_64                                                       
  kernel-headers-4.18.0-553.120.1.el8_10.x86_64                                 
  keyutils-libs-1.5.10-9.el8.x86_64                                             
  krb5-libs-1.18.2-32.el8_10.x86_64                                             
  libacl-2.2.53-3.el8.x86_64                                                    
  libarchive-3.3.3-7.el8_10.x86_64                                              
  libassuan-2.5.1-3.el8.x86_64                                                  
  libatomic_ops-7.6.2-3.el8.x86_64                                              
  libattr-2.4.48-3.el8.x86_64                                                   
  libbabeltrace-1.5.4-4.el8.x86_64                                              
  libblkid-2.32.1-48.el8_10.x86_64                                              
  libcap-2.48-6.el8_9.x86_64                                                    
  libcap-ng-0.7.11-1.el8.x86_64                                                 
  libcom_err-1.45.6-7.el8_10.x86_64                                             
  libcurl-7.61.1-34.el8_10.11.x86_64                                            
  libdb-5.3.28-42.el8_4.x86_64                                                  
  libdb-utils-5.3.28-42.el8_4.x86_64                                            
  libfdisk-2.32.1-48.el8_10.x86_64                                              
  libffi-3.1-24.el8.x86_64                                                      
  libgcc-8.5.0-28.el8_10.x86_64                                                 
  libgcrypt-1.8.5-7.el8_6.x86_64                                                
  libgomp-8.5.0-28.el8_10.x86_64                                                
  libgpg-error-1.31-1.el8.x86_64                                                
  libidn2-2.2.0-1.el8.x86_64                                                    
  libipt-1.6.1-8.el8.x86_64                                                     
  libksba-1.3.5-9.el8_7.x86_64                                                  
  libmount-2.32.1-48.el8_10.x86_64                                              
  libmpc-1.1.0-9.1.el8.x86_64                                                   
  libnghttp2-1.33.0-6.el8_10.2.x86_64                                           
  libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64                                 
  libpkgconf-1.4.2-1.el8.x86_64                                                 
  libpsl-0.20.2-6.el8.x86_64                                                    
  libpwquality-1.4.4-6.el8.x86_64                                               
  libselinux-2.9-11.el8_10.x86_64                                               
  libsemanage-2.9-12.el8_10.x86_64                                              
  libsepol-2.9-3.el8.x86_64                                                     
  libsigsegv-2.11-5.el8.x86_64                                                  
  libsmartcols-2.32.1-48.el8_10.x86_64                                          
  libssh-0.9.6-16.el8_10.x86_64                                                 
  libssh-config-0.9.6-16.el8_10.noarch                                          
  libstdc++-8.5.0-28.el8_10.x86_64                                              
  libstdc++-devel-8.5.0-28.el8_10.x86_64                                        
  libtasn1-4.13-5.el8_10.x86_64                                                 
  libtirpc-1.1.4-12.el8_10.x86_64                                               
  libtool-ltdl-2.4.6-25.el8.x86_64                                              
  libunistring-0.9.9-3.el8.x86_64                                               
  libusbx-1.0.23-4.el8.x86_64                                                   
  libutempter-1.1.6-14.el8.x86_64                                               
  libuuid-2.32.1-48.el8_10.x86_64                                               
  libverto-0.3.2-2.el8.x86_64                                                   
  libxcrypt-4.1.1-6.el8.x86_64                                                  
  libxcrypt-devel-4.1.1-6.el8.x86_64                                            
  libxml2-2.9.7-21.el8_10.4.x86_64                                              
  libzstd-1.4.4-1.el8.x86_64                                                    
  lua-libs-5.3.4-12.el8.x86_64                                                  
  lua-srpm-macros-1-13.el8.noarch                                               
  lz4-libs-1.8.3-5.el8_10.x86_64                                                
  make-1:4.2.1-11.el8.x86_64                                                    
  mpfr-3.1.6-1.el8.x86_64                                                       
  ncurses-6.1-10.20180224.el8.x86_64                                            
  ncurses-base-6.1-10.20180224.el8.noarch                                       
  ncurses-libs-6.1-10.20180224.el8.x86_64                                       
  nettle-3.4.1-7.el8.x86_64                                                     
  npth-1.5-4.el8.x86_64                                                         
  ocaml-srpm-macros-5-4.el8.noarch                                              
  openblas-srpm-macros-2-2.el8.noarch                                           
  openldap-2.4.46-21.el8_10.x86_64                                              
  openssl-libs-1:1.1.1k-15.el8_6.x86_64                                         
  p11-kit-0.23.22-2.el8.x86_64                                                  
  p11-kit-trust-0.23.22-2.el8.x86_64                                            
  pam-1.3.1-39.el8_10.x86_64                                                    
  patch-2.7.6-11.el8.x86_64                                                     
  pcre-8.42-6.el8.x86_64                                                        
  pcre2-10.32-3.el8_6.x86_64                                                    
  perl-srpm-macros-1-25.el8.noarch                                              
  pkgconf-1.4.2-1.el8.x86_64                                                    
  pkgconf-m4-1.4.2-1.el8.noarch                                                 
  pkgconf-pkg-config-1.4.2-1.el8.x86_64                                         
  platform-python-3.6.8-76.el8_10.x86_64                                        
  platform-python-setuptools-39.2.0-9.el8_10.noarch                             
  popt-1.18-1.el8.x86_64                                                        
  publicsuffix-list-dafsa-20180723-1.el8.noarch                                 
  python-rpm-macros-3-45.el8.noarch                                             
  python-srpm-macros-3-45.el8.noarch                                            
  python3-libs-3.6.8-76.el8_10.x86_64                                           
  python3-pip-wheel-9.0.3-24.el8.noarch                                         
  python3-rpm-macros-3-45.el8.noarch                                            
  python3-setuptools-wheel-39.2.0-9.el8_10.noarch                               
  qt5-srpm-macros-5.15.3-1.el8.noarch                                           
  readline-7.0-10.el8.x86_64                                                    
  redhat-release-8.10-0.3.el8.x86_64                                            
  redhat-rpm-config-131-1.el8.noarch                                            
  rpm-4.14.3-32.el8_10.x86_64                                                   
  rpm-build-4.14.3-32.el8_10.x86_64                                             
  rpm-build-libs-4.14.3-32.el8_10.x86_64                                        
  rpm-libs-4.14.3-32.el8_10.x86_64                                              
  rust-srpm-macros-5-2.el8.noarch                                               
  sed-4.5-5.el8_10.x86_64                                                       
  setup-2.12.2-9.el8.noarch                                                     
  shadow-utils-2:4.6-23.el8_10.x86_64                                           
  sqlite-libs-3.26.0-20.el8_10.x86_64                                           
  systemd-libs-239-82.el8_10.16.x86_64                                          
  tar-2:1.30-11.el8_10.x86_64                                                   
  tpm2-tss-2.3.2-6.el8.x86_64                                                   
  tzdata-2026a-1.el8.noarch                                                     
  unzip-6.0-48.el8_10.x86_64                                                    
  util-linux-2.32.1-48.el8_10.x86_64                                            
  which-2.21-21.el8_10.x86_64                                                   
  xz-5.2.4-4.el8_6.x86_64                                                       
  xz-libs-5.2.4-4.el8_6.x86_64                                                  
  zip-3.0-23.el8.x86_64                                                         
  zlib-1.2.11-25.el8.x86_64                                                     
  zstd-1.4.4-1.el8.x86_64                                                       

Complete!
Finish: installing minimal buildroot with dnf
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: annobin-11.13-2.el8.x86_64
ansible-srpm-macros-1-12.el8.noarch
audit-libs-3.1.2-1.el8_10.1.x86_64
basesystem-11-5.el8.noarch
bash-4.4.20-6.el8_10.x86_64
binutils-2.30-128.el8_10.x86_64
brotli-1.0.6-4.el8_10.x86_64
bzip2-1.0.6-28.el8_10.x86_64
bzip2-libs-1.0.6-28.el8_10.x86_64
ca-certificates-2025.2.80_v9.0.304-80.2.el8_10.noarch
chkconfig-1.19.2-1.el8.x86_64
coreutils-8.30-17.el8_10.x86_64
coreutils-common-8.30-17.el8_10.x86_64
cpio-2.12-11.el8.x86_64
cpp-8.5.0-28.el8_10.x86_64
cracklib-2.9.6-15.el8.x86_64
cracklib-dicts-2.9.6-15.el8.x86_64
crypto-policies-20230731-1.git3177e06.el8.noarch
curl-7.61.1-34.el8_10.11.x86_64
cyrus-sasl-lib-2.1.27-6.el8_5.x86_64
diffutils-3.6-6.el8.x86_64
dwz-0.12-10.el8.x86_64
efi-srpm-macros-3-3.el8.noarch
elfutils-0.190-2.el8.x86_64
elfutils-default-yama-scope-0.190-2.el8.noarch
elfutils-libelf-0.190-2.el8.x86_64
elfutils-libs-0.190-2.el8.x86_64
epel-rpm-macros-8-43.noarch
expat-2.5.0-1.el8_10.x86_64
file-5.33-27.el8_10.x86_64
file-libs-5.33-27.el8_10.x86_64
filesystem-3.8-6.el8.x86_64
findutils-4.6.0-24.el8_10.x86_64
fpc-srpm-macros-1.3-1.el8.noarch
gawk-4.2.1-4.el8.x86_64
gc-7.6.4-3.el8.x86_64
gcc-8.5.0-28.el8_10.x86_64
gcc-c++-8.5.0-28.el8_10.x86_64
gcc-plugin-annobin-8.5.0-28.el8_10.x86_64
gdb-headless-8.2-20.el8.x86_64
gdbm-1.18-2.el8.x86_64
gdbm-libs-1.18-2.el8.x86_64
ghc-srpm-macros-1.4.2-7.el8.noarch
glib2-2.56.4-168.el8_10.x86_64
glibc-2.28-251.el8_10.31.x86_64
glibc-all-langpacks-2.28-251.el8_10.31.x86_64
glibc-common-2.28-251.el8_10.31.x86_64
glibc-devel-2.28-251.el8_10.31.x86_64
glibc-gconv-extra-2.28-251.el8_10.31.x86_64
glibc-headers-2.28-251.el8_10.31.x86_64
gmp-6.1.2-11.el8.x86_64
gnupg2-2.2.20-4.el8_10.x86_64
gnutls-3.6.16-8.el8_10.5.x86_64
go-srpm-macros-2-17.el8.noarch
gpg-pubkey-2f86d6a1-5cf7cefb
gpg-pubkey-2fa658e0-45700c69
gpg-pubkey-fd431d51-4ae0493b
grep-3.1-6.el8.x86_64
guile-2.0.14-7.el8.x86_64
gzip-1.9-13.el8_5.x86_64
ima-evm-utils-1.3.2-12.el8.x86_64
info-6.5-7.el8.x86_64
isl-0.16.1-6.el8.x86_64
kernel-headers-4.18.0-553.120.1.el8_10.x86_64
keyutils-libs-1.5.10-9.el8.x86_64
krb5-libs-1.18.2-32.el8_10.x86_64
libacl-2.2.53-3.el8.x86_64
libarchive-3.3.3-7.el8_10.x86_64
libassuan-2.5.1-3.el8.x86_64
libatomic_ops-7.6.2-3.el8.x86_64
libattr-2.4.48-3.el8.x86_64
libbabeltrace-1.5.4-4.el8.x86_64
libblkid-2.32.1-48.el8_10.x86_64
libcap-2.48-6.el8_9.x86_64
libcap-ng-0.7.11-1.el8.x86_64
libcom_err-1.45.6-7.el8_10.x86_64
libcurl-7.61.1-34.el8_10.11.x86_64
libdb-5.3.28-42.el8_4.x86_64
libdb-utils-5.3.28-42.el8_4.x86_64
libfdisk-2.32.1-48.el8_10.x86_64
libffi-3.1-24.el8.x86_64
libgcc-8.5.0-28.el8_10.x86_64
libgcrypt-1.8.5-7.el8_6.x86_64
libgomp-8.5.0-28.el8_10.x86_64
libgpg-error-1.31-1.el8.x86_64
libidn2-2.2.0-1.el8.x86_64
libipt-1.6.1-8.el8.x86_64
libksba-1.3.5-9.el8_7.x86_64
libmount-2.32.1-48.el8_10.x86_64
libmpc-1.1.0-9.1.el8.x86_64
libnghttp2-1.33.0-6.el8_10.2.x86_64
libnsl2-1.2.0-2.20180605git4a062cf.el8.x86_64
libpkgconf-1.4.2-1.el8.x86_64
libpsl-0.20.2-6.el8.x86_64
libpwquality-1.4.4-6.el8.x86_64
libselinux-2.9-11.el8_10.x86_64
libsemanage-2.9-12.el8_10.x86_64
libsepol-2.9-3.el8.x86_64
libsigsegv-2.11-5.el8.x86_64
libsmartcols-2.32.1-48.el8_10.x86_64
libssh-0.9.6-16.el8_10.x86_64
libssh-config-0.9.6-16.el8_10.noarch
libstdc++-8.5.0-28.el8_10.x86_64
libstdc++-devel-8.5.0-28.el8_10.x86_64
libtasn1-4.13-5.el8_10.x86_64
libtirpc-1.1.4-12.el8_10.x86_64
libtool-ltdl-2.4.6-25.el8.x86_64
libunistring-0.9.9-3.el8.x86_64
libusbx-1.0.23-4.el8.x86_64
libutempter-1.1.6-14.el8.x86_64
libuuid-2.32.1-48.el8_10.x86_64
libverto-0.3.2-2.el8.x86_64
libxcrypt-4.1.1-6.el8.x86_64
libxcrypt-devel-4.1.1-6.el8.x86_64
libxml2-2.9.7-21.el8_10.4.x86_64
libzstd-1.4.4-1.el8.x86_64
lua-libs-5.3.4-12.el8.x86_64
lua-srpm-macros-1-13.el8.noarch
lz4-libs-1.8.3-5.el8_10.x86_64
make-4.2.1-11.el8.x86_64
mpfr-3.1.6-1.el8.x86_64
ncurses-6.1-10.20180224.el8.x86_64
ncurses-base-6.1-10.20180224.el8.noarch
ncurses-libs-6.1-10.20180224.el8.x86_64
nettle-3.4.1-7.el8.x86_64
npth-1.5-4.el8.x86_64
ocaml-srpm-macros-5-4.el8.noarch
openblas-srpm-macros-2-2.el8.noarch
openldap-2.4.46-21.el8_10.x86_64
openssl-libs-1.1.1k-15.el8_6.x86_64
p11-kit-0.23.22-2.el8.x86_64
p11-kit-trust-0.23.22-2.el8.x86_64
pam-1.3.1-39.el8_10.x86_64
patch-2.7.6-11.el8.x86_64
pcre-8.42-6.el8.x86_64
pcre2-10.32-3.el8_6.x86_64
perl-srpm-macros-1-25.el8.noarch
pkgconf-1.4.2-1.el8.x86_64
pkgconf-m4-1.4.2-1.el8.noarch
pkgconf-pkg-config-1.4.2-1.el8.x86_64
platform-python-3.6.8-76.el8_10.x86_64
platform-python-setuptools-39.2.0-9.el8_10.noarch
popt-1.18-1.el8.x86_64
publicsuffix-list-dafsa-20180723-1.el8.noarch
python-rpm-macros-3-45.el8.noarch
python-srpm-macros-3-45.el8.noarch
python3-libs-3.6.8-76.el8_10.x86_64
python3-pip-wheel-9.0.3-24.el8.noarch
python3-rpm-macros-3-45.el8.noarch
python3-setuptools-wheel-39.2.0-9.el8_10.noarch
qt5-srpm-macros-5.15.3-1.el8.noarch
readline-7.0-10.el8.x86_64
redhat-release-8.10-0.3.el8.x86_64
redhat-rpm-config-131-1.el8.noarch
rpm-4.14.3-32.el8_10.x86_64
rpm-build-4.14.3-32.el8_10.x86_64
rpm-build-libs-4.14.3-32.el8_10.x86_64
rpm-libs-4.14.3-32.el8_10.x86_64
rust-srpm-macros-5-2.el8.noarch
sed-4.5-5.el8_10.x86_64
setup-2.12.2-9.el8.noarch
shadow-utils-4.6-23.el8_10.x86_64
sqlite-libs-3.26.0-20.el8_10.x86_64
systemd-libs-239-82.el8_10.16.x86_64
tar-1.30-11.el8_10.x86_64
tpm2-tss-2.3.2-6.el8.x86_64
tzdata-2026a-1.el8.noarch
unzip-6.0-48.el8_10.x86_64
util-linux-2.32.1-48.el8_10.x86_64
which-2.21-21.el8_10.x86_64
xz-5.2.4-4.el8_6.x86_64
xz-libs-5.2.4-4.el8_6.x86_64
zip-3.0-23.el8.x86_64
zlib-1.2.11-25.el8.x86_64
zstd-1.4.4-1.el8.x86_64
Start: buildsrpm
Start: rpmbuild -bs
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
warning: bogus date in %changelog: Sat Jul 08 2012 Tim Fenn <tim.fenn@gmail.com> - 1.5.0.2-3.20120218svn3982
warning: bogus date in %changelog: Thu Jul 07 2009 Tim Fenn <fenn@stanford.edu> - 1.2-5.20090709svn3827
Building target platforms: x86_64
Building for target x86_64
Wrote: /builddir/build/SRPMS/pymol-2.5.0-7.el8.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-8-x86_64-1777472477.301044/root/var/log/dnf.rpm.log
/var/lib/mock/rhel+epel-8-x86_64-1777472477.301044/root/var/log/dnf.librepo.log
/var/lib/mock/rhel+epel-8-x86_64-1777472477.301044/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-qx4p5jtx/pymol/pymol.spec) Config(child) 1 minutes 22 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.el8.src.rpm)  Config(rhel+epel-8-x86_64)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/rhel+epel-8-x86_64-bootstrap-1777472477.301044/root.
INFO: reusing tmpfs at /var/lib/mock/rhel+epel-8-x86_64-bootstrap-1777472477.301044/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-8-x86_64-1777472477.301044/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-4.14.3-32.el8_10.x86_64
  python3-dnf-4.7.0-21.el8_10.noarch
  python3-dnf-plugins-core-4.0.21-25.el8.noarch
  yum-4.7.0-21.el8_10.noarch
Finish: chroot init
Start: build phase for pymol-2.5.0-7.el8.src.rpm
Start: build setup for pymol-2.5.0-7.el8.src.rpm
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
sh: /usr/bin/python3.6: No such file or directory
warning: bogus date in %changelog: Sat Jul 08 2012 Tim Fenn <tim.fenn@gmail.com> - 1.5.0.2-3.20120218svn3982
warning: bogus date in %changelog: Thu Jul 07 2009 Tim Fenn <fenn@stanford.edu> - 1.2-5.20090709svn3827
Building target platforms: x86_64
Building for target x86_64
Wrote: /builddir/build/SRPMS/pymol-2.5.0-7.el8.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                41 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  30 kB/s | 4.5 kB     00:00    
Extra Packages for Enterprise Linux 8 - x86_64   95 kB/s |  28 kB     00:00    
Package gcc-c++-8.5.0-28.el8_10.x86_64 is already installed.
Dependencies resolved.
=======================================================================================================
 Package                       Arch    Version                                 Repository          Size
=======================================================================================================
Installing:
 catch-devel                   x86_64  2.13.8-1.el8                            epel               212 k
 desktop-file-utils            x86_64  0.26-1.el8                              rhel-appstream      80 k
 freeglut-devel                x86_64  3.0.0-9.el8                             rhel-appstream     121 k
 freetype-devel                x86_64  2.9.1-10.el8_10                         rhel-baseos        465 k
 glew-devel                    x86_64  2.0.0-6.el8                             codeready-builder  194 k
 glm-devel                     noarch  0.9.8.5-2.el8                           codeready-builder  206 k
 libappstream-glib             x86_64  0.7.14-3.el8                            rhel-baseos        338 k
 libpng-devel                  x86_64  2:1.6.34-10.el8_10                      rhel-baseos        327 k
 libxml2-devel                 x86_64  2.9.7-21.el8_10.4                       rhel-appstream     1.0 M
 mesa-libGL-devel              x86_64  23.1.4-4.el8_10                         rhel-appstream      53 k
 mmtf-cpp-devel                x86_64  1.1.0-1.el8                             epel                32 k
 msgpack-devel                 x86_64  3.1.0-3.el8                             epel               308 k
 netcdf-devel                  x86_64  4.7.0-3.el8                             epel               121 k
 python3-mmtf                  noarch  1:1.1.2-1.el8                           epel                58 k
 python3-numpy                 x86_64  1:1.14.3-10.el8                         rhel-appstream     3.7 M
 python3-qt5-devel             x86_64  5.15.0-3.el8                            codeready-builder  578 k
 python3-setuptools            noarch  39.2.0-9.el8_10                         rhel-baseos        163 k
 python3-simplejson            x86_64  3.17.0-2.el8                            epel               286 k
 python36-devel                x86_64  3.6.8-39.module+el8.10.0+20784+edafcd43 rhel-appstream      17 k
Installing dependencies:
 abattis-cantarell-fonts       noarch  0.0.25-6.el8                            rhel-appstream     156 k
 alsa-lib                      x86_64  1.2.10-2.el8                            rhel-appstream     501 k
 avahi-libs                    x86_64  0.7-27.el8_10.1                         rhel-baseos         62 k
 bluez-libs                    x86_64  5.63-5.el8_10                           rhel-baseos        115 k
 bzip2-devel                   x86_64  1.0.6-28.el8_10                         rhel-baseos        225 k
 cairo                         x86_64  1.15.12-6.el8                           rhel-appstream     719 k
 cmake                         x86_64  3.26.5-2.el8                            rhel-appstream      14 M
 cmake-data                    noarch  3.26.5-2.el8                            rhel-appstream     1.9 M
 cmake-filesystem              x86_64  3.26.5-2.el8                            rhel-appstream      45 k
 cmake-rpm-macros              noarch  3.26.5-2.el8                            rhel-appstream      44 k
 cups-libs                     x86_64  1:2.2.6-67.el8_10                       rhel-baseos        437 k
 dbus-glib                     x86_64  0.110-2.el8                             rhel-baseos        127 k
 dbus-libs                     x86_64  1:1.12.8-27.el8_10                      rhel-baseos        185 k
 emacs-filesystem              noarch  1:26.1-15.el8_10                        rhel-baseos         71 k
 flac-libs                     x86_64  1.3.2-9.el8_8.1                         rhel-appstream     217 k
 fontconfig                    x86_64  2.13.1-4.el8                            rhel-baseos        274 k
 fontpackages-filesystem       noarch  1.44-22.el8                             rhel-baseos         16 k
 freeglut                      x86_64  3.0.0-9.el8                             rhel-appstream     191 k
 freetype                      x86_64  2.9.1-10.el8_10                         rhel-baseos        394 k
 fribidi                       x86_64  1.0.4-9.el8                             rhel-appstream      89 k
 gcc-gfortran                  x86_64  8.5.0-28.el8_10                         rhel-appstream      12 M
 gdk-pixbuf2                   x86_64  2.36.12-8.el8_10                        rhel-baseos        466 k
 gl-manpages                   noarch  1.1-15.20161227.el8                     rhel-appstream     1.2 M
 glib-networking               x86_64  2.56.1-1.1.el8                          rhel-baseos        155 k
 glx-utils                     x86_64  8.4.0-5.20181118git1830dcb.el8          rhel-appstream      44 k
 graphite2                     x86_64  1.3.10-10.el8                           rhel-appstream     122 k
 groff-base                    x86_64  1.22.3-18.el8                           rhel-baseos        1.0 M
 gsettings-desktop-schemas     x86_64  3.32.0-6.el8                            rhel-baseos        633 k
 gsm                           x86_64  1.0.17-5.el8                            rhel-appstream      37 k
 gstreamer1                    x86_64  1.16.1-2.el8                            rhel-appstream     1.3 M
 gstreamer1-plugins-bad-free   x86_64  1.16.1-6.el8_10                         rhel-appstream     1.8 M
 gstreamer1-plugins-base       x86_64  1.16.1-6.el8_10                         rhel-appstream     2.0 M
 harfbuzz                      x86_64  1.7.5-4.el8                             rhel-appstream     296 k
 hdf                           x86_64  4.2.14-5.el8                            epel               651 k
 hdf5                          x86_64  1.10.5-4.el8                            epel               2.1 M
 hdf5-devel                    x86_64  1.10.5-4.el8                            epel               1.2 M
 hwdata                        noarch  0.314-8.22.el8                          rhel-baseos        1.8 M
 iso-codes                     noarch  3.79-2.el8                              rhel-appstream     3.4 M
 json-glib                     x86_64  1.4.4-1.el8                             rhel-baseos        144 k
 lcms2                         x86_64  2.9-2.el8                               rhel-appstream     165 k
 libGLEW                       x86_64  2.0.0-6.el8                             codeready-builder  143 k
 libICE                        x86_64  1.0.9-15.el8                            rhel-appstream      74 k
 libSM                         x86_64  1.2.3-1.el8                             rhel-appstream      48 k
 libX11                        x86_64  1.6.8-9.el8_10                          rhel-appstream     612 k
 libX11-common                 noarch  1.6.8-9.el8_10                          rhel-appstream     159 k
 libX11-devel                  x86_64  1.6.8-9.el8_10                          rhel-appstream     977 k
 libX11-xcb                    x86_64  1.6.8-9.el8_10                          rhel-appstream      15 k
 libXau                        x86_64  1.0.9-3.el8                             rhel-appstream      37 k
 libXau-devel                  x86_64  1.0.9-3.el8                             rhel-appstream      21 k
 libXext                       x86_64  1.3.4-1.el8                             rhel-appstream      45 k
 libXfixes                     x86_64  5.0.3-7.el8                             rhel-appstream      25 k
 libXft                        x86_64  2.3.3-1.el8                             rhel-appstream      67 k
 libXi                         x86_64  1.7.10-1.el8                            rhel-appstream      49 k
 libXrender                    x86_64  0.9.10-7.el8                            rhel-appstream      33 k
 libXtst                       x86_64  1.2.3-7.el8                             rhel-appstream      22 k
 libXv                         x86_64  1.0.11-7.el8                            rhel-appstream      20 k
 libXxf86vm                    x86_64  1.1.4-9.el8                             rhel-appstream      19 k
 libaec                        x86_64  1.0.2-3.el8                             codeready-builder   39 k
 libaec-devel                  x86_64  1.0.2-3.el8                             codeready-builder   12 k
 libasyncns                    x86_64  0.8-14.el8                              rhel-appstream      32 k
 libcroco                      x86_64  0.6.12-4.el8_2.1                        rhel-baseos        113 k
 libcurl-devel                 x86_64  7.61.1-34.el8_10.11                     rhel-baseos        836 k
 libdatrie                     x86_64  0.2.9-7.el8                             rhel-appstream      33 k
 libdrm                        x86_64  2.4.115-2.el8                           rhel-appstream     165 k
 libdrm-devel                  x86_64  2.4.115-2.el8                           rhel-appstream     184 k
 libdvdnav                     x86_64  5.0.3-8.el8                             rhel-appstream      61 k
 libdvdread                    x86_64  5.0.3-9.el8                             rhel-appstream      75 k
 libevdev                      x86_64  1.10.0-1.el8                            rhel-appstream      44 k
 libgfortran                   x86_64  8.5.0-28.el8_10                         rhel-baseos        646 k
 libglvnd                      x86_64  1:1.3.4-2.el8                           rhel-appstream     127 k
 libglvnd-core-devel           x86_64  1:1.3.4-2.el8                           rhel-appstream      25 k
 libglvnd-devel                x86_64  1:1.3.4-2.el8                           rhel-appstream     185 k
 libglvnd-egl                  x86_64  1:1.3.4-2.el8                           rhel-appstream      49 k
 libglvnd-gles                 x86_64  1:1.3.4-2.el8                           rhel-appstream      40 k
 libglvnd-glx                  x86_64  1:1.3.4-2.el8                           rhel-appstream     137 k
 libglvnd-opengl               x86_64  1:1.3.4-2.el8                           rhel-appstream      47 k
 libgudev                      x86_64  232-4.el8                               rhel-baseos         33 k
 libicu                        x86_64  60.3-2.el8_1                            rhel-baseos        8.8 M
 libinput                      x86_64  1.16.3-3.el8_6                          rhel-appstream     217 k
 libjpeg-turbo                 x86_64  1.5.3-14.el8_10                         rhel-appstream     157 k
 libmodman                     x86_64  2.0.1-17.el8                            rhel-baseos         36 k
 libogg                        x86_64  2:1.3.2-10.el8                          rhel-appstream      31 k
 libpciaccess                  x86_64  0.14-1.el8                              rhel-baseos         32 k
 libpciaccess-devel            x86_64  0.14-1.el8                              rhel-appstream      19 k
 libpng                        x86_64  2:1.6.34-10.el8_10                      rhel-baseos        126 k
 libproxy                      x86_64  0.4.15-5.5.el8_10                       rhel-baseos         73 k
 libquadmath                   x86_64  8.5.0-28.el8_10                         rhel-baseos        173 k
 libquadmath-devel             x86_64  8.5.0-28.el8_10                         rhel-appstream      27 k
 librsvg2                      x86_64  2.42.7-5.el8                            rhel-appstream     575 k
 libsndfile                    x86_64  1.0.28-16.el8_10                        rhel-appstream     194 k
 libsoup                       x86_64  2.62.3-13.el8_10                        rhel-baseos        427 k
 libsrtp                       x86_64  1.5.4-8.el8                             rhel-appstream     282 k
 libstemmer                    x86_64  0-10.585svn.el8                         rhel-baseos         73 k
 libthai                       x86_64  0.1.27-2.el8                            rhel-appstream     203 k
 libtheora                     x86_64  1:1.1.1-21.el8                          rhel-appstream     184 k
 libuv                         x86_64  1:1.41.1-2.el8_10                       rhel-appstream     156 k
 libvisual                     x86_64  1:0.4.0-25.el8                          rhel-appstream     145 k
 libvorbis                     x86_64  1:1.3.6-2.el8                           rhel-appstream     196 k
 libwacom                      x86_64  1.6-3.el8                               rhel-appstream      42 k
 libwacom-data                 noarch  1.6-3.el8                               rhel-appstream     104 k
 libwayland-client             x86_64  1.21.0-1.el8                            rhel-appstream      41 k
 libwayland-cursor             x86_64  1.21.0-1.el8                            rhel-appstream      26 k
 libwayland-egl                x86_64  1.21.0-1.el8                            rhel-appstream      20 k
 libwayland-server             x86_64  1.21.0-1.el8                            rhel-appstream      49 k
 libwebp                       x86_64  1.0.0-11.el8_10                         rhel-appstream     274 k
 libxcb                        x86_64  1.13.1-1.el8                            rhel-appstream     229 k
 libxcb-devel                  x86_64  1.13.1-1.el8                            rhel-appstream     1.1 M
 libxkbcommon                  x86_64  0.9.1-1.el8                             rhel-appstream     116 k
 libxkbcommon-x11              x86_64  0.9.1-1.el8                             rhel-appstream      25 k
 libxshmfence                  x86_64  1.3-2.el8                               rhel-appstream      13 k
 mesa-libEGL                   x86_64  23.1.4-4.el8_10                         rhel-appstream     149 k
 mesa-libEGL-devel             x86_64  23.1.4-4.el8_10                         rhel-appstream      38 k
 mesa-libGL                    x86_64  23.1.4-4.el8_10                         rhel-appstream     188 k
 mesa-libGLU                   x86_64  9.0.0-15.el8                            rhel-appstream     185 k
 mesa-libGLU-devel             x86_64  9.0.0-15.el8                            rhel-appstream      15 k
 mesa-libgbm                   x86_64  23.1.4-4.el8_10                         rhel-appstream      61 k
 mesa-libglapi                 x86_64  23.1.4-4.el8_10                         rhel-appstream      68 k
 msgpack                       x86_64  3.1.0-3.el8                             epel                29 k
 mtdev                         x86_64  1.1.5-12.el8                            rhel-appstream      24 k
 netcdf                        x86_64  4.7.0-3.el8                             epel               645 k
 openal-soft                   x86_64  1.18.2-7.el8                            rhel-appstream     394 k
 openblas                      x86_64  0.3.15-6.el8                            rhel-appstream     5.0 M
 openblas-threads              x86_64  0.3.15-6.el8                            rhel-appstream     5.2 M
 openssl                       x86_64  1:1.1.1k-15.el8_6                       rhel-baseos        710 k
 opus                          x86_64  1.3-0.4.beta.el8                        rhel-appstream     204 k
 orc                           x86_64  0.4.28-4.el8_10                         rhel-appstream     175 k
 pango                         x86_64  1.42.4-8.el8                            rhel-appstream     297 k
 pcre2-utf16                   x86_64  10.32-3.el8_6                           rhel-baseos        229 k
 perl-Carp                     noarch  1.42-396.el8                            rhel-baseos         30 k
 perl-Data-Dumper              x86_64  2.167-399.el8                           rhel-baseos         58 k
 perl-Digest                   noarch  1.17-395.el8                            rhel-baseos         27 k
 perl-Digest-MD5               x86_64  2.55-396.el8                            rhel-baseos         37 k
 perl-Encode                   x86_64  4:2.97-3.el8                            rhel-baseos        1.5 M
 perl-Errno                    x86_64  1.28-423.el8_10                         rhel-baseos         77 k
 perl-Exporter                 noarch  5.72-396.el8                            rhel-baseos         34 k
 perl-File-Path                noarch  2.15-2.el8                              rhel-baseos         38 k
 perl-File-Temp                noarch  0.230.600-1.el8                         rhel-baseos         63 k
 perl-Getopt-Long              noarch  1:2.50-4.el8                            rhel-baseos         63 k
 perl-HTTP-Tiny                noarch  0.074-3.el8                             rhel-baseos         59 k
 perl-IO                       x86_64  1.38-423.el8_10                         rhel-baseos        143 k
 perl-IO-Socket-IP             noarch  0.39-5.el8                              rhel-baseos         47 k
 perl-IO-Socket-SSL            noarch  2.066-4.module+el8.3.0+6446+594cad75    rhel-appstream     298 k
 perl-MIME-Base64              x86_64  3.15-396.el8                            rhel-baseos         31 k
 perl-Mozilla-CA               noarch  20160104-7.module+el8.3.0+6498+9eecfe51 rhel-appstream      15 k
 perl-Net-SSLeay               x86_64  1.88-2.module+el8.6.0+13392+f0897f98    rhel-appstream     379 k
 perl-PathTools                x86_64  3.74-1.el8                              rhel-baseos         90 k
 perl-Pod-Escapes              noarch  1:1.07-395.el8                          rhel-baseos         20 k
 perl-Pod-Perldoc              noarch  3.28-396.el8                            rhel-baseos         88 k
 perl-Pod-Simple               noarch  1:3.35-395.el8                          rhel-baseos        213 k
 perl-Pod-Usage                noarch  4:1.69-395.el8                          rhel-baseos         34 k
 perl-Scalar-List-Utils        x86_64  3:1.49-2.el8                            rhel-baseos         68 k
 perl-Socket                   x86_64  4:2.027-3.el8                           rhel-baseos         59 k
 perl-Storable                 x86_64  1:3.11-3.el8                            rhel-baseos         98 k
 perl-Term-ANSIColor           noarch  4.06-396.el8                            rhel-baseos         46 k
 perl-Term-Cap                 noarch  1.17-395.el8                            rhel-baseos         23 k
 perl-Text-ParseWords          noarch  3.30-395.el8                            rhel-baseos         18 k
 perl-Text-Tabs+Wrap           noarch  2013.0523-395.el8                       rhel-baseos         24 k
 perl-Time-Local               noarch  1:1.280-1.el8                           rhel-baseos         34 k
 perl-URI                      noarch  1.73-3.el8                              rhel-baseos        116 k
 perl-Unicode-Normalize        x86_64  1.25-396.el8                            rhel-baseos         82 k
 perl-constant                 noarch  1.33-396.el8                            rhel-baseos         25 k
 perl-interpreter              x86_64  4:5.26.3-423.el8_10                     rhel-baseos        6.3 M
 perl-libnet                   noarch  3.11-3.el8                              rhel-baseos        121 k
 perl-libs                     x86_64  4:5.26.3-423.el8_10                     rhel-baseos        1.6 M
 perl-macros                   x86_64  4:5.26.3-423.el8_10                     rhel-baseos         73 k
 perl-parent                   noarch  1:0.237-1.el8                           rhel-baseos         20 k
 perl-podlators                noarch  4.11-1.el8                              rhel-baseos        118 k
 perl-threads                  x86_64  1:2.21-2.el8                            rhel-baseos         61 k
 perl-threads-shared           x86_64  1.58-2.el8                              rhel-baseos         48 k
 pixman                        x86_64  0.38.4-4.el8                            rhel-appstream     258 k
 platform-python-devel         x86_64  3.6.8-76.el8_10                         rhel-appstream     242 k
 platform-python-pip           noarch  9.0.3-24.el8                            rhel-baseos        1.6 M
 pulseaudio-libs               x86_64  14.0-4.el8                              rhel-appstream     682 k
 pulseaudio-libs-glib2         x86_64  14.0-4.el8                              rhel-appstream      31 k
 python-qt5-rpm-macros         noarch  5.15.0-3.el8                            rhel-appstream      18 k
 python3-dbus                  x86_64  1.2.4-15.el8                            rhel-baseos        134 k
 python3-msgpack               x86_64  0.6.2-1.el8                             epel                92 k
 python3-pip                   noarch  9.0.3-24.el8                            rhel-appstream      20 k
 python3-pyqt5-sip             x86_64  4.19.25-1.el8                           rhel-appstream      92 k
 python3-qt5                   x86_64  5.15.0-3.el8                            rhel-appstream     1.2 M
 python3-qt5-base              x86_64  5.15.0-3.el8                            rhel-appstream     3.2 M
 python3-rpm-generators        noarch  5-8.el8                                 rhel-appstream      25 k
 python3-sip-devel             x86_64  4.19.25-1.el8                           codeready-builder   65 k
 python36                      x86_64  3.6.8-39.module+el8.10.0+20784+edafcd43 rhel-appstream      20 k
 python36-rpm-macros           noarch  3.6.8-39.module+el8.10.0+20784+edafcd43 rhel-appstream      16 k
 qt5-qtbase                    x86_64  5.15.3-8.el8_10                         rhel-appstream     3.6 M
 qt5-qtbase-common             noarch  5.15.3-8.el8_10                         rhel-appstream      42 k
 qt5-qtbase-devel              x86_64  5.15.3-8.el8_10                         rhel-appstream     3.4 M
 qt5-qtbase-gui                x86_64  5.15.3-8.el8_10                         rhel-appstream     6.1 M
 qt5-qtconnectivity            x86_64  5.15.3-1.el8                            rhel-appstream     539 k
 qt5-qtdeclarative             x86_64  5.15.3-2.el8                            rhel-appstream     4.2 M
 qt5-qtlocation                x86_64  5.15.3-1.el8                            rhel-appstream     3.2 M
 qt5-qtmultimedia              x86_64  5.15.3-1.el8                            rhel-appstream     882 k
 qt5-qtsensors                 x86_64  5.15.3-1.el8                            rhel-appstream     219 k
 qt5-qtserialport              x86_64  5.15.3-1.el8                            rhel-appstream      71 k
 qt5-qtsvg                     x86_64  5.15.3-2.el8                            rhel-appstream     185 k
 qt5-qttools-common            noarch  5.15.3-6.el8                            rhel-appstream      22 k
 qt5-qttools-libs-designer     x86_64  5.15.3-6.el8                            rhel-appstream     2.8 M
 qt5-qttools-libs-help         x86_64  5.15.3-6.el8                            rhel-appstream     195 k
 qt5-qtwebchannel              x86_64  5.15.3-1.el8                            rhel-appstream     102 k
 qt5-qtwebsockets              x86_64  5.15.3-1.el8                            rhel-appstream     102 k
 qt5-qtx11extras               x86_64  5.15.3-1.el8                            rhel-appstream      40 k
 qt5-qtxmlpatterns             x86_64  5.15.3-1.el8                            rhel-appstream     1.1 M
 qt5-rpm-macros                noarch  5.15.3-1.el8                            rhel-appstream      12 k
 shared-mime-info              x86_64  1.9-4.el8                               rhel-baseos        329 k
 sip                           x86_64  4.19.25-1.el8                           rhel-appstream     190 k
 soundtouch                    x86_64  2.0.0-3.el8                             rhel-appstream      76 k
 valgrind-devel                x86_64  1:3.22.0-3.el8_10                       rhel-appstream      96 k
 vim-filesystem                noarch  2:8.0.1763-22.el8_10.3                  rhel-appstream      50 k
 webrtc-audio-processing       x86_64  0.3-10.el8                              rhel-appstream     297 k
 xcb-util                      x86_64  0.4.0-10.el8                            rhel-appstream      22 k
 xcb-util-image                x86_64  0.4.0-9.el8                             rhel-appstream      21 k
 xcb-util-keysyms              x86_64  0.4.0-7.el8                             rhel-appstream      16 k
 xcb-util-renderutil           x86_64  0.3.9-10.el8                            rhel-appstream      19 k
 xcb-util-wm                   x86_64  0.4.1-12.el8                            rhel-appstream      32 k
 xkeyboard-config              noarch  2.28-1.el8                              rhel-appstream     782 k
 xml-common                    noarch  0.6.3-50.el8                            rhel-baseos         39 k
 xorg-x11-proto-devel          noarch  2020.1-3.el8                            rhel-appstream     280 k
 xz-devel                      x86_64  5.2.4-4.el8_6                           rhel-baseos         63 k
 zlib-devel                    x86_64  1.2.11-25.el8                           rhel-baseos         59 k
Enabling module streams:
 perl                                  5.26                                                            
 perl-IO-Socket-SSL                    2.066                                                           
 perl-libwww-perl                      6.34                                                            
 python36                              3.6                                                             

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

Total download size: 139 M
Installed size: 514 M
Downloading Packages:
(1/239): json-glib-1.4.4-1.el8.x86_64.rpm       1.3 MB/s | 144 kB     00:00    
(2/239): libgudev-232-4.el8.x86_64.rpm          262 kB/s |  33 kB     00:00    
(3/239): groff-base-1.22.3-18.el8.x86_64.rpm    3.9 MB/s | 1.0 MB     00:00    
(4/239): libmodman-2.0.1-17.el8.x86_64.rpm      288 kB/s |  36 kB     00:00    
(5/239): perl-Data-Dumper-2.167-399.el8.x86_64. 457 kB/s |  58 kB     00:00    
(6/239): libappstream-glib-0.7.14-3.el8.x86_64. 794 kB/s | 338 kB     00:00    
(7/239): perl-Encode-2.97-3.el8.x86_64.rpm      8.8 MB/s | 1.5 MB     00:00    
(8/239): perl-MIME-Base64-3.15-396.el8.x86_64.r 188 kB/s |  31 kB     00:00    
(9/239): perl-PathTools-3.74-1.el8.x86_64.rpm   460 kB/s |  90 kB     00:00    
(10/239): perl-Scalar-List-Utils-1.49-2.el8.x86 654 kB/s |  68 kB     00:00    
(11/239): perl-Unicode-Normalize-1.25-396.el8.x 730 kB/s |  82 kB     00:00    
(12/239): perl-threads-shared-1.58-2.el8.x86_64 343 kB/s |  48 kB     00:00    
(13/239): fontpackages-filesystem-1.44-22.el8.n 130 kB/s |  16 kB     00:00    
(14/239): dbus-glib-0.110-2.el8.x86_64.rpm      722 kB/s | 127 kB     00:00    
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(107/239): openal-soft-1.18.2-7.el8.x86_64.rpm  3.5 MB/s | 394 kB     00:00    
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(109/239): libvorbis-1.3.6-2.el8.x86_64.rpm     1.2 MB/s | 196 kB     00:00    
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(116/239): perl-IO-Socket-SSL-2.066-4.module+el 3.1 MB/s | 298 kB     00:00    
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(125/239): libvisual-0.4.0-25.el8.x86_64.rpm    1.5 MB/s | 145 kB     00:00    
(126/239): abattis-cantarell-fonts-0.0.25-6.el8 1.5 MB/s | 156 kB     00:00    
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(131/239): libwacom-data-1.6-3.el8.noarch.rpm   1.2 MB/s | 104 kB     00:00    
(132/239): pango-1.42.4-8.el8.x86_64.rpm        2.5 MB/s | 297 kB     00:00    
(133/239): python3-numpy-1.14.3-10.el8.x86_64.r  25 MB/s | 3.7 MB     00:00    
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(139/239): fribidi-1.0.4-9.el8.x86_64.rpm       716 kB/s |  89 kB     00:00    
(140/239): qt5-qtmultimedia-5.15.3-1.el8.x86_64 8.6 MB/s | 882 kB     00:00    
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(155/239): qt5-qtwebsockets-5.15.3-1.el8.x86_64 921 kB/s | 102 kB     00:00    
(156/239): qt5-qtxmlpatterns-5.15.3-1.el8.x86_6  11 MB/s | 1.1 MB     00:00    
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  Verifying        : libwayland-egl-1.21.0-1.el8.x86_64                 160/239 
  Verifying        : libwayland-server-1.21.0-1.el8.x86_64              161/239 
  Verifying        : openblas-threads-0.3.15-6.el8.x86_64               162/239 
  Verifying        : python3-rpm-generators-5-8.el8.noarch              163/239 
  Verifying        : openblas-0.3.15-6.el8.x86_64                       164/239 
  Verifying        : flac-libs-1.3.2-9.el8_8.1.x86_64                   165/239 
  Verifying        : libdrm-devel-2.4.115-2.el8.x86_64                  166/239 
  Verifying        : qt5-qtsvg-5.15.3-2.el8.x86_64                      167/239 
  Verifying        : libdrm-2.4.115-2.el8.x86_64                        168/239 
  Verifying        : librsvg2-2.42.7-5.el8.x86_64                       169/239 
  Verifying        : qt5-qtdeclarative-5.15.3-2.el8.x86_64              170/239 
  Verifying        : libglvnd-devel-1:1.3.4-2.el8.x86_64                171/239 
  Verifying        : python36-3.6.8-39.module+el8.10.0+20784+edafcd43   172/239 
  Verifying        : python36-devel-3.6.8-39.module+el8.10.0+20784+ed   173/239 
  Verifying        : python36-rpm-macros-3.6.8-39.module+el8.10.0+207   174/239 
  Verifying        : qt5-qttools-common-5.15.3-6.el8.noarch             175/239 
  Verifying        : qt5-qttools-libs-designer-5.15.3-6.el8.x86_64      176/239 
  Verifying        : alsa-lib-1.2.10-2.el8.x86_64                       177/239 
  Verifying        : cmake-3.26.5-2.el8.x86_64                          178/239 
  Verifying        : cmake-data-3.26.5-2.el8.noarch                     179/239 
  Verifying        : cmake-filesystem-3.26.5-2.el8.x86_64               180/239 
  Verifying        : cmake-rpm-macros-3.26.5-2.el8.noarch               181/239 
  Verifying        : freeglut-3.0.0-9.el8.x86_64                        182/239 
  Verifying        : freeglut-devel-3.0.0-9.el8.x86_64                  183/239 
  Verifying        : harfbuzz-1.7.5-4.el8.x86_64                        184/239 
  Verifying        : libglvnd-1:1.3.4-2.el8.x86_64                      185/239 
  Verifying        : libglvnd-core-devel-1:1.3.4-2.el8.x86_64           186/239 
  Verifying        : libglvnd-egl-1:1.3.4-2.el8.x86_64                  187/239 
  Verifying        : libglvnd-gles-1:1.3.4-2.el8.x86_64                 188/239 
  Verifying        : libglvnd-glx-1:1.3.4-2.el8.x86_64                  189/239 
  Verifying        : libglvnd-opengl-1:1.3.4-2.el8.x86_64               190/239 
  Verifying        : pixman-0.38.4-4.el8.x86_64                         191/239 
  Verifying        : python3-pip-9.0.3-24.el8.noarch                    192/239 
  Verifying        : qt5-qttools-libs-help-5.15.3-6.el8.x86_64          193/239 
  Verifying        : libuv-1:1.41.1-2.el8_10.x86_64                     194/239 
  Verifying        : orc-0.4.28-4.el8_10.x86_64                         195/239 
  Verifying        : qt5-qtbase-5.15.3-8.el8_10.x86_64                  196/239 
  Verifying        : qt5-qtbase-common-5.15.3-8.el8_10.noarch           197/239 
  Verifying        : qt5-qtbase-devel-5.15.3-8.el8_10.x86_64            198/239 
  Verifying        : qt5-qtbase-gui-5.15.3-8.el8_10.x86_64              199/239 
  Verifying        : libX11-1.6.8-9.el8_10.x86_64                       200/239 
  Verifying        : libX11-common-1.6.8-9.el8_10.noarch                201/239 
  Verifying        : libX11-devel-1.6.8-9.el8_10.x86_64                 202/239 
  Verifying        : libX11-xcb-1.6.8-9.el8_10.x86_64                   203/239 
  Verifying        : libsndfile-1.0.28-16.el8_10.x86_64                 204/239 
  Verifying        : libjpeg-turbo-1.5.3-14.el8_10.x86_64               205/239 
  Verifying        : mesa-libEGL-23.1.4-4.el8_10.x86_64                 206/239 
  Verifying        : mesa-libEGL-devel-23.1.4-4.el8_10.x86_64           207/239 
  Verifying        : mesa-libGL-23.1.4-4.el8_10.x86_64                  208/239 
  Verifying        : mesa-libGL-devel-23.1.4-4.el8_10.x86_64            209/239 
  Verifying        : mesa-libgbm-23.1.4-4.el8_10.x86_64                 210/239 
  Verifying        : mesa-libglapi-23.1.4-4.el8_10.x86_64               211/239 
  Verifying        : valgrind-devel-1:3.22.0-3.el8_10.x86_64            212/239 
  Verifying        : gcc-gfortran-8.5.0-28.el8_10.x86_64                213/239 
  Verifying        : libquadmath-devel-8.5.0-28.el8_10.x86_64           214/239 
  Verifying        : libwebp-1.0.0-11.el8_10.x86_64                     215/239 
  Verifying        : gstreamer1-plugins-bad-free-1.16.1-6.el8_10.x86_   216/239 
  Verifying        : gstreamer1-plugins-base-1.16.1-6.el8_10.x86_64     217/239 
  Verifying        : platform-python-devel-3.6.8-76.el8_10.x86_64       218/239 
  Verifying        : libxml2-devel-2.9.7-21.el8_10.4.x86_64             219/239 
  Verifying        : vim-filesystem-2:8.0.1763-22.el8_10.3.noarch       220/239 
  Verifying        : glew-devel-2.0.0-6.el8.x86_64                      221/239 
  Verifying        : libaec-1.0.2-3.el8.x86_64                          222/239 
  Verifying        : libaec-devel-1.0.2-3.el8.x86_64                    223/239 
  Verifying        : glm-devel-0.9.8.5-2.el8.noarch                     224/239 
  Verifying        : libGLEW-2.0.0-6.el8.x86_64                         225/239 
  Verifying        : python3-qt5-devel-5.15.0-3.el8.x86_64              226/239 
  Verifying        : python3-sip-devel-4.19.25-1.el8.x86_64             227/239 
  Verifying        : catch-devel-2.13.8-1.el8.x86_64                    228/239 
  Verifying        : hdf-4.2.14-5.el8.x86_64                            229/239 
  Verifying        : hdf5-1.10.5-4.el8.x86_64                           230/239 
  Verifying        : hdf5-devel-1.10.5-4.el8.x86_64                     231/239 
  Verifying        : mmtf-cpp-devel-1.1.0-1.el8.x86_64                  232/239 
  Verifying        : msgpack-3.1.0-3.el8.x86_64                         233/239 
  Verifying        : msgpack-devel-3.1.0-3.el8.x86_64                   234/239 
  Verifying        : netcdf-4.7.0-3.el8.x86_64                          235/239 
  Verifying        : netcdf-devel-4.7.0-3.el8.x86_64                    236/239 
  Verifying        : python3-mmtf-1:1.1.2-1.el8.noarch                  237/239 
  Verifying        : python3-msgpack-0.6.2-1.el8.x86_64                 238/239 
  Verifying        : python3-simplejson-3.17.0-2.el8.x86_64             239/239 
Installed products updated.

Installed:
  abattis-cantarell-fonts-0.0.25-6.el8.noarch                                   
  alsa-lib-1.2.10-2.el8.x86_64                                                  
  avahi-libs-0.7-27.el8_10.1.x86_64                                             
  bluez-libs-5.63-5.el8_10.x86_64                                               
  bzip2-devel-1.0.6-28.el8_10.x86_64                                            
  cairo-1.15.12-6.el8.x86_64                                                    
  catch-devel-2.13.8-1.el8.x86_64                                               
  cmake-3.26.5-2.el8.x86_64                                                     
  cmake-data-3.26.5-2.el8.noarch                                                
  cmake-filesystem-3.26.5-2.el8.x86_64                                          
  cmake-rpm-macros-3.26.5-2.el8.noarch                                          
  cups-libs-1:2.2.6-67.el8_10.x86_64                                            
  dbus-glib-0.110-2.el8.x86_64                                                  
  dbus-libs-1:1.12.8-27.el8_10.x86_64                                           
  desktop-file-utils-0.26-1.el8.x86_64                                          
  emacs-filesystem-1:26.1-15.el8_10.noarch                                      
  flac-libs-1.3.2-9.el8_8.1.x86_64                                              
  fontconfig-2.13.1-4.el8.x86_64                                                
  fontpackages-filesystem-1.44-22.el8.noarch                                    
  freeglut-3.0.0-9.el8.x86_64                                                   
  freeglut-devel-3.0.0-9.el8.x86_64                                             
  freetype-2.9.1-10.el8_10.x86_64                                               
  freetype-devel-2.9.1-10.el8_10.x86_64                                         
  fribidi-1.0.4-9.el8.x86_64                                                    
  gcc-gfortran-8.5.0-28.el8_10.x86_64                                           
  gdk-pixbuf2-2.36.12-8.el8_10.x86_64                                           
  gl-manpages-1.1-15.20161227.el8.noarch                                        
  glew-devel-2.0.0-6.el8.x86_64                                                 
  glib-networking-2.56.1-1.1.el8.x86_64                                         
  glm-devel-0.9.8.5-2.el8.noarch                                                
  glx-utils-8.4.0-5.20181118git1830dcb.el8.x86_64                               
  graphite2-1.3.10-10.el8.x86_64                                                
  groff-base-1.22.3-18.el8.x86_64                                               
  gsettings-desktop-schemas-3.32.0-6.el8.x86_64                                 
  gsm-1.0.17-5.el8.x86_64                                                       
  gstreamer1-1.16.1-2.el8.x86_64                                                
  gstreamer1-plugins-bad-free-1.16.1-6.el8_10.x86_64                            
  gstreamer1-plugins-base-1.16.1-6.el8_10.x86_64                                
  harfbuzz-1.7.5-4.el8.x86_64                                                   
  hdf-4.2.14-5.el8.x86_64                                                       
  hdf5-1.10.5-4.el8.x86_64                                                      
  hdf5-devel-1.10.5-4.el8.x86_64                                                
  hwdata-0.314-8.22.el8.noarch                                                  
  iso-codes-3.79-2.el8.noarch                                                   
  json-glib-1.4.4-1.el8.x86_64                                                  
  lcms2-2.9-2.el8.x86_64                                                        
  libGLEW-2.0.0-6.el8.x86_64                                                    
  libICE-1.0.9-15.el8.x86_64                                                    
  libSM-1.2.3-1.el8.x86_64                                                      
  libX11-1.6.8-9.el8_10.x86_64                                                  
  libX11-common-1.6.8-9.el8_10.noarch                                           
  libX11-devel-1.6.8-9.el8_10.x86_64                                            
  libX11-xcb-1.6.8-9.el8_10.x86_64                                              
  libXau-1.0.9-3.el8.x86_64                                                     
  libXau-devel-1.0.9-3.el8.x86_64                                               
  libXext-1.3.4-1.el8.x86_64                                                    
  libXfixes-5.0.3-7.el8.x86_64                                                  
  libXft-2.3.3-1.el8.x86_64                                                     
  libXi-1.7.10-1.el8.x86_64                                                     
  libXrender-0.9.10-7.el8.x86_64                                                
  libXtst-1.2.3-7.el8.x86_64                                                    
  libXv-1.0.11-7.el8.x86_64                                                     
  libXxf86vm-1.1.4-9.el8.x86_64                                                 
  libaec-1.0.2-3.el8.x86_64                                                     
  libaec-devel-1.0.2-3.el8.x86_64                                               
  libappstream-glib-0.7.14-3.el8.x86_64                                         
  libasyncns-0.8-14.el8.x86_64                                                  
  libcroco-0.6.12-4.el8_2.1.x86_64                                              
  libcurl-devel-7.61.1-34.el8_10.11.x86_64                                      
  libdatrie-0.2.9-7.el8.x86_64                                                  
  libdrm-2.4.115-2.el8.x86_64                                                   
  libdrm-devel-2.4.115-2.el8.x86_64                                             
  libdvdnav-5.0.3-8.el8.x86_64                                                  
  libdvdread-5.0.3-9.el8.x86_64                                                 
  libevdev-1.10.0-1.el8.x86_64                                                  
  libgfortran-8.5.0-28.el8_10.x86_64                                            
  libglvnd-1:1.3.4-2.el8.x86_64                                                 
  libglvnd-core-devel-1:1.3.4-2.el8.x86_64                                      
  libglvnd-devel-1:1.3.4-2.el8.x86_64                                           
  libglvnd-egl-1:1.3.4-2.el8.x86_64                                             
  libglvnd-gles-1:1.3.4-2.el8.x86_64                                            
  libglvnd-glx-1:1.3.4-2.el8.x86_64                                             
  libglvnd-opengl-1:1.3.4-2.el8.x86_64                                          
  libgudev-232-4.el8.x86_64                                                     
  libicu-60.3-2.el8_1.x86_64                                                    
  libinput-1.16.3-3.el8_6.x86_64                                                
  libjpeg-turbo-1.5.3-14.el8_10.x86_64                                          
  libmodman-2.0.1-17.el8.x86_64                                                 
  libogg-2:1.3.2-10.el8.x86_64                                                  
  libpciaccess-0.14-1.el8.x86_64                                                
  libpciaccess-devel-0.14-1.el8.x86_64                                          
  libpng-2:1.6.34-10.el8_10.x86_64                                              
  libpng-devel-2:1.6.34-10.el8_10.x86_64                                        
  libproxy-0.4.15-5.5.el8_10.x86_64                                             
  libquadmath-8.5.0-28.el8_10.x86_64                                            
  libquadmath-devel-8.5.0-28.el8_10.x86_64                                      
  librsvg2-2.42.7-5.el8.x86_64                                                  
  libsndfile-1.0.28-16.el8_10.x86_64                                            
  libsoup-2.62.3-13.el8_10.x86_64                                               
  libsrtp-1.5.4-8.el8.x86_64                                                    
  libstemmer-0-10.585svn.el8.x86_64                                             
  libthai-0.1.27-2.el8.x86_64                                                   
  libtheora-1:1.1.1-21.el8.x86_64                                               
  libuv-1:1.41.1-2.el8_10.x86_64                                                
  libvisual-1:0.4.0-25.el8.x86_64                                               
  libvorbis-1:1.3.6-2.el8.x86_64                                                
  libwacom-1.6-3.el8.x86_64                                                     
  libwacom-data-1.6-3.el8.noarch                                                
  libwayland-client-1.21.0-1.el8.x86_64                                         
  libwayland-cursor-1.21.0-1.el8.x86_64                                         
  libwayland-egl-1.21.0-1.el8.x86_64                                            
  libwayland-server-1.21.0-1.el8.x86_64                                         
  libwebp-1.0.0-11.el8_10.x86_64                                                
  libxcb-1.13.1-1.el8.x86_64                                                    
  libxcb-devel-1.13.1-1.el8.x86_64                                              
  libxkbcommon-0.9.1-1.el8.x86_64                                               
  libxkbcommon-x11-0.9.1-1.el8.x86_64                                           
  libxml2-devel-2.9.7-21.el8_10.4.x86_64                                        
  libxshmfence-1.3-2.el8.x86_64                                                 
  mesa-libEGL-23.1.4-4.el8_10.x86_64                                            
  mesa-libEGL-devel-23.1.4-4.el8_10.x86_64                                      
  mesa-libGL-23.1.4-4.el8_10.x86_64                                             
  mesa-libGL-devel-23.1.4-4.el8_10.x86_64                                       
  mesa-libGLU-9.0.0-15.el8.x86_64                                               
  mesa-libGLU-devel-9.0.0-15.el8.x86_64                                         
  mesa-libgbm-23.1.4-4.el8_10.x86_64                                            
  mesa-libglapi-23.1.4-4.el8_10.x86_64                                          
  mmtf-cpp-devel-1.1.0-1.el8.x86_64                                             
  msgpack-3.1.0-3.el8.x86_64                                                    
  msgpack-devel-3.1.0-3.el8.x86_64                                              
  mtdev-1.1.5-12.el8.x86_64                                                     
  netcdf-4.7.0-3.el8.x86_64                                                     
  netcdf-devel-4.7.0-3.el8.x86_64                                               
  openal-soft-1.18.2-7.el8.x86_64                                               
  openblas-0.3.15-6.el8.x86_64                                                  
  openblas-threads-0.3.15-6.el8.x86_64                                          
  openssl-1:1.1.1k-15.el8_6.x86_64                                              
  opus-1.3-0.4.beta.el8.x86_64                                                  
  orc-0.4.28-4.el8_10.x86_64                                                    
  pango-1.42.4-8.el8.x86_64                                                     
  pcre2-utf16-10.32-3.el8_6.x86_64                                              
  perl-Carp-1.42-396.el8.noarch                                                 
  perl-Data-Dumper-2.167-399.el8.x86_64                                         
  perl-Digest-1.17-395.el8.noarch                                               
  perl-Digest-MD5-2.55-396.el8.x86_64                                           
  perl-Encode-4:2.97-3.el8.x86_64                                               
  perl-Errno-1.28-423.el8_10.x86_64                                             
  perl-Exporter-5.72-396.el8.noarch                                             
  perl-File-Path-2.15-2.el8.noarch                                              
  perl-File-Temp-0.230.600-1.el8.noarch                                         
  perl-Getopt-Long-1:2.50-4.el8.noarch                                          
  perl-HTTP-Tiny-0.074-3.el8.noarch                                             
  perl-IO-1.38-423.el8_10.x86_64                                                
  perl-IO-Socket-IP-0.39-5.el8.noarch                                           
  perl-IO-Socket-SSL-2.066-4.module+el8.3.0+6446+594cad75.noarch                
  perl-MIME-Base64-3.15-396.el8.x86_64                                          
  perl-Mozilla-CA-20160104-7.module+el8.3.0+6498+9eecfe51.noarch                
  perl-Net-SSLeay-1.88-2.module+el8.6.0+13392+f0897f98.x86_64                   
  perl-PathTools-3.74-1.el8.x86_64                                              
  perl-Pod-Escapes-1:1.07-395.el8.noarch                                        
  perl-Pod-Perldoc-3.28-396.el8.noarch                                          
  perl-Pod-Simple-1:3.35-395.el8.noarch                                         
  perl-Pod-Usage-4:1.69-395.el8.noarch                                          
  perl-Scalar-List-Utils-3:1.49-2.el8.x86_64                                    
  perl-Socket-4:2.027-3.el8.x86_64                                              
  perl-Storable-1:3.11-3.el8.x86_64                                             
  perl-Term-ANSIColor-4.06-396.el8.noarch                                       
  perl-Term-Cap-1.17-395.el8.noarch                                             
  perl-Text-ParseWords-3.30-395.el8.noarch                                      
  perl-Text-Tabs+Wrap-2013.0523-395.el8.noarch                                  
  perl-Time-Local-1:1.280-1.el8.noarch                                          
  perl-URI-1.73-3.el8.noarch                                                    
  perl-Unicode-Normalize-1.25-396.el8.x86_64                                    
  perl-constant-1.33-396.el8.noarch                                             
  perl-interpreter-4:5.26.3-423.el8_10.x86_64                                   
  perl-libnet-3.11-3.el8.noarch                                                 
  perl-libs-4:5.26.3-423.el8_10.x86_64                                          
  perl-macros-4:5.26.3-423.el8_10.x86_64                                        
  perl-parent-1:0.237-1.el8.noarch                                              
  perl-podlators-4.11-1.el8.noarch                                              
  perl-threads-1:2.21-2.el8.x86_64                                              
  perl-threads-shared-1.58-2.el8.x86_64                                         
  pixman-0.38.4-4.el8.x86_64                                                    
  platform-python-devel-3.6.8-76.el8_10.x86_64                                  
  platform-python-pip-9.0.3-24.el8.noarch                                       
  pulseaudio-libs-14.0-4.el8.x86_64                                             
  pulseaudio-libs-glib2-14.0-4.el8.x86_64                                       
  python-qt5-rpm-macros-5.15.0-3.el8.noarch                                     
  python3-dbus-1.2.4-15.el8.x86_64                                              
  python3-mmtf-1:1.1.2-1.el8.noarch                                             
  python3-msgpack-0.6.2-1.el8.x86_64                                            
  python3-numpy-1:1.14.3-10.el8.x86_64                                          
  python3-pip-9.0.3-24.el8.noarch                                               
  python3-pyqt5-sip-4.19.25-1.el8.x86_64                                        
  python3-qt5-5.15.0-3.el8.x86_64                                               
  python3-qt5-base-5.15.0-3.el8.x86_64                                          
  python3-qt5-devel-5.15.0-3.el8.x86_64                                         
  python3-rpm-generators-5-8.el8.noarch                                         
  python3-setuptools-39.2.0-9.el8_10.noarch                                     
  python3-simplejson-3.17.0-2.el8.x86_64                                        
  python3-sip-devel-4.19.25-1.el8.x86_64                                        
  python36-3.6.8-39.module+el8.10.0+20784+edafcd43.x86_64                       
  python36-devel-3.6.8-39.module+el8.10.0+20784+edafcd43.x86_64                 
  python36-rpm-macros-3.6.8-39.module+el8.10.0+20784+edafcd43.noarch            
  qt5-qtbase-5.15.3-8.el8_10.x86_64                                             
  qt5-qtbase-common-5.15.3-8.el8_10.noarch                                      
  qt5-qtbase-devel-5.15.3-8.el8_10.x86_64                                       
  qt5-qtbase-gui-5.15.3-8.el8_10.x86_64                                         
  qt5-qtconnectivity-5.15.3-1.el8.x86_64                                        
  qt5-qtdeclarative-5.15.3-2.el8.x86_64                                         
  qt5-qtlocation-5.15.3-1.el8.x86_64                                            
  qt5-qtmultimedia-5.15.3-1.el8.x86_64                                          
  qt5-qtsensors-5.15.3-1.el8.x86_64                                             
  qt5-qtserialport-5.15.3-1.el8.x86_64                                          
  qt5-qtsvg-5.15.3-2.el8.x86_64                                                 
  qt5-qttools-common-5.15.3-6.el8.noarch                                        
  qt5-qttools-libs-designer-5.15.3-6.el8.x86_64                                 
  qt5-qttools-libs-help-5.15.3-6.el8.x86_64                                     
  qt5-qtwebchannel-5.15.3-1.el8.x86_64                                          
  qt5-qtwebsockets-5.15.3-1.el8.x86_64                                          
  qt5-qtx11extras-5.15.3-1.el8.x86_64                                           
  qt5-qtxmlpatterns-5.15.3-1.el8.x86_64                                         
  qt5-rpm-macros-5.15.3-1.el8.noarch                                            
  shared-mime-info-1.9-4.el8.x86_64                                             
  sip-4.19.25-1.el8.x86_64                                                      
  soundtouch-2.0.0-3.el8.x86_64                                                 
  valgrind-devel-1:3.22.0-3.el8_10.x86_64                                       
  vim-filesystem-2:8.0.1763-22.el8_10.3.noarch                                  
  webrtc-audio-processing-0.3-10.el8.x86_64                                     
  xcb-util-0.4.0-10.el8.x86_64                                                  
  xcb-util-image-0.4.0-9.el8.x86_64                                             
  xcb-util-keysyms-0.4.0-7.el8.x86_64                                           
  xcb-util-renderutil-0.3.9-10.el8.x86_64                                       
  xcb-util-wm-0.4.1-12.el8.x86_64                                               
  xkeyboard-config-2.28-1.el8.noarch                                            
  xml-common-0.6.3-50.el8.noarch                                                
  xorg-x11-proto-devel-2020.1-3.el8.noarch                                      
  xz-devel-5.2.4-4.el8_6.x86_64                                                 
  zlib-devel-1.2.11-25.el8.x86_64                                               

Complete!
warning: bogus date in %changelog: Sat Jul 08 2012 Tim Fenn <tim.fenn@gmail.com> - 1.5.0.2-3.20120218svn3982
warning: bogus date in %changelog: Thu Jul 07 2009 Tim Fenn <fenn@stanford.edu> - 1.2-5.20090709svn3827
Building target platforms: x86_64
Building for target x86_64
Wrote: /builddir/build/SRPMS/pymol-2.5.0-7.el8.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                                  43 kB/s | 1.5 kB     00:00    
Red Hat Enterprise Linux - BaseOS                26 kB/s | 4.1 kB     00:00    
Red Hat Enterprise Linux - AppStream             45 kB/s | 4.5 kB     00:00    
Red Hat Enterprise Linux - CodeReady Linux Buil  48 kB/s | 4.5 kB     00:00    
Extra Packages for Enterprise Linux 8 - x86_64   93 kB/s |  28 kB     00:00    
Package catch-devel-2.13.8-1.el8.x86_64 is already installed.
Package desktop-file-utils-0.26-1.el8.x86_64 is already installed.
Package freeglut-devel-3.0.0-9.el8.x86_64 is already installed.
Package freetype-devel-2.9.1-10.el8_10.x86_64 is already installed.
Package gcc-c++-8.5.0-28.el8_10.x86_64 is already installed.
Package glew-devel-2.0.0-6.el8.x86_64 is already installed.
Package glm-devel-0.9.8.5-2.el8.noarch is already installed.
Package mesa-libGL-devel-23.1.4-4.el8_10.x86_64 is already installed.
Package libappstream-glib-0.7.14-3.el8.x86_64 is already installed.
Package libpng-devel-2:1.6.34-10.el8_10.x86_64 is already installed.
Package libxml2-devel-2.9.7-21.el8_10.4.x86_64 is already installed.
Package mmtf-cpp-devel-1.1.0-1.el8.x86_64 is already installed.
Package msgpack-devel-3.1.0-3.el8.x86_64 is already installed.
Package netcdf-devel-4.7.0-3.el8.x86_64 is already installed.
Package python36-devel-3.6.8-39.module+el8.10.0+20784+edafcd43.x86_64 is already installed.
Package python3-mmtf-1:1.1.2-1.el8.noarch is already installed.
Package python3-numpy-1:1.14.3-10.el8.x86_64 is already installed.
Package python3-qt5-devel-5.15.0-3.el8.x86_64 is already installed.
Package python3-setuptools-39.2.0-9.el8_10.noarch is already installed.
Package python3-simplejson-3.17.0-2.el8.x86_64 is already installed.
Dependencies resolved.
Nothing to do.
Complete!
Finish: build setup for pymol-2.5.0-7.el8.src.rpm
Start: rpmbuild pymol-2.5.0-7.el8.src.rpm
warning: bogus date in %changelog: Sat Jul 08 2012 Tim Fenn <tim.fenn@gmail.com> - 1.5.0.2-3.20120218svn3982
warning: bogus date in %changelog: Thu Jul 07 2009 Tim Fenn <fenn@stanford.edu> - 1.2-5.20090709svn3827
Building target platforms: x86_64
Building for target x86_64
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.ydSJ7b
+ 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
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.2ViLWv
+ umask 022
+ cd /builddir/build/BUILD
+ cd pymol-open-source-2.5.0
+ export 'CXXFLAGS=-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ CXXFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
++ /usr/bin/getconf _NPROCESSORS_ONLN
+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ LDFLAGS='-Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld'
+ /usr/bin/python3.6 setup.py build '--executable=/usr/bin/python3.6 -s' --use-msgpackc=c++11 --use-openmp=yes --jobs 4
running build
running build_py
creating build/lib.linux-x86_64-3.6
creating build/lib.linux-x86_64-3.6/pymol2
copying modules/pymol2/cmd2.py -> build/lib.linux-x86_64-3.6/pymol2
copying modules/pymol2/__init__.py -> build/lib.linux-x86_64-3.6/pymol2
creating build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/xwin.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/xray.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/wizarding.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/viewing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/vfont.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/util.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/shortcut_manager.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/shortcut_dict.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/shortcut.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/setting.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/seqalign.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/selector.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/selecting.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/save_shortcut.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/rpc.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/querying.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/pymolhttpd.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/preset.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/povray.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/parsing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/parser.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/mpeg_encode.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/moving.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/movie.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/morphing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/monitoring.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/menu.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/locking.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/lazyio.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/keywords.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/keyboard.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/invocation.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/internal.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/importing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/helping.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/headering.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/gui.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/fitting.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/feedingback.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/externing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/exporting.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/experimenting.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/editor.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/editing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/diagnosing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/creating.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/controlling.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/constants_palette.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/constants.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/computing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/completing.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/commanding.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/colorramping.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/colorprinting.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/cmd.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/checking.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/cgo.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/callback.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/api.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/_gui.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/__main__.py -> build/lib.linux-x86_64-3.6/pymol
copying modules/pymol/__init__.py -> build/lib.linux-x86_64-3.6/pymol
creating build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/toggle.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/stereodemo.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/security.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/sculpting.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/renaming.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/pseudoatom.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/pair_fit.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/openvr.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/nucmutagenesis.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/mutagenesis.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/message.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/measurement.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/label.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/filter.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/dragging.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/distance.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/density.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/demo.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/command.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/cleanup.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/charge.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/box.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/benchmark.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/appearance.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/annotation.py -> build/lib.linux-x86_64-3.6/pymol/wizard
copying modules/pymol/wizard/__init__.py -> build/lib.linux-x86_64-3.6/pymol/wizard
creating build/lib.linux-x86_64-3.6/pymol/stereochemistry
copying modules/pymol/stereochemistry/__init__.py -> build/lib.linux-x86_64-3.6/pymol/stereochemistry
creating build/lib.linux-x86_64-3.6/pymol/plugins
copying modules/pymol/plugins/repository.py -> build/lib.linux-x86_64-3.6/pymol/plugins
copying modules/pymol/plugins/managergui_qt.py -> build/lib.linux-x86_64-3.6/pymol/plugins
copying modules/pymol/plugins/managergui.py -> build/lib.linux-x86_64-3.6/pymol/plugins
copying modules/pymol/plugins/legacysupport.py -> build/lib.linux-x86_64-3.6/pymol/plugins
copying modules/pymol/plugins/installation.py -> build/lib.linux-x86_64-3.6/pymol/plugins
copying modules/pymol/plugins/__init__.py -> build/lib.linux-x86_64-3.6/pymol/plugins
creating build/lib.linux-x86_64-3.6/pymol/Qt
copying modules/pymol/Qt/utils.py -> build/lib.linux-x86_64-3.6/pymol/Qt
copying modules/pymol/Qt/__init__.py -> build/lib.linux-x86_64-3.6/pymol/Qt
creating build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/PMGApp.py -> build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/volume.py -> build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/__init__.py -> build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/TextEditor.py -> build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/Setting.py -> build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/SetEditor.py -> build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/PyMOLMapLoad.py -> build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/Demo.py -> build/lib.linux-x86_64-3.6/pmg_tk
copying modules/pmg_tk/ColorEditor.py -> build/lib.linux-x86_64-3.6/pmg_tk
creating build/lib.linux-x86_64-3.6/pmg_tk/startup
copying modules/pmg_tk/startup/__init__.py -> build/lib.linux-x86_64-3.6/pmg_tk/startup
creating build/lib.linux-x86_64-3.6/pmg_tk/skins
copying modules/pmg_tk/skins/__init__.py -> build/lib.linux-x86_64-3.6/pmg_tk/skins
creating build/lib.linux-x86_64-3.6/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/builder.py -> build/lib.linux-x86_64-3.6/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/__init__.py -> build/lib.linux-x86_64-3.6/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/ModalWindow.py -> build/lib.linux-x86_64-3.6/pmg_tk/skins/normal
creating build/lib.linux-x86_64-3.6/pmg_tk/skins/demo
copying modules/pmg_tk/skins/demo/__init__.py -> build/lib.linux-x86_64-3.6/pmg_tk/skins/demo
creating build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/volume.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/shortcut_menu_gui.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/pymol_qt_gui.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/pymol_gl_widget.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/properties_dialog.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/mimic_tk.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/mimic_pmg_tk.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/keymapping.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/file_dialogs.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/builder.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/advanced_settings_gui.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/__init__.py -> build/lib.linux-x86_64-3.6/pmg_qt
copying modules/pmg_qt/TextEditor.py -> build/lib.linux-x86_64-3.6/pmg_qt
creating build/lib.linux-x86_64-3.6/pmg_qt/syntax
copying modules/pmg_qt/syntax/python.py -> build/lib.linux-x86_64-3.6/pmg_qt/syntax
copying modules/pmg_qt/syntax/pmlparser.py -> build/lib.linux-x86_64-3.6/pmg_qt/syntax
copying modules/pmg_qt/syntax/pml.py -> build/lib.linux-x86_64-3.6/pmg_qt/syntax
copying modules/pmg_qt/syntax/__init__.py -> build/lib.linux-x86_64-3.6/pmg_qt/syntax
creating build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/__init__.py -> build/lib.linux-x86_64-3.6/pmg_qt/forms
creating build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/xyz.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/water_residues.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/water_amber.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/solvate.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/sdf.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/protein_residues.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/protein_mmff.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/protein_amber99.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/protein_amber.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/protein.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/place.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/pkl.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/pdb.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/neighbor.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/mol2.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/mol.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/models.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/mmd.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/mass.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/map.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/mae.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/lst.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/io.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/hetatm.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/gms.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/gamess1.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/dictdb.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/cpv.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/cif.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/charge.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/cc1.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/brick.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/bonds.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/bond_mmff.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/bond_amber.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/arc.py -> build/lib.linux-x86_64-3.6/chempy
copying modules/chempy/__init__.py -> build/lib.linux-x86_64-3.6/chempy
creating build/lib.linux-x86_64-3.6/chempy/tinker
copying modules/chempy/tinker/state.py -> build/lib.linux-x86_64-3.6/chempy/tinker
copying modules/chempy/tinker/realtime.py -> build/lib.linux-x86_64-3.6/chempy/tinker
copying modules/chempy/tinker/keyword.py -> build/lib.linux-x86_64-3.6/chempy/tinker
copying modules/chempy/tinker/amber.py -> build/lib.linux-x86_64-3.6/chempy/tinker
copying modules/chempy/tinker/__init__.py -> build/lib.linux-x86_64-3.6/chempy/tinker
creating build/lib.linux-x86_64-3.6/chempy/mmtf
copying modules/chempy/mmtf/io.py -> build/lib.linux-x86_64-3.6/chempy/mmtf
copying modules/chempy/mmtf/__init__.py -> build/lib.linux-x86_64-3.6/chempy/mmtf
creating build/lib.linux-x86_64-3.6/chempy/fragments
copying modules/chempy/fragments/__init__.py -> build/lib.linux-x86_64-3.6/chempy/fragments
creating build/lib.linux-x86_64-3.6/chempy/fast
copying modules/chempy/fast/__init__.py -> build/lib.linux-x86_64-3.6/chempy/fast
creating build/lib.linux-x86_64-3.6/chempy/champ
copying modules/chempy/champ/formal_charges.py -> build/lib.linux-x86_64-3.6/chempy/champ
copying modules/chempy/champ/assign.py -> build/lib.linux-x86_64-3.6/chempy/champ
copying modules/chempy/champ/amber99.py -> build/lib.linux-x86_64-3.6/chempy/champ
copying modules/chempy/champ/__init__.py -> build/lib.linux-x86_64-3.6/chempy/champ
creating build/lib.linux-x86_64-3.6/chempy/bmin
copying modules/chempy/bmin/util.py -> build/lib.linux-x86_64-3.6/chempy/bmin
copying modules/chempy/bmin/state.py -> build/lib.linux-x86_64-3.6/chempy/bmin
copying modules/chempy/bmin/realtime.py -> build/lib.linux-x86_64-3.6/chempy/bmin
copying modules/chempy/bmin/commands.py -> build/lib.linux-x86_64-3.6/chempy/bmin
copying modules/chempy/bmin/__init__.py -> build/lib.linux-x86_64-3.6/chempy/bmin
copying modules/pmg_qt/forms/shortcut_menu.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/save_object.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/save_molecule.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/render.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/props.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/png.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/pluginmanager.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/pluginitem.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/movieexport.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/load_traj.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/load_mtz.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/load_map.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/load_mae.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/load_aln.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/help_shortcut.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/fetch.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/create_shortcut.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/colors.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/change_confirm.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
copying modules/pmg_qt/forms/askpartial.ui -> build/lib.linux-x86_64-3.6/pmg_qt/forms
running build_ext
building 'pymol._cmd' extension
creating build/temp.linux-x86_64-3.6
creating build/temp.linux-x86_64-3.6/build
creating build/temp.linux-x86_64-3.6/build/generated
creating build/temp.linux-x86_64-3.6/contrib
creating build/temp.linux-x86_64-3.6/contrib/mmtf-c
creating build/temp.linux-x86_64-3.6/contrib/uiuc
creating build/temp.linux-x86_64-3.6/contrib/uiuc/plugins
creating build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin
creating build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src
creating build/temp.linux-x86_64-3.6/layer0
creating build/temp.linux-x86_64-3.6/layer1
creating build/temp.linux-x86_64-3.6/layer2
creating build/temp.linux-x86_64-3.6/layer3
creating build/temp.linux-x86_64-3.6/layer4
creating build/temp.linux-x86_64-3.6/layer5
creating build/temp.linux-x86_64-3.6/ov
creating build/temp.linux-x86_64-3.6/ov/src
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD build/generated/ShaderText.cpp -o build/temp.linux-x86_64-3.6/build/generated/ShaderText.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/mmtf-c/mmtf_parser.cpp -o build/temp.linux-x86_64-3.6/contrib/mmtf-c/mmtf_parser.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function ‘read_dcdstep’:
contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:546:16: warning: variable ‘readlen’ set but not used [-Wunused-but-set-variable]
     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]
 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]
 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]
 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]
 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]
 static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) {
                   ^~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-x86_64-3.6/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]
   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]
   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]
   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]
 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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp -o build/temp.linux-x86_64-3.6/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]
   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]
   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]
   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]
   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]
   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]
       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]
       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]
       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]
       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]
       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]
       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]
       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]
       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]
       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]
       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]
 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]
 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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-x86_64-3.6/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]
   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’
     if (NULL == fgets(fbuffer, 1024, data->file))
     ^~
contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:669:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(fbuffer, 1024, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:554:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   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]
     int last_ctnumber = -1;
         ^~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.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 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]
             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]
       store_array = (char **) (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]
         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]
   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]
 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]
 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]
 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]
 static void swap4_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
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:1620:18: warning: ‘item’ may be used uninitialized in this function [-Wmaybe-uninitialized]
             item += item_size;
             ~~~~~^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1601:19: warning: ‘other_data’ may be used uninitialized in this function [-Wmaybe-uninitialized]
       store_array = (char **) (elem_data + prop->offset);
       ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-x86_64-3.6/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]
     fread(buffer, fileLen, 1, file);
     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-x86_64-3.6/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]
   char *name, *type;
                ^~~~
contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:9: warning: variable ‘name’ set but not used [-Wunused-but-set-variable]
   char *name, *type;
         ^~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.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/psfplugin.c:30:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:103:12: warning: ‘fortread_4’ defined but not used [-Wunused-function]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 static int vmd_file_is_executable(const char * filename) {
            ^~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-x86_64-3.6/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]
   double  timesteprst;
           ^~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:67:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(title, 82, fd);
   ^~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:70:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, 82, fd);
   ^~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function ‘int read_spider_data(void*, int, float*, float*)’:
contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
   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]
 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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:96:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
     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]
     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]
       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]
         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]
       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]
       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]
       fgets(line, 80, infile);
       ~~~~~^~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.linux-x86_64-3.6/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]
 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’
        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]
 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’
        return ok;
        ^~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-x86_64-3.6/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/abinitplugin.c: In function ‘DEN_read_volumetric_data’:
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:970:5: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result]
     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:971:5: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result]
     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘POT_read_volumetric_data’:
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1113:5: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result]
     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1114:5: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result]
     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘abinit_header’:
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1511:3: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result]
   fread(skip, 1, 8, fp);
   ^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘GEO_read_next_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:619:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result]
     fscanf(data->file, "%*s %f %f %f", &x, &y, &z);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
 static int get_pte_idx_from_string(const char *label) {
            ^~~~~~~~~~~~~~~~~~~~~~~
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]
   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]
   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]
       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]
   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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘read_vasp5xdatcar_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:224:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(lineptr, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘read_vasp5xdatcar_structure’:
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:174:27: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file);
                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:180:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(lineptr, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:189:26: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
  for (i = 0; i < 3; ++i) fgets(lineptr, LINESIZE, data->file);
                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:194:4: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
    fgets(lineptr, LINESIZE, data->file);
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:204:26: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
  for (i = 0; i < 8; ++i) fgets(lineptr, LINESIZE, data->file);
                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘open_vasp5xdatcar_read’:
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:69:27: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file);
                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:72:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:77:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.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]
 static int get_pte_idx_from_string(const char *label) {
            ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘read_vaspchgcar_data’:
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:237:60: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file);
                                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:282:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(lineptr, LINESIZE, data->file);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘read_vaspchgcar_metadata’:
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:150:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘open_vaspchgcar_read’:
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:71:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:75:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:81:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(lineptr, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:92:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:103:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(lineptr, LINESIZE, data->file);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:131:44: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file);
                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:41:
At top level:
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: ‘vasp_timestep_unitcell’ defined but not used [-Wunused-function]
 static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
             ^~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.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 ‘void DDmkdir(const string&, mode_t, int, int)’:
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:15: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
  sprintf(sub, "%03x/", i);
               ^~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:15: note: directive argument in the range [0, 2147483647]
In file included from /usr/include/stdio.h:873,
                 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:36:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10 bytes into a destination of size 6
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __glibc_objsize (__s), __fmt,
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~           
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:22: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
      sprintf(subsub, "%03x", j);
                      ^~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:22: note: directive argument in the range [0, 2147483647]
In file included from /usr/include/stdio.h:873,
                 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:36:34: note: ‘__builtin___sprintf_chk’ output between 4 and 9 bytes into a destination of size 6
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __glibc_objsize (__s), __fmt,
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~           
contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘read_vaspoutcar_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:239:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(lineptr, LINESIZE, data->file);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:242:2: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
  fgets(lineptr, LINESIZE, data->file);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘read_vaspoutcar_structure’:
contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:204:9: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
         fgets(lineptr, LINESIZE, data->file);
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘open_vaspoutcar_read’:
contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:87:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.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]
 static int get_pte_idx_from_string(const char *label) {
            ^~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.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 ‘std::__cxx11::string framefile(const string&, size_t, size_t, int, int)’:
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:675:22: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
      sprintf(answer, "%03x/", d1);
                      ^~~~~~~
In file included from /usr/include/stdio.h:873,
                 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:36:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10 bytes into a destination of size 9
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __glibc_objsize (__s), __fmt,
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~           
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:22: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size between 0 and 5 [-Wformat-overflow=]
      sprintf(answer, "%03x/%03x/", d1, d2);
                      ^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:22: note: directive argument in the range [0, 2147483646]
In file included from /usr/include/stdio.h:873,
                 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:36:34: note: ‘__builtin___sprintf_chk’ output between 9 and 19 bytes into a destination of size 9
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __glibc_objsize (__s), __fmt,
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~           
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘read_vaspparchg_data’:
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:238:60: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file);
                                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘read_vaspparchg_metadata’:
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:150:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘open_vaspparchg_read’:
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:71:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:75:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:81:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(lineptr, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:92:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:103:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(lineptr, LINESIZE, data->file);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:131:44: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file);
                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:41:
At top level:
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: ‘vasp_timestep_unitcell’ defined but not used [-Wunused-function]
 static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
             ^~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:42:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
 static void whereami(FILE *file) {
             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
 static void thisline(FILE *file) {
             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1028:12: warning: ‘fpexpftoc’ defined but not used [-Wunused-function]
 static int fpexpftoc(char *ftocstr) {
            ^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1006:12: warning: ‘have_keyline’ defined but not used [-Wunused-function]
 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]
 static int goto_keyline(FILE *file, ...) {
            ^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:901:14: warning: ‘strtoupper’ defined but not used [-Wunused-function]
 static char *strtoupper(char *s) {
              ^~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:895:12: warning: ‘iswhiteline’ defined but not used [-Wunused-function]
 static int iswhiteline(char *s) {
            ^~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:846:13: warning: ‘eatwhitelines’ defined but not used [-Wunused-function]
 static void eatwhitelines(FILE *file) {
             ^~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:835:13: warning: ‘eatline’ defined but not used [-Wunused-function]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 static qmdata_t* init_qmdata() {
                  ^~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.linux-x86_64-3.6/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]
     strncpy(tmptype, atom->type, sizeof(atom->type));
                                        ^
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘read_vaspposcar_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:232:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:237:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(lineptr, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:246:43: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (i = 0; i < data->version - 2; ++i) fgets(lineptr, LINESIZE, data->file);
                                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:249:35: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file);
                                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:256:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(lineptr, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘read_vaspposcar_structure’:
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:195:42: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
  for (i = 0; i < data->version + 3; ++i) fgets(lineptr, LINESIZE, data->file);
                                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:198:34: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
  if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file);
                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:203:4: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
    fgets(lineptr, LINESIZE, data->file);
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘open_vaspposcar_read’:
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:69:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:73:27: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file);
                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:87:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(lineptr, LINESIZE, data->file);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
 static int get_pte_idx_from_string(const char *label) {
            ^~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
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]
     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]
     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]
     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]
   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]
     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]
         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]
     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]
     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]
     fgets(line, LINESIZE, fd);
     ~~~~~^~~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘read_vaspxdatcar_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:283:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘read_vaspxdatcar_structure’:
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:228:27: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (i = 0; i < 4; ++i) fgets(lineptr, LINESIZE, data->file);
                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:233:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(lineptr, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:237:32: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       for (i = 0; i < 2; ++i)  fgets(lineptr, LINESIZE, data->file);
                                ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:252:44: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   for (i = 0; i < 10 - data->version; ++i) fgets(lineptr, LINESIZE, data->file);
                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘open_vaspxdatcar_read’:
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:89:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, poscar);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:92:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, poscar);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:97:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(lineptr, LINESIZE, poscar);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:111:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(lineptr, LINESIZE, poscar);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:121:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(lineptr, LINESIZE, poscar);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.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]
 static int get_pte_idx_from_string(const char *label) {
            ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-x86_64-3.6/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/binposplugin.c: In function ‘open_binpos_read’:
contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:64:3: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result]
   fread(magicchar,sizeof(char),4,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:72:3: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result]
   fread(&igarb,sizeof(int),1,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function ‘read_vaspxml_structure’:
contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:139:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(lineptr, LINESIZE, data->file);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:144:9: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
         fgets(lineptr, LINESIZE, data->file);
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function ‘open_vaspxml_read’:
contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:86:8: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
        fgets(lineptr, LINESIZE, data->file);
        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:92:8: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
        fgets(lineptr, LINESIZE, data->file);
        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:47:
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]
 static int get_pte_idx_from_string(const char *label) {
            ^~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-x86_64-3.6/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]
         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]
   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]
   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]
   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]
   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]
   fscanf(fd, " %s %f %f %f %f %f %f", keyWord,
   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
          &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]
   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]
   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]
   fscanf(fd, " %s %f", keyWord, &sigma);
   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_timestep’:
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:326:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:339:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:344:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:349:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:363:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(line, LINESIZE, data->file);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:373:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_structure’:
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:266:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:268:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:272:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, LINESIZE, data->file);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:295:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(line, LINESIZE, data->file);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:305:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, data->file);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘open_car_read’:
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:169:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, LINESIZE, fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:179:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, LINESIZE, fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:182:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, fd);
     ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:210:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, LINESIZE, fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:213:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, LINESIZE, fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:224:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, fd);
     ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:226:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, fd);
     ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:230:3: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, LINESIZE, fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:234:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
       fgets(line, LINESIZE, fd);
       ^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:245:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, LINESIZE, fd);
     ^~~~~~~~~~~~~~~~~~~~~~~~~
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=]
     sprintf(atom->resname, "%d", resid);
                             ^~
contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:28: note: directive argument in the range [-2147483648, 9999999]
     sprintf(atom->resname, "%d", resid);
                            ^~~~
In file included from /usr/include/stdio.h:873,
                 from contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:85:
/usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 2 and 12 bytes into a destination of size 8
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __glibc_objsize (__s), __fmt,
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.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]
         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]
         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]
         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]
         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]
         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]
         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]
       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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/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]
     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]
       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]
     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]
       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]
     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]
       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]
     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]
     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]
       fgets(line, LINESIZE, fd);
       ~~~~~^~~~~~~~~~~~~~~~~~~~
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:287:42: warning: ‘dataOffset’ may be used uninitialized in this function [-Wmaybe-uninitialized]
     } else if ((dataOffset > CCP4HDSIZE) && (dataOffset < (1024*1024))) {
                ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
   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]
   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]
         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]
         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]
 static int vmdcon_printf(int lvl, const char *fmt, ...) {
            ^~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-x86_64-3.6/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/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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
   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]
   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]
   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]
   fgets(line, LINESIZE, fd);  // Read the charge_type
   ~~~~~^~~~~~~~~~~~~~~~~~~~
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]
     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]
     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]
     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]
   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]
     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]
         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]
     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]
     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]
     fgets(line, LINESIZE, fd);
     ~~~~~^~~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/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]
   molfile_qm_hessian_t *hessian_data;
                         ^~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘count_orbitals’:
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1165:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result]
   fscanf(data->file, " Ene= %f\n", &orbenergy);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1166:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result]
   fscanf(data->file, " Spin= %s\n", spin);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1167:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result]
   fscanf(data->file, " Occup= %f\n", &occu);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘eatline’:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(readbuf, 1024, fd);
     ^~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘open_molden_read’:
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:224:11: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result]
           fscanf(data->file, "%d", &natm);
           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
 static void whereami(FILE *file) {
             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
 static void thisline(FILE *file) {
             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1006:12: warning: ‘have_keyline’ defined but not used [-Wunused-function]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 static const char *get_pte_label(const int idx)
                    ^~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.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]
   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]
   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]
       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]
       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]
     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]
       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]
     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]
 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]
 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]
 static int get_pte_idx(const char *label)
            ^~~~~~~~~~~
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]
   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]
         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]
               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]
               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]
               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]
               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]
               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]
                 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]
           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]
 static int get_pte_idx_from_string(const char *label) {
            ^~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Feedback.cpp -o build/temp.linux-x86_64-3.6/layer0/Feedback.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/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]
   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]
   fgets(readbuf, 1024, fd);    // go on to next line
   ~~~~~^~~~~~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:57:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
 static int get_pte_idx_from_string(const char *label) {
            ^~~~~~~~~~~~~~~~~~~~~~~
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]
     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]
     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]
    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]
      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]
               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]
      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]
                      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]
          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]
                  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]
          fgets(line, 80, infile);
          ~~~~~^~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Block.cpp -o build/temp.linux-x86_64-3.6/layer0/Block.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.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]
   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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/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]
   int i, numatoms;
          ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function ‘open_namdbin_read’:
contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:78:3: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result]
   fread(&filen, sizeof(namdbin_int32), 1, fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
   char word[3][BUFSIZ];
        ^~~~
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]
   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]
   char word[6][BUFSIZ];
        ^~~~
In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘eatline’:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result]
     fgets(readbuf, 1024, fd);
     ^~~~~~~~~~~~~~~~~~~~~~~~
At top level:
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1002:13: warning: ‘print_input_data’ defined but not used [-Wunused-function]
 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]
 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]
 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]
 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]
 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]
 static void whereami(FILE *file) {
             ^~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c -o build/temp.linux-x86_64-3.6/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/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
 static void thisline(FILE *file) {
             ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1028:12: warning: ‘fpexpftoc’ defined but not used [-Wunused-function]
 static int fpexpftoc(char *ftocstr) {
            ^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:901:14: warning: ‘strtoupper’ defined but not used [-Wunused-function]
 static char *strtoupper(char *s) {
              ^~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:895:12: warning: ‘iswhiteline’ defined but not used [-Wunused-function]
 static int iswhiteline(char *s) {
            ^~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:585:13: warning: ‘print_matrix4’ defined but not used [-Wunused-function]
 static void print_matrix4(const float mat[16]) {
             ^~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Field.cpp -o build/temp.linux-x86_64-3.6/layer0/Field.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer0/Field.cpp: In function ‘PyObject* FieldAsNumPyArray(CField*, short int)’:
layer0/Field.cpp:83:1: warning: label ‘ok_except1’ defined but not used [-Wunused-label]
 ok_except1:
 ^~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/CarveHelper.cpp -o build/temp.linux-x86_64-3.6/layer0/CarveHelper.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
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]
   ok = ok && I->size() == size;
              ~~~~~~~~~~^~~~~~~
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]
         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]
       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]
       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]
       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]
   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]
   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]
   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]
   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]
   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]
   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]
     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]
   fscanf(file,parm7,
   ~~~~~~^~~~~~~~~~~~
          &prm->Natom,  &prm->Ntypes, &prm->Nbonh, &prm->Nbona,
          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
          &prm->Ntheth, &prm->Ntheta, &prm->Nphih, &prm->Nphia,
          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
          &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]
   fscanf(file, parm7,
   ~~~~~~^~~~~~~~~~~~~
          &prm->Nnb,   &prm->Nres,   &prm->Mbona,  &prm->Mtheta,
          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
          &prm->Mphia, &prm->Numbnd, &prm->Numang, &prm->Mptra,
          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
          &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]
   fscanf(file, parm7,  &prm->Ifpert, &prm->Nbper,  &prm->Ngper,
   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
          &prm->Ndper, &prm->Mbper,  &prm->Mgper, &prm->Mdper,
          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
          &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]
   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]
   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]
   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]
   fscanf(file, "%s\n", buf);
   ~~~~~~^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/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:114:12:   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]
     assert(sizeof...(pos) <= n_dim());
            ~~~~~~~~~~~~~~~^~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_basis_options’:
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1398:41: warning: ‘%s’ directive writing up to 8191 bytes into a region of size 8190 [-Wformat-overflow=]
       sprintf(data->basis_string, "%d-%s%sG%s",
                                         ^~
               ngauss, (data->gbasis+1), diffuse,
                                         ~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:27,
                 from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160:
/usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output 4 or more bytes (assuming 16386) into a destination of size 8192
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __glibc_objsize (__s), __fmt,
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1394:43: warning: ‘%s’ directive writing up to 8191 bytes into a region of size between 8176 and 8186 [-Wformat-overflow=]
       sprintf(data->basis_string, "STO-%dG%s%s",
                                           ^~
               ngauss, diffuse, polarization);
                       ~~~~~~~              
In file included from /usr/include/stdio.h:873,
                 from contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:27,
                 from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160:
/usr/include/bits/stdio2.h:36:10: note: ‘__builtin___sprintf_chk’ output between 7 and 16399 bytes into a destination of size 8192
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __glibc_objsize (__s), __fmt,
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-x86_64-3.6/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]
           fscanf(file, " " DBLFMT, &prm->Charges[i]);
           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:444:10: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result]
    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]
           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]
           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]
           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]
           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]
           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]
           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]
           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]
           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]
           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]
           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]
           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]
           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]
           fscanf(file, " " DBLFMT, &H[i]);
           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:853:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result]
   fscanf(file, " " DBLFMT " " DBLFMT " " DBLFMT,
   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     &prm->Box[0], &prm->Box[1], &prm->Box[2]);
     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:867:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result]
   fscanf(file, " %d " DBLFMT " " DBLFMT " " DBLFMT " " DBLFMT,
   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     &prm->Natcap, &prm->Cutcap,
     ~~~~~~~~~~~~~~~~~~~~~~~~~~~
     &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]
   float m_cutoff;
         ^~~~~~~~
layer0/CarveHelper.h:22:16: warning:   ‘const float* CarveHelper::m_vertices’ [-Wreorder]
   const float* m_vertices;
                ^~~~~~~~~~
layer0/CarveHelper.cpp:20:1: warning:   when initialized here [-Wreorder]
 CarveHelper::CarveHelper(PyMOLGlobals* G, float cutoff, const float* vertices,
 ^~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/ContourSurf.cpp -o build/temp.linux-x86_64-3.6/layer0/ContourSurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:53:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:32:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘get_pte_idx’ defined but not used [-Wunused-function]
 static int get_pte_idx(const char *label)
            ^~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/File.cpp -o build/temp.linux-x86_64-3.6/layer0/File.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
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]
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:284:3: note: in expansion of macro ‘TRASH’
   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]
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:291:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:305:3: note: in expansion of macro ‘TRASH’
   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]
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:307:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:311:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:313:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:318:3: note: in expansion of macro ‘TRASH’
   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]
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:320:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:328:3: note: in expansion of macro ‘TRASH’
   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]
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:330:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:354:3: note: in expansion of macro ‘TRASH’
   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]
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:356:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:357:3: note: in expansion of macro ‘TRASH’
   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]
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:359:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:360:3: note: in expansion of macro ‘TRASH’
   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]
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:362:3: note: in expansion of macro ‘TRASH’
   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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:371:5: note: in expansion of macro ‘TRASH’
     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]
     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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:373:5: note: in expansion of macro ‘TRASH’
     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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:374:5: note: in expansion of macro ‘TRASH’
     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]
     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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:394:5: note: in expansion of macro ‘TRASH’
     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]
     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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:396:5: note: in expansion of macro ‘TRASH’
     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]
 #define TRASH fread(trash, 4, 1, infile)
               ~~~~~^~~~~~~~~~~~~~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:397:5: note: in expansion of macro ‘TRASH’
     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]
     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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/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:114:12:   required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int}]’
layer0/ContourSurf.cpp:410:58:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
     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:114:12:   required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int, int}]’
layer0/ContourSurf.cpp:419:47:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp -o build/temp.linux-x86_64-3.6/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]
   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]
   int i, count, atomdata, pos, idx, xyzcount, j;
                                               ^
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:503:8: warning: unused variable ‘oldChain’ [-Wunused-variable]
   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]
   int bondTable[32];
       ^~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:807:15: warning: unused variable ‘j’ [-Wunused-variable]
   int i, pos, j, k;
               ^
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:811:8: warning: unused variable ‘modelNum’ [-Wunused-variable]
   char modelNum[8];
        ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:822:20: warning: unused variable ‘atom’ [-Wunused-variable]
   molfile_atom_t * atom;
                    ^~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:884:7: warning: unused variable ‘test’ [-Wunused-variable]
   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]
   int bondTable[32];
       ^~~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:988:15: warning: unused variable ‘j’ [-Wunused-variable]
   int i, pos, j, k;
               ^
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:991:8: warning: unused variable ‘modelNum’ [-Wunused-variable]
   char modelNum[8];
        ^~~~~~~~
contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1002:20: warning: unused variable ‘atom’ [-Wunused-variable]
   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]
   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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/GenericBuffer.cpp -o build/temp.linux-x86_64-3.6/layer0/GenericBuffer.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Crystal.cpp -o build/temp.linux-x86_64-3.6/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]
   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]
 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]
 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]
 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]
 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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-x86_64-3.6/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:426:7: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result]
  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]
 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]
 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]
 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]
 static void swap2_unaligned(void *v, long ndata) {
             ^~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/ShaderMgr.cpp -o build/temp.linux-x86_64-3.6/layer0/ShaderMgr.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/hash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/GraphicsUtil.cpp -o build/temp.linux-x86_64-3.6/layer0/GraphicsUtil.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/inthash.c -o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/inthash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Deferred.cpp -o build/temp.linux-x86_64-3.6/layer0/Deferred.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -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/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.linux-x86_64-3.6/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:89:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘swap8_unaligned’ defined but not used [-Wunused-function]
 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]
 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]
 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]
 static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) {
                   ^~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Err.cpp -o build/temp.linux-x86_64-3.6/layer0/Err.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Isosurf.cpp -o build/temp.linux-x86_64-3.6/layer0/Isosurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/ButMode.cpp -o build/temp.linux-x86_64-3.6/layer1/ButMode.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Movie.cpp -o build/temp.linux-x86_64-3.6/layer1/Movie.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/c++/8/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]
     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:134:33:   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:114:12:   required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’
layer0/Field.h:144:33:   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:114:12:   required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int, int}]’
layer0/Field.h:144:33:   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*)’:
layer1/ButMode.cpp:144:14: warning: deleting object of polymorphic class type ‘CButMode’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(G->ButMode);
              ^~~~~~~
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/CGO.cpp -o build/temp.linux-x86_64-3.6/layer1/CGO.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Map.cpp -o build/temp.linux-x86_64-3.6/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]
     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]
           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]
             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]
             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]
           for (int nxt = 0; nxt < attribOp->incr_vertices; ++nxt){
                             ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Ortho.cpp -o build/temp.linux-x86_64-3.6/layer1/Ortho.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Match.cpp -o build/temp.linux-x86_64-3.6/layer0/Match.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Matrix.cpp -o build/temp.linux-x86_64-3.6/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]
 void OrthoKeyCmmd(PyMOLGlobals * G, unsigned char k)
      ^~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/ShaderPrg.cpp -o build/temp.linux-x86_64-3.6/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:495,
                 from /usr/include/python3.6m/Python.h:30,
                 from layer0/os_python.h:34,
                 from layer1/Ortho.cpp:24:
In function ‘char* strcat(char*, const char*)’,
    inlined from ‘void OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at layer1/Ortho.cpp:332:13:
/usr/include/bits/string_fortified.h:143:33: warning: ‘char* __builtin_strcat(char*, const char*)’ accessing 81 or more bytes at offsets [80, 261200] and [0, 9223372036854775807] may overlap 1 byte at offset [80, 9223372036854775807] [-Wrestrict]
   return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest));
          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘char* strcat(char*, const char*)’,
    inlined from ‘void OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at layer1/Ortho.cpp:349:13:
/usr/include/bits/string_fortified.h:143:33: warning: ‘char* __builtin_strcat(char*, const char*)’ accessing 81 or more bytes at offsets [80, 261200] and [0, 9223372036854775807] may overlap 1 byte at offset [80, 9223372036854775807] [-Wrestrict]
   return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest));
          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/MemoryDebug.cpp -o build/temp.linux-x86_64-3.6/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]
       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]
        (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]
       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]
     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]
     if((index >= 0) && (count > 0) && (index <= old_size)) {
                                        ~~~~~~^~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/MemoryUsage.cpp -o build/temp.linux-x86_64-3.6/layer0/MemoryUsage.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/P.cpp -o build/temp.linux-x86_64-3.6/layer1/P.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Sphere.cpp -o build/temp.linux-x86_64-3.6/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=]
     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]
     std::fscanf(fp, "%*zu%zu", &vmRSS);
     ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/MyPNG.cpp -o build/temp.linux-x86_64-3.6/layer0/MyPNG.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Tetsurf.cpp -o build/temp.linux-x86_64-3.6/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]
       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]
           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]
             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]
       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]
       if (valint == -1 && PyErr_Occurred())
           ~~~~~~~^~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Parse.cpp -o build/temp.linux-x86_64-3.6/layer0/Parse.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/P.cpp: At global scope:
layer1/P.cpp:2422:13: warning: ‘void PLockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function]
 static void PLockAPIWhileBlocked(PyMOLGlobals * G)
             ^~~~~~~~~~~~~~~~~~~~
layer1/P.cpp:2411:13: warning: ‘void PUnlockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function]
 static void PUnlockAPIWhileBlocked(PyMOLGlobals * G)
             ^~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Pixmap.cpp -o build/temp.linux-x86_64-3.6/layer0/Pixmap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/c++/8/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]
     assert(sizeof...(pos) <= n_dim());
            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = PointType; SizeTs = {int, int, int, int}]’:
layer0/Tetsurf.cpp:831:27:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’:
layer0/Field.h:114:12:   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:114:12:   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++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/PostProcess.cpp -o build/temp.linux-x86_64-3.6/layer0/PostProcess.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/P.cpp: In function ‘int PLabelAtomAlt(PyMOLGlobals*, AtomInfoType*, const char*, const char*, int)’:
layer1/P.cpp:322:12: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound 1024 equals destination size [-Wstringop-truncation]
     strncpy(label, origexpr, OrthoLineLength);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/PConv.cpp -o build/temp.linux-x86_64-3.6/layer1/PConv.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Seq.cpp -o build/temp.linux-x86_64-3.6/layer1/Seq.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Texture.cpp -o build/temp.linux-x86_64-3.6/layer0/Texture.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]
   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]
     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]
         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]
       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]
         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*)’:
layer1/Seq.cpp:731:14: warning: deleting object of polymorphic class type ‘CSeq’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(G->Seq);
              ^~~
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
layer1/Seq.cpp: At global scope:
layer1/Seq.cpp:717:13: warning: ‘void SeqPurgeRowVLA(PyMOLGlobals*)’ defined but not used [-Wunused-function]
 static void SeqPurgeRowVLA(PyMOLGlobals * G)
             ^~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Picking.cpp -o build/temp.linux-x86_64-3.6/layer1/Picking.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Tracker.cpp -o build/temp.linux-x86_64-3.6/layer0/Tracker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Pop.cpp -o build/temp.linux-x86_64-3.6/layer1/Pop.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Setting.cpp -o build/temp.linux-x86_64-3.6/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*)’:
layer1/Pop.cpp:54:14: warning: deleting object of polymorphic class type ‘CPop’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(G->Pop);
              ^~~
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Triangle.cpp -o build/temp.linux-x86_64-3.6/layer0/Triangle.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/PyMOLObject.cpp -o build/temp.linux-x86_64-3.6/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]
     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’
       SceneInvalidate(G);
       ^~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Util.cpp -o build/temp.linux-x86_64-3.6/layer0/Util.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Ray.cpp -o build/temp.linux-x86_64-3.6/layer1/Ray.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Util2.cpp -o build/temp.linux-x86_64-3.6/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]
       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]
       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]
       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]
         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]
           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]
           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]
             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]
               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]
                   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]
                   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]
           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]
             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]
                   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]
                   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]
                   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]
                   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]
                   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]
                   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]
       for(y = 0; y < height; y++) {
                  ~~^~~~~~~~
layer1/Ray.cpp:6544:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
  for(x = 0; x < width; x++) {
             ~~^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Vector.cpp -o build/temp.linux-x86_64-3.6/layer0/Vector.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/Word.cpp -o build/temp.linux-x86_64-3.6/layer0/Word.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Ray.cpp: In function ‘int RayTraceThread(CRayThreadInfo*)’:
layer1/Ray.cpp:3606:32: warning: ‘hl’ may be used uninitialized in this function [-Wmaybe-uninitialized]
    compute_background_for_pixel(bkrd_uc, isOutsideInY,
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
               bg_image_mode, bg_image_tilesize, bg_rgb, bg_image_linear,
               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
               (unsigned char*) T->bkrd_data, T->bgWidth, T->bgHeight,
               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
               x, wr, hl, hpixelx, orig_opaque_back );
               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/COLLADA.cpp -o build/temp.linux-x86_64-3.6/layer1/COLLADA.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/ccealignmodule.cpp -o build/temp.linux-x86_64-3.6/layer0/ccealignmodule.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from include/tnt/tnt.h:49,
                 from layer0/ccealignmodule.cpp:39:
include/tnt/tnt_array2d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, TNT::Array2D<T>&)’:
include/tnt/tnt_array2d_utils.h:62:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
     for (int i=0; i<M; i++)
     ^~~
include/tnt/tnt_array2d_utils.h:68:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  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]
     for (int i=0; i<M; i++)
     ^~~
include/tnt/tnt_array3d_utils.h:52:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  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]
     for (int i=1; i<=M; i++)
     ^~~
include/tnt/tnt_fortran_array2d_utils.h:67:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  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]
     for (int i=1; i<=M; i++)
     ^~~
include/tnt/tnt_fortran_array3d_utils.h:70:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  A = B;
  ^
layer1/Ray.cpp: In function ‘void RayRenderVRML2(CRay*, int, int, char**, float, float, float, float, float)’:
layer1/Ray.cpp:1531:19: warning: ‘%s’ directive writing up to 1023 bytes into a region of size between 0 and 914 [-Wformat-overflow=]
                   "Transform {\n"
                   ^~~~~~~~~~~~~~~
                   " translation %8.6f %8.6f %8.6f\n"
                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                   " rotation %8.6f %8.6f %8.6f %8.6f\n"
                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                   " children [\n"
                   ~~~~~~~~~~~~~~~
                   "%s"
                   ~~~~
                   " ]\n"
                   ~~~~~~
                   "}\n",
                   ~~~~~
layer1/Ray.cpp:1540:72:
                   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
           sprintf(buffer,
           ~~~~~~~^~~~~~~~
                   "Transform {\n"
                   ~~~~~~~~~~~~~~~
                   " translation %8.6f %8.6f %8.6f\n"
                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                   " rotation %8.6f %8.6f %8.6f %8.6f\n"
                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                   " children [\n"
                   ~~~~~~~~~~~~~~~
                   "%s"
                   ~~~~
                   " ]\n"
                   ~~~~~~
                   "}\n",
                   ~~~~~~
                   vert2[0] - mid[0],
                   ~~~~~~~~~~~~~~~~~~
                   vert2[1] - mid[1],
                   ~~~~~~~~~~~~~~~~~~
                   vert2[2] - mid[2], axis[0], axis[1], axis[2], angle, geometry);
                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Character.cpp -o build/temp.linux-x86_64-3.6/layer1/Character.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/marching_cubes.cpp -o build/temp.linux-x86_64-3.6/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]
   for (int z = 0; z < zDim; ++z) {
                   ~~^~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Rep.cpp -o build/temp.linux-x86_64-3.6/layer1/Rep.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer0/marching_cubes.cpp:550:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare]
   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]
           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]
         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]
   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]
   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]
   for (int i = 0; i < vertexCount; ++i) {
                   ~~^~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Color.cpp -o build/temp.linux-x86_64-3.6/layer1/Color.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer0/os_gl.cpp -o build/temp.linux-x86_64-3.6/layer0/os_gl.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Basis.cpp -o build/temp.linux-x86_64-3.6/layer1/Basis.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Shaker.cpp -o build/temp.linux-x86_64-3.6/layer1/Shaker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Scene.cpp -o build/temp.linux-x86_64-3.6/layer1/Scene.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]
     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]
   for (int a = 0; a < n_ext; ++a) {
                   ~~^~~~~~~
In file included from /usr/include/c++/8/cassert:44,
                 from /usr/include/glm/detail/setup.hpp:28,
                 from /usr/include/glm/detail/precision.hpp:6,
                 from /usr/include/glm/detail/type_vec.hpp:6,
                 from /usr/include/glm/detail/type_vec2.hpp:6,
                 from /usr/include/glm/vec2.hpp:6,
                 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]
     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]
     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]
     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]
     if (index >= I->Color.size()) {
         ~~~~~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/cassert:44,
                 from /usr/include/glm/detail/setup.hpp:28,
                 from /usr/include/glm/detail/precision.hpp:6,
                 from /usr/include/glm/detail/type_vec.hpp:6,
                 from /usr/include/glm/detail/type_vec2.hpp:6,
                 from /usr/include/glm/vec2.hpp:6,
                 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]
       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]
       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]
   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]
     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]
   if((index >= 0) && (index < I->Color.size())) {
                       ~~~~~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/cassert:44,
                 from /usr/include/glm/detail/setup.hpp:28,
                 from /usr/include/glm/detail/precision.hpp:6,
                 from /usr/include/glm/detail/type_vec.hpp:6,
                 from /usr/include/glm/detail/type_vec2.hpp:6,
                 from /usr/include/glm/vec2.hpp:6,
                 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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1026:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1027:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1028:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1029:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1030:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1031:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1032:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1033:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1034:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1035:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1036:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1037:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1038:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1039:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1040:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1041:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1042:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1043:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1044:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1045:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1046:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1047:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1048:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1049:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1050:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1051:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1052:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1053:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1054:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1055:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1056:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1057:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1058:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1059:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1060:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1061:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1062:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1063:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1064:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1065:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1066:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1067:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1068:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1069:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1070:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1071:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1072:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1073:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1074:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1075:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1076:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1077:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1078:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1079:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1088:5: note: in expansion of macro ‘reg_named_color’
     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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1091:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1105:5: note: in expansion of macro ‘reg_named_color’
     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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1121:5: note: in expansion of macro ‘reg_named_color’
     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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1137:5: note: in expansion of macro ‘reg_named_color’
     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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1155:5: note: in expansion of macro ‘reg_named_color’
     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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1161:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1168:5: note: in expansion of macro ‘reg_named_color’
     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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1183:5: note: in expansion of macro ‘reg_named_color’
     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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1189:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1190:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1191:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1192:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1193:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1194:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1195:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1196:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1197:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1198:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1199:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1200:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1201:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1202:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1203:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1204:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1205:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1208:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1210:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1211:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1212:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1213:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1214:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1215:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1216:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1217:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1218:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1219:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1220:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1221:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1222:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1223:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1224:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1225:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1226:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1227:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1228:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1229:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1230:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1231:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1232:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1233:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1234:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1235:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1236:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1237:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1238:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1239:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1240:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1241:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1242:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1243:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1244:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1245:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1246:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1247:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1248:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1249:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1250:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1251:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1252:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1253:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1254:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1255:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1256:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1257:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1258:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1259:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1260:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1261:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1262:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1263:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1264:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1265:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1266:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1267:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1268:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1269:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1270:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1271:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1272:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1273:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1274:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1275:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1276:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1277:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1278:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1279:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1280:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1281:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1282:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1283:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1284:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1285:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1286:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1287:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1288:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1289:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1290:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1291:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1292:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1293:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1294:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1295:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1296:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1297:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1298:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1299:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1300:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1301:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1302:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1303:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1304:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1305:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1306:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1307:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1308:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1309:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1310:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1311:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1312:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1313:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1314:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1315:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1316:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1317:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1318:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1319:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1320:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1321:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1322:3: note: in expansion of macro ‘reg_named_color’
   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]
     assert(I->Idx[name] == Color.size() - 1);                                  \
layer1/Color.cpp:1323:3: note: in expansion of macro ‘reg_named_color’
   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]
   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]
     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]
   if((index >= 0) && (index < I->Color.size())) {
                       ~~~~~~^~~~~~~~~~~~~~~~~
layer1/Color.cpp: In function ‘const float* ColorGetRaw(PyMOLGlobals*, int)’:
layer1/Color.cpp:1835:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   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]
   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:304:58:   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]
   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:626:56:   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:741:66:   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]
   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:743:76:   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++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/SymOp.cpp -o build/temp.linux-x86_64-3.6/layer1/SymOp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/SymOp.cpp: In member function ‘std::__cxx11::string pymol::SymOp::to_string() const’:
layer1/SymOp.cpp:37:26: warning: ‘%d’ directive output may be truncated writing between 1 and 4 bytes into a region of size between 0 and 5 [-Wformat-truncation=]
   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]
layer1/SymOp.cpp:37:26: note: directive argument in the range [-123, 132]
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from layer1/SymOp.h:9,
                 from layer1/SymOp.cpp:7:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 6 and 17 bytes into a destination of size 8
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/SymOpPConv.cpp -o build/temp.linux-x86_64-3.6/layer1/SymOpPConv.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/SymOpTools.cpp -o build/temp.linux-x86_64-3.6/layer1/SymOpTools.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 ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   for(i = 0; i < cSceneViewSize; i++) {
              ~~^~~~~~~~~~~~~~~~
layer1/Scene.cpp: In function ‘void SceneFree(PyMOLGlobals*)’:
layer1/Scene.cpp:4071:13: warning: deleting object of polymorphic class type ‘CScene’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   delete G->Scene;
             ^~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/CifFile.cpp -o build/temp.linux-x86_64-3.6/layer2/CifFile.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Symmetry.cpp -o build/temp.linux-x86_64-3.6/layer1/Symmetry.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/CifMoleculeReader.cpp -o build/temp.linux-x86_64-3.6/layer2/CifMoleculeReader.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Text.cpp -o build/temp.linux-x86_64-3.6/layer1/Text.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/CifMoleculeReader.cpp: In member function ‘void seqvec_t::set(int, const char*)’:
layer2/CifMoleculeReader.cpp:108:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     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]
     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]
       while (j < c_src_len * c_it->size()) {
              ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/SceneMouse.cpp -o build/temp.linux-x86_64-3.6/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]
     if (atIndex == LastPicked.src.index)
         ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
layer1/SceneMouse.cpp: In function ‘void SceneClickTransformObject(PyMOLGlobals*, pymol::CObject*, const NamedPicking&, int, bool)’:
layer1/SceneMouse.cpp:455:11: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 237 [-Wformat-truncation=]
           " You clicked %s -> (%s)\n", buffer.c_str(), name ENDFB(G);
           ^~~~~~~~~~~~~~~~~~~~~~~~~~~                  ~~~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/bits/locale_classes.h:40,
                 from /usr/include/c++/8/bits/ios_base.h:41,
                 from /usr/include/c++/8/ios:42,
                 from /usr/include/c++/8/ostream:38,
                 from include/pymol/zstring_view.h:12,
                 from layer1/SceneMouse.h:4,
                 from layer1/SceneMouse.cpp:1:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output 21 or more bytes (assuming 276) into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/ScenePicking.cpp -o build/temp.linux-x86_64-3.6/layer1/ScenePicking.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/ScenePicking.cpp: In function ‘void SceneRenderPicking(PyMOLGlobals*, int, int*, int, Picking*, int, int, Multipick*, SceneUnitContext*, GLenum)’:
layer1/ScenePicking.cpp:249:7: warning: ‘previous.Picking::src.Pickable::index’ may be used uninitialized in this function [-Wmaybe-uninitialized]
       if (pik->src.index != previous.src.index ||
       ^~
layer1/ScenePicking.cpp:238:11: note: ‘previous.Picking::src.Pickable::index’ was declared here
   Picking previous;
           ^~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/SceneRay.cpp -o build/temp.linux-x86_64-3.6/layer1/SceneRay.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/CoordSet.cpp -o build/temp.linux-x86_64-3.6/layer2/CoordSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Control.cpp -o build/temp.linux-x86_64-3.6/layer1/Control.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/c++/8/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]
   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]
   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]
     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]
     assert(NAtIndex <= nAtom);
            ~~~~~~~~~^~~~~~~~
layer2/CoordSet.cpp:1573:18: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare]
     if (NAtIndex < nAtom) {
         ~~~~~~~~~^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/SceneRender.cpp -o build/temp.linux-x86_64-3.6/layer1/SceneRender.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]
       strncpy(anisoline, "ANISOU", 6);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
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*)’:
layer1/Control.cpp:410:14: warning: deleting object of polymorphic class type ‘CControl’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(G->Control);
              ^~~~~~~
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Extrude.cpp -o build/temp.linux-x86_64-3.6/layer1/Extrude.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/DistSet.cpp -o build/temp.linux-x86_64-3.6/layer2/DistSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/ScrollBar.cpp -o build/temp.linux-x86_64-3.6/layer1/ScrollBar.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/TypeFace.cpp -o build/temp.linux-x86_64-3.6/layer1/TypeFace.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/View.cpp -o build/temp.linux-x86_64-3.6/layer1/View.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]
   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]
   if (atm < 0 || atm >= this->LabPos.size()) {
                  ~~~~^~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectGadgetRamp.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectGadgetRamp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer1/Extrude.cpp: In function ‘int ExtrudeCGOSurfaceTube(const CExtrude*, CGO*, cCylCap, const float*, bool, int)’:
layer1/Extrude.cpp:875:14: warning: ‘stop’ may be used uninitialized in this function [-Wmaybe-uninitialized]
   int start, stop;
              ^~~~
layer1/Extrude.cpp:875:7: warning: ‘start’ may be used uninitialized in this function [-Wmaybe-uninitialized]
   int start, stop;
       ^~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Font.cpp -o build/temp.linux-x86_64-3.6/layer1/Font.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/GadgetSet.cpp -o build/temp.linux-x86_64-3.6/layer2/GadgetSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/FontGLUT.cpp -o build/temp.linux-x86_64-3.6/layer1/FontGLUT.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/Wizard.cpp -o build/temp.linux-x86_64-3.6/layer1/Wizard.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectGroup.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectGroup.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]
         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]
     else
     ^~~~
layer1/Wizard.cpp:729:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
       drawTopEdge();
       ^~~~~~~~~~~
In file included from layer1/Wizard.cpp:27:
layer1/Wizard.cpp: In function ‘void WizardFree(PyMOLGlobals*)’:
layer1/Wizard.cpp:845:14: warning: deleting object of polymorphic class type ‘CWizard’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(G->Wizard);
              ^~~~~~
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/FontGLUT8x13.cpp -o build/temp.linux-x86_64-3.6/layer1/FontGLUT8x13.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/HydrogenAdder.cpp -o build/temp.linux-x86_64-3.6/layer2/HydrogenAdder.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/FontGLUT9x15.cpp -o build/temp.linux-x86_64-3.6/layer1/FontGLUT9x15.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/FontGLUTHel10.cpp -o build/temp.linux-x86_64-3.6/layer1/FontGLUTHel10.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectMap.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectMap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/FontGLUTHel12.cpp -o build/temp.linux-x86_64-3.6/layer1/FontGLUTHel12.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]
   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]
   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]
     for (unsigned idx = 0; idx < cs->NIndex; ++idx) {
                            ~~~~^~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/FontGLUTHel18.cpp -o build/temp.linux-x86_64-3.6/layer1/FontGLUTHel18.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/AssemblyHelpers.cpp -o build/temp.linux-x86_64-3.6/layer2/AssemblyHelpers.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer1/FontType.cpp -o build/temp.linux-x86_64-3.6/layer1/FontType.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/MmodTyping.cpp -o build/temp.linux-x86_64-3.6/layer2/MmodTyping.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]
   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]
   } 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]
   } 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]
   } 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]
   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]
   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]
     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]
       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]
       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]
   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]
   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]
     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]
   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]
   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]
   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]
   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]
   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]
   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]
   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]
       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]
   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]
         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]
     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]
     if(I->State.size() <= state) {
        ~~~~~~~~~~~~~~~~^~~~~~~~
In file included from /usr/include/c++/8/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]
     assert(sizeof...(pos) <= n_dim());
            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’:
layer2/ObjectMap.cpp:1605:14:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’:
layer0/Field.h:114:12:   required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’
layer2/ObjectMap.cpp:5967:57:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/MmtfMoleculeReader.cpp -o build/temp.linux-x86_64-3.6/layer2/MmtfMoleculeReader.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/lib64/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:27,
                 from /usr/lib64/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4,
                 from layer0/os_numpy.h:8,
                 from layer2/ObjectMap.cpp:22:
/usr/lib64/python3.6/site-packages/numpy/core/include/numpy/__multiarray_api.h: At global scope:
/usr/lib64/python3.6/site-packages/numpy/core/include/numpy/__multiarray_api.h:1463:1: warning: ‘int _import_array()’ defined but not used [-Wunused-function]
 _import_array(void)
 ^~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/AtomInfo.cpp -o build/temp.linux-x86_64-3.6/layer2/AtomInfo.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepDistLabel.cpp -o build/temp.linux-x86_64-3.6/layer2/RepDistLabel.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]
         for (int l = 0, offset = atomIndex; l < group->bondAtomListCount / 2; ++l) {
                                             ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/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]
     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]
   for (int l = 0; l < container->bondAtomListCount / 2; ++l) {
                   ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
     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]
   return snprintf(resi, size, "%d", resv) < size;
          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/Mol2Typing.cpp -o build/temp.linux-x86_64-3.6/layer2/Mol2Typing.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMap.cpp: In function ‘void ObjectMapDump(const ObjectMap*, const char*, int, int)’:
layer2/ObjectMap.cpp:5982:7: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 239 [-Wformat-truncation=]
       " ObjectMapDump: %s written to %s\n", om->Name, fname ENDFB(om->G);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output 30 or more bytes (assuming 285) into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/MolV3000.cpp -o build/temp.linux-x86_64-3.6/layer2/MolV3000.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepDot.cpp -o build/temp.linux-x86_64-3.6/layer2/RepDot.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/AtomInfoHistory.cpp -o build/temp.linux-x86_64-3.6/layer2/AtomInfoHistory.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectAlignment.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectAlignment.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, const char*, int, int, int, int)’:
layer2/ObjectMap.cpp:2961:7: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
       " PHIStrToMap: %s\n", cc ENDFB(I->G);
       ^~~~~~~~~~~~~~~~~~~~  ~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
layer2/ObjectMap.cpp:2970:7: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
       " PHIStrToMap: %s\n", cc ENDFB(I->G);
       ^~~~~~~~~~~~~~~~~~~~  ~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
layer2/ObjectMap.cpp:2976:7: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
       " PHIStrToMap: %s\n", cc ENDFB(I->G);
       ^~~~~~~~~~~~~~~~~~~~  ~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
layer2/ObjectMap.cpp:3058:7: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
       " PHIStrToMap: %s\n", cc ENDFB(I->G);
       ^~~~~~~~~~~~~~~~~~~~  ~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
layer2/RepDot.cpp: In function ‘Rep* RepDotDoNew(CoordSet*, cRepDot_t, int)’:
layer2/RepDot.cpp:463:46: warning: ‘vn’ may be used uninitialized in this function [-Wmaybe-uninitialized]
     I->VN = ReallocForSure(I->VN, float, (vn - I->VN));
                                              ^
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepEllipsoid.cpp -o build/temp.linux-x86_64-3.6/layer2/RepEllipsoid.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/BondTypeHistory.cpp -o build/temp.linux-x86_64-3.6/layer2/BondTypeHistory.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMap.cpp: In function ‘int ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int)’:
layer2/ObjectMap.cpp:4290:5: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=]
     " ObjectMap: %s\n", cc ENDFB(I->G);
     ^~~~~~~~~~~~~~~~~~  ~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
layer2/ObjectMap.cpp:4290:5: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=]
     " ObjectMap: %s\n", cc ENDFB(I->G);
     ^~~~~~~~~~~~~~~~~~  ~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectMap.cpp:21:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/SideChainHelper.cpp -o build/temp.linux-x86_64-3.6/layer2/SideChainHelper.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
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: In member function ‘virtual void ObjectAlignment::update()’:
layer0/Vector.h:322:3: warning: ‘*((void*)& gvert +8)’ may be used uninitialized in this function [-Wmaybe-uninitialized]
   dst[2] = src[2];
   ^~~
layer2/ObjectAlignment.cpp:926:39: note: ‘*((void*)& gvert +8)’ was declared here
               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:321:3: warning: ‘*((void*)& gvert +4)’ may be used uninitialized in this function [-Wmaybe-uninitialized]
   dst[1] = src[1];
   ^~~
layer2/ObjectAlignment.cpp:926:39: note: ‘*((void*)& gvert +4)’ was declared here
               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:320:3: warning: ‘gvert’ may be used uninitialized in this function [-Wmaybe-uninitialized]
   dst[0] = src[0];
   ^~~
layer2/ObjectAlignment.cpp:926:39: note: ‘gvert’ was declared here
               float mean[3], vert[3], gvert[3];
                                       ^~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepLabel.cpp -o build/temp.linux-x86_64-3.6/layer2/RepLabel.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectMesh.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectMesh.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:
layer1/Setting.h: In function ‘V AtomSettingGetWD(PyMOLGlobals*, T*, int, V) [with V = bool; T = const AtomInfoType]’:
layer1/Setting.h:436:11: warning: ‘out’ is used uninitialized in this function [-Wuninitialized]
   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
   V out;
     ^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectCGO.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectCGO.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/VFont.cpp -o build/temp.linux-x86_64-3.6/layer2/VFont.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]
   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]
     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]
     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]
         if (!ray)
         ^~
layer2/ObjectCGO.cpp:490:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
           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]
   PyMOLGlobals* G;
                 ^
layer2/ObjectCGO.h:27:25: warning:   ‘pymol::cache_ptr<CGO> ObjectCGOState::renderCGO’ [-Wreorder]
   pymol::cache_ptr<CGO> renderCGO;
                         ^~~~~~~~~
layer2/ObjectCGO.cpp:517:1: warning:   when initialized here [-Wreorder]
 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]
   bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque;
                                                          ^~~~~~~~~
layer2/ObjectCGO.h:29:44: warning:   ‘bool ObjectCGOState::cgo_lighting’ [-Wreorder]
   bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque;
                                            ^~~~~~~~~~~~
layer2/ObjectCGO.cpp:517:1: warning:   when initialized here [-Wreorder]
 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]
   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]
   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]
   if(I->State.size() <= state) {
      ~~~~~~~~~~~~~~~~^~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/AtomIterators.cpp -o build/temp.linux-x86_64-3.6/layer3/AtomIterators.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMesh.cpp: In function ‘void ObjectMeshDump(ObjectMesh*, const char*, int, int)’:
layer2/ObjectMesh.cpp:329:9: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=]
         " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectMesh.cpp:328:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(I->G, FB_ObjectMesh, FB_Actions)
       ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepMesh.cpp -o build/temp.linux-x86_64-3.6/layer2/RepMesh.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectCallback.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectCallback.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMesh.cpp: In member function ‘virtual void ObjectMesh::update()’:
layer2/ObjectMesh.cpp:502:11: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=]
           "ObjectMeshUpdate-Error: map '%s' has been deleted.\n", ms->MapName
           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
   while ((++a) < I->Table.size()) {
          ~~~~~~^~~~~~~~~~~~~~~~~
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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectMesh.cpp:501:9: note: in expansion of macro ‘PRINTFB’
         PRINTFB(I->G, FB_ObjectMesh, FB_Errors)
         ^~~~~~~
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]
   for (a++; a < I->Table.size(); a++) {
             ~~^~~~~~~~~~~~~~~~~
layer2/ObjectMesh.cpp:535:15: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=]
               " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectMesh.cpp:534:13: note: in expansion of macro ‘PRINTFB’
             PRINTFB(G, FB_ObjectMesh, FB_Details)
             ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/CifDataValueFormatter.cpp -o build/temp.linux-x86_64-3.6/layer3/CifDataValueFormatter.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/c++/8/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]
     assert(sizeof...(pos) <= n_dim());
            ~~~~~~~~~~~~~~~^~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/Editor.cpp -o build/temp.linux-x86_64-3.6/layer3/Editor.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectMolecule.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectMolecule.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectDist.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectDist.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/RepMesh.cpp: In function ‘Rep* RepMeshNew(CoordSet*, int)’:
layer2/RepMesh.cpp:1053:13: warning: ‘field’ may be used uninitialized in this function [-Wmaybe-uninitialized]
     DeleteP(field);
             ^~~~~
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]
   int result = false;
       ^~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepNonbonded.cpp -o build/temp.linux-x86_64-3.6/layer2/RepNonbonded.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]
   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]
   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]
   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]
     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]
   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]
   for(a = 0; a < I->DSet.size(); a++)
              ~~^~~~~~~~~~~~~~~~
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]
       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]
   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]
   if (atm1 >= I->NAtom || atm2 >= I->NAtom) {
                           ~~~~~^~~~~~~~~~~
layer3/Editor.cpp: In function ‘int EditorLogState(PyMOLGlobals*, int)’:
layer3/Editor.cpp:585:23: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1015 [-Wformat-overflow=]
       sprintf(buffer, "cmd.edit(%s,%s,%s,%s,pkresi=%d,pkbond=%d)",
                       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
               buf1, buf2, buf3, buf4, pkresi ? 1 : 0, pkbond ? 1 : 0);
               ~~~~     
layer3/Editor.cpp:585:23: note: directive argument in the range [0, 1]
layer3/Editor.cpp:585:23: note: directive argument in the range [0, 1]
layer3/Editor.cpp:585:14: note: ‘sprintf’ output between 32 and 4124 bytes into a destination of size 1024
       sprintf(buffer, "cmd.edit(%s,%s,%s,%s,pkresi=%d,pkbond=%d)",
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
               buf1, buf2, buf3, buf4, pkresi ? 1 : 0, pkbond ? 1 : 0);
               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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]
   for (size_t i = 0; i < NCSet; ++i) {
                      ~~^~~~~~~
layer3/Editor.cpp: In function ‘void EditorDefineExtraPks(PyMOLGlobals*)’:
layer3/Editor.cpp:335:21: warning: ‘%s’ directive writing up to 255 bytes into a region of size 249 [-Wformat-overflow=]
     sprintf(buffer, "(byres %s)", name);
                     ^~~~~~~~~~~~  ~~~~
layer3/Editor.cpp:335:12: note: ‘sprintf’ output between 9 and 264 bytes into a destination of size 256
     sprintf(buffer, "(byres %s)", name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Editor.cpp:337:21: warning: ‘%s’ directive writing up to 255 bytes into a region of size 247 [-Wformat-overflow=]
     sprintf(buffer, "(bychain %s)", name);
                     ^~~~~~~~~~~~~~  ~~~~
layer3/Editor.cpp:337:12: note: ‘sprintf’ output between 11 and 266 bytes into a destination of size 256
     sprintf(buffer, "(bychain %s)", name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Editor.cpp:339:21: warning: ‘%s’ directive writing up to 255 bytes into a region of size 246 [-Wformat-overflow=]
     sprintf(buffer, "(byobject %s)", name);
                     ^~~~~~~~~~~~~~~  ~~~~
layer3/Editor.cpp:339:12: note: ‘sprintf’ output between 12 and 267 bytes into a destination of size 256
     sprintf(buffer, "(byobject %s)", name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Editor.cpp: In function ‘void EditorPrepareDrag(PyMOLGlobals*, pymol::CObject*, int, int, int, int)’:
layer3/Editor.cpp:1933:9: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=]
         " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Editor.cpp:1932:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(G, FB_Editor, FB_Blather)
       ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepNonbondedSphere.cpp -o build/temp.linux-x86_64-3.6/layer2/RepNonbondedSphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMolecule.cpp: In function ‘const char* findflag(PyMOLGlobals*, const char*, const char*, const char*)’:
layer2/ObjectMolecule.cpp:1417:9: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 194 [-Wformat-truncation=]
         " ObjectMolecule-Error: Unrecognized file format (can't find \"%s\").\n", pat
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  ~~~
In file included from layer1/Ortho.h:32,
                 from layer2/ObjectMolecule.cpp:31:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 66 and 1089 bytes into a destination of size 255
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectMolecule.cpp:1416:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(G, FB_ObjectMolecule, FB_Errors)
       ^~~~~~~
layer2/ObjectMolecule.cpp:1435:9: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 194 [-Wformat-truncation=]
         " ObjectMolecule-Error: Unrecognized file format (can't find \"%s\").\n", pat
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  ~~~
In file included from layer1/Ortho.h:32,
                 from layer2/ObjectMolecule.cpp:31:
layer0/Feedback.h:274:15: note: ‘snprintf’ output between 66 and 1089 bytes into a destination of size 255
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectMolecule.cpp:1434:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(G, FB_ObjectMolecule, FB_Errors)
       ^~~~~~~
layer2/ObjectMolecule.cpp: In function ‘CoordSet* ObjectMoleculeMOLStr2CoordSet(PyMOLGlobals*, const char*, AtomInfoType**, const char**)’:
layer2/ObjectMolecule.cpp:7579:5: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 224 [-Wformat-truncation=]
     " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectMolecule.cpp:7578:3: note: in expansion of macro ‘PRINTFB’
   PRINTFB(G, FB_ObjectMolecule, FB_Blather)
   ^~~~~~~
layer2/ObjectMolecule.cpp:7627:16: warning: ‘char* strncpy(char*, const char*, size_t)’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation]
         strncpy(atInfo[a].elem, cc, cElemNameLen);
         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer2/ObjectMolecule.cpp: In function ‘CoordSet* ObjectMoleculeXYZStr2CoordSet(PyMOLGlobals*, const char*, AtomInfoType**, const char**)’:
layer2/ObjectMolecule.cpp:2898:16: warning: ‘char* strncpy(char*, const char*, size_t)’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation]
         strncpy(ai->elem, cc, cElemNameLen);
         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/Executive.cpp -o build/temp.linux-x86_64-3.6/layer3/Executive.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectGadget.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectGadget.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepRibbon.cpp -o build/temp.linux-x86_64-3.6/layer2/RepRibbon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectMolecule.cpp: In member function ‘virtual void ObjectMolecule::update()’:
layer2/ObjectMolecule.cpp:10605:15: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=]
               " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectMolecule.cpp:10604:13: note: in expansion of macro ‘PRINTFB’
             PRINTFB(G, FB_ObjectMolecule, FB_Blather)
             ^~~~~~~
layer2/ObjectMolecule.cpp: In function ‘int ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, const float*, int, int)’:
layer2/ObjectMolecule.cpp:10731:21: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=]
       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
               buffer, v[0], v[1], v[2], state + 1, mode, 0);
               ~~~~~~ 
layer2/ObjectMolecule.cpp:10731:21: note: directive argument in the range [-2147483647, 2147483647]
layer2/ObjectMolecule.cpp:10731:14: note: ‘sprintf’ output between 78 and 2036 bytes into a destination of size 1024
       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
               buffer, v[0], v[1], v[2], state + 1, mode, 0);
               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/SpecRec.cpp -o build/temp.linux-x86_64-3.6/layer3/SpecRec.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsosurfaceEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, int)’:
layer3/Executive.cpp:986:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
         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]
         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]
         if(map_state >= mapObj->State.size())
            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/cassert:44,
                 from /usr/include/glm/detail/func_exponential.inl:8,
                 from /usr/include/glm/detail/func_exponential.hpp:103,
                 from /usr/include/glm/detail/func_geometric.inl:4,
                 from /usr/include/glm/detail/func_geometric.hpp:113,
                 from /usr/include/glm/geometric.hpp:6,
                 from /usr/include/glm/detail/func_matrix.inl:4,
                 from /usr/include/glm/detail/func_matrix.hpp:149,
                 from /usr/include/glm/detail/type_mat2x2.inl:4,
                 from /usr/include/glm/detail/type_mat2x2.hpp:182,
                 from /usr/include/glm/mat2x2.hpp:6,
                 from /usr/include/glm/glm.hpp:71,
                 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]
   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]
       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]
             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]
                     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]
   for(a = 0; a < pairs; a++) {
              ~~^~~~~~~
layer3/Executive.cpp:11040:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
     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]
   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]
             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]
             for (unsigned atm = 0; atm < new_obj->NAtom; ++atm) {
                                    ~~~~^~~~~~~~~~~~~~~~
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]
               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]
                  ((!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]
                (((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]
                 ((!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]
                   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]
                      ((!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]
                   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*)’:
layer3/Executive.cpp:16294:14: warning: deleting object of polymorphic class type ‘CExecutive’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(G->Executive);
              ^~~~~~~~~
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
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]
         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]
     CTracker* m_tracker;
               ^~~~~~~~~
layer0/TrackerList.h:79:22: warning:   ‘int pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>::m_iter_id’ [-Wreorder]
     int m_iter_id = -1;
                      ^
layer0/TrackerList.h:35:14: warning:   when initialized here [-Wreorder]
     explicit TrackerAdapterIterator(CTracker* tracker, int list_id)
              ^~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/SpecRecSpecial.cpp -o build/temp.linux-x86_64-3.6/layer3/SpecRecSpecial.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepSphere.cpp -o build/temp.linux-x86_64-3.6/layer2/RepSphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer4/Cmd.cpp -o build/temp.linux-x86_64-3.6/layer4/Cmd.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepSphereGenerate.cpp -o build/temp.linux-x86_64-3.6/layer2/RepSphereGenerate.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer4/Cmd.cpp: In function ‘PyObject* CmdPushUndo(PyObject*, PyObject*)’:
layer4/Cmd.cpp:2216:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
     if(ok)
     ^~
layer4/Cmd.cpp:2218:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
       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]
   int ok = false;
       ^~
In file included from layer4/Cmd.cpp:77:
layer1/PConv.h: In instantiation of ‘PyObject* PConvToPyObject(const std::array<_Tp, _Nm>&) [with T = float; long unsigned int N = 3; PyObject = _object]’:
layer4/Cmd.cpp:380:27:   required from ‘PyObject* APIResult(PyMOLGlobals*, pymol::Result<T>&) [with T = std::array<float, 3>; PyObject = _object]’
layer4/Cmd.cpp:4034:29:   required from here
layer1/PConv.h:259:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
   for (int i = 0; i < N; ++i) {
                   ~~^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepSphereImmediate.cpp -o build/temp.linux-x86_64-3.6/layer2/RepSphereImmediate.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘int ExecutiveSetBondSettingFromString(PyMOLGlobals*, int, const char*, const char*, const char*, int, int, int)’:
layer3/Executive.cpp:11424:17: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                 " Setting: %s set for %d bonds in object \"%s\".\n",
                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                 name, nSet, obj->Name ENDF(G);
                 ~~~~
layer3/Executive.cpp:11424:17: 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 42 and 560 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11423:15: note: in expansion of macro ‘PRINTF’
               PRINTF
               ^~~~~~
layer3/Executive.cpp: In function ‘PyObject* ExecutiveGetBondSetting(PyMOLGlobals*, int, char*, const char*, int, int, int)’:
layer3/Executive.cpp:11505:8: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
        " Getting: %s for %d bonds in object \"%s\".\n",
        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        name, nSet, obj->Name ENDF(G);
        ~~~~
layer3/Executive.cpp:11505:8: 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 38 and 556 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11504:6: note: in expansion of macro ‘PRINTF’
      PRINTF
      ^~~~~~
layer3/Executive.cpp: In function ‘int ExecutiveSetBondSetting(PyMOLGlobals*, int, PyObject*, const char*, const char*, int, int, int)’:
layer3/Executive.cpp:11605:19: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                   " Setting: %s set for %d bonds in object \"%s\".\n",
                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                   name, nSet, obj->Name ENDF(G);
                   ~~~~
layer3/Executive.cpp:11605:19: 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 42 and 560 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11604:17: note: in expansion of macro ‘PRINTF’
                 PRINTF
                 ^~~~~~
layer3/Executive.cpp:11624:7: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 236 [-Wformat-truncation=]
       " Setting-Warning: '%s' is not a bond-level setting\n", 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 50 and 304 bytes into a destination of size 255
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:11623:5: note: in expansion of macro ‘PRINTFB’
     PRINTFB(G, FB_Setting, FB_Warnings)
     ^~~~~~~
layer3/Executive.cpp: In function ‘int ExecutiveUnsetBondSetting(PyMOLGlobals*, int, const char*, const char*, int, int, int)’:
layer3/Executive.cpp:11684:15: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
               " Setting: %s unset for %d bonds in object \"%s\".\n",
               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
               name, nSet, rec->obj->Name ENDF(G);
               ~~~~
layer3/Executive.cpp:11684:15: 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 44 and 562 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11683:13: note: in expansion of macro ‘PRINTF’
             PRINTF
             ^~~~~~
layer3/Executive.cpp: In function ‘int ExecutiveSetObjSettingFromString(PyMOLGlobals*, int, const char*, pymol::CObject*, int, int, int)’:
layer3/Executive.cpp:12226:19: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                   " Setting: %s set to %s in object \"%s\", state %d.\n",
                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                   name, value2, obj->Name, state + 1 ENDF(G);
                   ~~~~
layer3/Executive.cpp:12226:19: 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 1584 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12225:17: note: in expansion of macro ‘PRINTF’
                 PRINTF
                 ^~~~~~
layer3/Executive.cpp:12218:19: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                   " Setting: %s set to %s in object \"%s\".\n",
                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                   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
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12217:17: note: in expansion of macro ‘PRINTF’
                 PRINTF
                 ^~~~~~
layer3/Executive.cpp:12197:18: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
           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
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12197:11: note: in expansion of macro ‘PRINTF’
           PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G);
           ^~~~~~
layer3/Executive.cpp: In function ‘int ExecutiveSetSettingFromString(PyMOLGlobals*, int, const char*, const char*, int, int, int)’:
layer3/Executive.cpp:12097:21: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                     " Setting: %s set to %s in %d objects, state %d.\n",
                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                     name, value2, nObj, state + 1 ENDF(G);
                     ~~~~
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 1339 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12096:19: note: in expansion of macro ‘PRINTF’
                   PRINTF
                   ^~~~~~
layer3/Executive.cpp:12094:21: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                     " 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 1321 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12093:19: note: in expansion of macro ‘PRINTF’
                   PRINTF
                   ^~~~~~
layer3/Executive.cpp:12129:25: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                         " Setting: %s set for %d atoms in object \"%s\".\n",
                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                         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
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12128:23: note: in expansion of macro ‘PRINTF’
                       PRINTF
                       ^~~~~~
layer3/Executive.cpp:12161:25: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                         " Setting: %s set to %s in object \"%s\", state %d.\n",
                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                         name, value2, rec->obj->Name, state + 1 ENDF(G);
                         ~~~~
layer3/Executive.cpp:12161:25: 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 1584 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12160:23: note: in expansion of macro ‘PRINTF’
                       PRINTF
                       ^~~~~~
layer3/Executive.cpp:12153:25: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                         " Setting: %s set to %s in object \"%s\".\n",
                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                         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
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12152:23: note: in expansion of macro ‘PRINTF’
                       PRINTF
                       ^~~~~~
layer3/Executive.cpp:12057:18: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
           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
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12057:11: note: in expansion of macro ‘PRINTF’
           PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G);
           ^~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectMolecule2.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectMolecule2.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepSurface.cpp -o build/temp.linux-x86_64-3.6/layer2/RepSurface.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘bool ExecutiveSetSymmetry(PyMOLGlobals*, pymol::zstring_view, int, const CSymmetry&, bool)’:
layer3/Executive.cpp:5951:7: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 202 [-Wformat-truncation=]
       " %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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:5950:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(G, FB_Executive, FB_Details)
       ^~~~~~~
layer3/Executive.cpp:5942:7: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 199 [-Wformat-truncation=]
       " %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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:5941:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(G, FB_Executive, FB_Warnings)
       ^~~~~~~
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]
     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]
         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]
       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]
     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]
     for (unsigned a = 0; a < cs->NTmpLinkBond; ++a) {
                          ~~^~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSetSetting(PyMOLGlobals*, int, PyObject*, pymol::zstring_view, int, int, int)’:
layer3/Executive.cpp:11932:9: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 236 [-Wformat-truncation=]
         " Setting-Warning: '%s' is a %s-level setting\n", name, SettingLevelGetName(index)
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  ~~~~
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 42 or more bytes (assuming 296) into a destination of size 255
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:11931:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(G, FB_Setting, FB_Warnings)
       ^~~~~~~
layer3/Executive.cpp:11788:21: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                     " Setting: %s set to %s in %d objects, state %d.\n",
                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                     name, value, nObj, state + 1 ENDF(G);
                     ~~~~
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 between 43 and 1339 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11787:19: note: in expansion of macro ‘PRINTF’
                   PRINTF
                   ^~~~~~
layer3/Executive.cpp:11785:21: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                     " 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 between 34 and 1321 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11784:19: note: in expansion of macro ‘PRINTF’
                   PRINTF
                   ^~~~~~
layer3/Executive.cpp:11877:27: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                           " Setting: %s set for %d atoms in object \"%s\".\n",
                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                           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
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11876:25: note: in expansion of macro ‘PRINTF’
                         PRINTF
                         ^~~~~~
layer3/Executive.cpp:11909:25: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                         " Setting: %s set to %s in object \"%s\", state %d.\n",
                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                         name, value, rec->obj->Name, state + 1 ENDF(G);
                         ~~~~
layer3/Executive.cpp:11909:25: 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 1584 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11908:23: note: in expansion of macro ‘PRINTF’
                       PRINTF
                       ^~~~~~
layer3/Executive.cpp:11902:25: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
                         " Setting: %s set to %s in object \"%s\".\n",
                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                         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 between 34 and 1566 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11901:23: note: in expansion of macro ‘PRINTF’
                       PRINTF
                       ^~~~~~
layer3/Executive.cpp:11744:18: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
           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 between 21 and 1298 bytes into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:11744:11: note: in expansion of macro ‘PRINTF’
           PRINTF " Setting: %s set to %s.\n", name, value ENDF(G);
           ^~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveUnsetSetting(PyMOLGlobals*, int, pymol::zstring_view, int, int, int)’:
layer3/Executive.cpp:12338:23: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 215 [-Wformat-truncation=]
                       " 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
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12337:21: note: in expansion of macro ‘PRINTF’
                     PRINTF
                     ^~~~~~
layer3/Executive.cpp:12360:25: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=]
                         " Setting: %s unset in object \"%s\", state %d.\n",
                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:12360:25: 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 41 or more bytes (assuming 305) into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12359:23: note: in expansion of macro ‘PRINTF’
                       PRINTF
                       ^~~~~~
layer3/Executive.cpp:12354:25: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=]
                         " 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
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12353:23: note: in expansion of macro ‘PRINTF’
                       PRINTF
                       ^~~~~~
layer3/Executive.cpp:12276:14: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 223 [-Wformat-truncation=]
       PRINTF " Setting: %s restored to default (%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 35 or more bytes (assuming 1058) into a destination of size 255
 #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
                                                     ^
layer3/Executive.cpp:12276:7: note: in expansion of macro ‘PRINTF’
       PRINTF " Setting: %s restored to default (%s)\n", name, value ENDF(G);
       ^~~~~~
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]
     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]
     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]
     for (auto i = 0; i < unique_edges.size(); i += 2) {
                      ~~^~~~~~~~~~~~~~~~~~~~~
layer2/ObjectMolecule2.cpp: In function ‘int ObjectMoleculeAddPseudoatom(ObjectMolecule*, int, const char*, const char*, const char*, const char*, const char*, const char*, float, int, float, float, const char*, const float*, int, int, int, int)’:
layer2/ObjectMolecule2.cpp:335:9: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=]
         " ObjMol: created %s/%s/%s/%s`%d%c/%s\n",
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectMolecule2.cpp:24:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output 26 or more bytes (assuming 281) into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
layer3/Executive.cpp: In function ‘void ExecutiveManageObject(PyMOLGlobals*, pymol::CObject*, int, int)’:
layer3/Executive.cpp:14447:9: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=]
         " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:14446:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(G, FB_Executive, FB_Warnings)
       ^~~~~~~
layer3/Executive.cpp:14442:9: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=]
         " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:14441:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(G, FB_Executive, FB_Warnings)
       ^~~~~~~
layer3/Executive.cpp:14467:13: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
             " Executive: object \"%s\" created.\n", 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 32 and 287 bytes into a destination of size 255
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:14466:11: note: in expansion of macro ‘PRINTFB’
           PRINTFB(G, FB_Executive, FB_Actions)
           ^~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveCopy(PyMOLGlobals*, const char*, const char*, int)’:
layer3/Executive.cpp:9665:5: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=]
     " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:9664:3: note: in expansion of macro ‘PRINTFB’
   PRINTFB(G, FB_Executive, FB_Actions)
   ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer4/Menu.cpp -o build/temp.linux-x86_64-3.6/layer4/Menu.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectMolecule3.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectMolecule3.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘int ExecutiveGroup(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, int, int)’:
layer3/Executive.cpp:2259:19: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
                   " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:2258:17: note: in expansion of macro ‘PRINTFB’
                 PRINTFB(G, FB_Executive, FB_Actions)
                 ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer4/PopUp.cpp -o build/temp.linux-x86_64-3.6/layer4/PopUp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘pymol::Result<std::vector<DiscardedRec> > ExecutiveSetName(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, bool)’:
layer3/Executive.cpp:3523:7: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 222 [-Wformat-truncation=]
       " Warning: Invalid characters in '%s' have been replaced or stripped\n",
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:3522:5: note: in expansion of macro ‘PRINTFB’
     PRINTFB(G, FB_Executive, FB_Warnings)
     ^~~~~~~
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]
   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]
       for (unsigned atm = 0; atm != objmol.NAtom; ++atm) {
                              ~~~~^~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘int ExecutiveProcessPDBFile(PyMOLGlobals*, pymol::CObject*, const char*, const char*, const char*, int, int, int, char*, int, int, int, int)’:
layer3/Executive.cpp:4259:35: warning: ‘%04d’ directive writing between 4 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=]
                 sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1);
                                   ^~~~~~~~~
layer3/Executive.cpp:4259:35: note: using the range [-2147483648, 2147483647] for directive argument
layer3/Executive.cpp:4259:24: note: ‘sprintf’ output between 6 and 268 bytes into a destination of size 256
                 sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1);
                 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:4257:35: warning: ‘%04d’ directive writing between 4 and 10 bytes into a region of size between 0 and 255 [-Wformat-overflow=]
                 sprintf(pdb_name, "%s_%04d", cur_name, model_number);
                                   ^~~~~~~~~
layer3/Executive.cpp:4257:35: note: directive argument in the range [1, 2147483647]
layer3/Executive.cpp:4257:24: note: ‘sprintf’ output between 6 and 267 bytes into a destination of size 256
                 sprintf(pdb_name, "%s_%04d", cur_name, model_number);
                 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:4246:35: warning: ‘%04d’ directive writing between 4 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=]
                 sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1);
                                   ^~~~~~~~~
layer3/Executive.cpp:4246:35: note: using the range [-2147483648, 2147483647] for directive argument
layer3/Executive.cpp:4246:24: note: ‘sprintf’ output between 6 and 268 bytes into a destination of size 256
                 sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1);
                 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:4237:33: warning: ‘%04d’ directive writing between 4 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=]
               sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1);
                                 ^~~~~~~~~
layer3/Executive.cpp:4237:33: note: using the range [-2147483648, 2147483647] for directive argument
layer3/Executive.cpp:4237:22: note: ‘sprintf’ output between 6 and 268 bytes into a destination of size 256
               sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1);
               ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:4235:33: warning: ‘%04d’ directive writing between 4 and 10 bytes into a region of size between 0 and 255 [-Wformat-overflow=]
               sprintf(pdb_name, "%s_%04d", cur_name, model_number);
                                 ^~~~~~~~~
layer3/Executive.cpp:4235:33: note: directive argument in the range [1, 2147483647]
layer3/Executive.cpp:4235:22: note: ‘sprintf’ output between 6 and 267 bytes into a destination of size 256
               sprintf(pdb_name, "%s_%04d", cur_name, model_number);
               ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp:4224:33: warning: ‘%04d’ directive writing between 4 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=]
               sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1);
                                 ^~~~~~~~~
layer3/Executive.cpp:4224:33: note: using the range [-2147483648, 2147483647] for directive argument
layer3/Executive.cpp:4224:22: note: ‘sprintf’ output between 6 and 268 bytes into a destination of size 256
               sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1);
               ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘int ExecutiveSetSession(PyMOLGlobals*, PyObject*, int, int)’:
layer3/Executive.cpp:5070:13: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 213 [-Wformat-truncation=]
             " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:5069:11: note: in expansion of macro ‘PRINTFB’
           PRINTFB(G, FB_Executive, FB_Errors)
           ^~~~~~~
layer3/Executive.cpp:5095:11: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 210 [-Wformat-truncation=]
           "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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:5094:9: note: in expansion of macro ‘PRINTFB’
         PRINTFB(G, FB_Executive, FB_Errors)
         ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepWireBond.cpp -o build/temp.linux-x86_64-3.6/layer2/RepWireBond.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectSlice.cpp -o build/temp.linux-x86_64-3.6/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*)’:
layer4/PopUp.cpp:401:11: warning: deleting object of polymorphic class type ‘CPopUp’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(I);
           ^
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveRemoveAtoms(PyMOLGlobals*, const char*, int)’:
layer3/Executive.cpp:9007:17: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 207 and 217 [-Wformat-truncation=]
                 " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:9006:15: note: in expansion of macro ‘PRINTFB’
               PRINTFB(G, FB_Editor, FB_Actions)
               ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer5/PyMOL.cpp -o build/temp.linux-x86_64-3.6/layer5/PyMOL.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]
   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]
   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]
   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]
     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]
     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]
       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]
         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]
     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]
     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]
     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]
   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]
   for(a = 0; a < I->State.size(); a++) {
              ~~^~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveBond(PyMOLGlobals*, const char*, const char*, int, int, int, pymol::zstring_view)’:
layer3/Executive.cpp:9371:19: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 200 and 210 [-Wformat-truncation=]
                   " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:9370:17: note: in expansion of macro ‘PRINTFB’
                 PRINTFB(G, FB_Editor, FB_Actions)
                 ^~~~~~~
layer3/Executive.cpp:9358:19: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 214 and 224 [-Wformat-truncation=]
                   " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:9357:17: note: in expansion of macro ‘PRINTFB’
                 PRINTFB(G, FB_Editor, FB_Actions)
                 ^~~~~~~
layer3/Executive.cpp:9383:19: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 218 [-Wformat-truncation=]
                   " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:9382:17: note: in expansion of macro ‘PRINTFB’
                 PRINTFB(G, FB_Editor, FB_Actions)
                 ^~~~~~~
layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::update()’:
layer2/ObjectSlice.cpp:639:11: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 225 [-Wformat-truncation=]
           "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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectSlice.cpp:638:9: note: in expansion of macro ‘PRINTFB’
         PRINTFB(I->G, FB_ObjectSlice, FB_Errors)
         ^~~~~~~
layer2/ObjectSlice.cpp:650:13: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 231 [-Wformat-truncation=]
             " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectSlice.cpp:649:11: note: in expansion of macro ‘PRINTFB’
           PRINTFB(I->G, FB_ObjectSlice, FB_Blather)
           ^~~~~~~
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]
         if((stop - start) >= sizeof(WordType))
            ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
In file included from layer5/PyMOL.cpp:23:
layer5/PyMOL.cpp: In function ‘void PyMOL_Stop(CPyMOL*)’:
layer5/PyMOL.cpp:1987:14: warning: deleting object of polymorphic class type ‘CMovie’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(G->Movie);
              ^~~~~
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/Sculpt.cpp -o build/temp.linux-x86_64-3.6/layer2/Sculpt.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveLoad(PyMOLGlobals*, const ExecutiveLoadArgs&)’:
layer3/Executive.cpp:4047:7: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=]
       "%s", buf 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 1 and 1024 bytes into a destination of size 255
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer3/Executive.cpp:4046:5: note: in expansion of macro ‘PRINTFB’
     PRINTFB(G, FB_Executive, FB_Actions)
     ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectSurface.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectSurface.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer3/Executive.cpp: In member function ‘virtual int CExecutive::drag(int, int, int)’:
layer3/Executive.cpp:15471:42: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=]
                   sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n",
                                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                           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
                   sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n",
                   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                           order_input, (location == -2) ? "upper" : "current");
                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer5/TestPyMOL.cpp -o build/temp.linux-x86_64-3.6/layer5/TestPyMOL.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectSurface.cpp: In function ‘PyObject* ObjectSurfaceAllStatesAsPyList(ObjectSurface*)’:
layer2/ObjectSurface.cpp:83:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   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]
     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]
     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]
   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]
   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]
     for(int a = 0; a < I->State.size(); a++) {
                    ~~^~~~~~~~~~~~~~~~~
layer3/Executive.cpp: In function ‘pymol::Result<std::pair<float, float> > ExecutiveSpectrum(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, float, float, int, int, pymol::zstring_view, int, int, int)’:
layer3/Executive.cpp:4764:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound 8 equals destination size [-Wstringop-truncation]
                 strncpy(value_s, raw_ptr, sizeof(value_e));
                 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
layer2/ObjectSurface.cpp: In function ‘void ObjectSurfaceDump(ObjectSurface*, const char*, int, int)’:
layer2/ObjectSurface.cpp:268:9: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
         " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectSurface.cpp:267:7: note: in expansion of macro ‘PRINTFB’
       PRINTFB(I->G, FB_ObjectSurface, FB_Actions)
       ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer5/main.cpp -o build/temp.linux-x86_64-3.6/layer5/main.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectSurface.cpp: In member function ‘virtual void ObjectSurface::update()’:
layer2/ObjectSurface.cpp:493:15: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=]
               " 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
     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
               ^
layer2/ObjectSurface.cpp:492:13: note: in expansion of macro ‘PRINTFB’
             PRINTFB(I->G, FB_ObjectSurface, FB_Details)
             ^~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/SculptCache.cpp -o build/temp.linux-x86_64-3.6/layer2/SculptCache.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/ObjectVolume.cpp -o build/temp.linux-x86_64-3.6/layer2/ObjectVolume.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD ov/src/ov_utility.cpp -o build/temp.linux-x86_64-3.6/ov/src/ov_utility.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD ov/src/OVContext.cpp -o build/temp.linux-x86_64-3.6/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]
     OVHeap *heap = I->heap;
             ^~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD ov/src/OVHeap.cpp -o build/temp.linux-x86_64-3.6/ov/src/OVHeap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD ov/src/OVHeapArray.cpp -o build/temp.linux-x86_64-3.6/ov/src/OVHeapArray.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD ov/src/OVLexicon.cpp -o build/temp.linux-x86_64-3.6/ov/src/OVLexicon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectVolume.cpp: In function ‘PyObject* ObjectVolumeAllStatesAsPyList(ObjectVolume*)’:
layer2/ObjectVolume.cpp:127:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   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]
     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]
   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]
     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]
   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]
         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]
   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]
   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]
   for(int a = 0; a < I->State.size(); a++) {
                  ~~^~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD ov/src/OVOneToAny.cpp -o build/temp.linux-x86_64-3.6/ov/src/OVOneToAny.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from /usr/include/c++/8/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:114:12:   required from ‘T& CField::get(SizeTs ...) [with T = unsigned char; SizeTs = {int, int, int}]’
layer2/ObjectVolume.cpp:534:52:   required from here
layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
     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]
 static size_t createPreintegrationTexture(PyMOLGlobals * G, const float *Table, const int count)
               ^~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD ov/src/OVOneToOne.cpp -o build/temp.linux-x86_64-3.6/ov/src/OVOneToOne.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/ExecutivePython.cpp -o build/temp.linux-x86_64-3.6/layer3/ExecutivePython.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD ov/src/OVRandom.cpp -o build/temp.linux-x86_64-3.6/ov/src/OVRandom.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
layer2/ObjectVolume.cpp: In function ‘ObjectMapState* ObjectVolumeStateGetMapState(ObjectVolumeState*)’:
layer2/ObjectVolume.cpp:74:7: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=]
       "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer2/ObjectVolume.cpp:20:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 46 and 301 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
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]
   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]
     for(size_t i = 0; i < n_idx; ++i) {
                       ~~^~~~~~~
layer3/ExecutivePython.cpp: In function ‘pymol::Result<> ExecutiveLoadObject(PyMOLGlobals*, const char*, PyObject*, int, int, int, int, int, int)’:
layer3/ExecutivePython.cpp:146:5: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=]
     "%s", buf ENDFB(G);
     ^~~~  ~~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from layer3/Executive.h:20,
                 from layer3/ExecutivePython.h:3,
                 from layer3/ExecutivePython.cpp:1:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin_snprintf’ output between 1 and 1024 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepAngle.cpp -o build/temp.linux-x86_64-3.6/layer2/RepAngle.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/MaeExportHelpers.cpp -o build/temp.linux-x86_64-3.6/layer3/MaeExportHelpers.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
In file included from layer2/AtomInfo.h:23,
                 from layer3/MaeExportHelpers.h:11,
                 from layer3/MaeExportHelpers.cpp:11:
layer1/Setting.h: In function ‘int MaeExportGetAtomStyle(PyMOLGlobals*, const SeleCoordIterator&)’:
layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized in this function [-Wmaybe-uninitialized]
   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
   V out;
     ^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepCartoon.cpp -o build/temp.linux-x86_64-3.6/layer2/RepCartoon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/MoleculeExporter.cpp -o build/temp.linux-x86_64-3.6/layer3/MoleculeExporter.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:3731:53: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class CCInOut’; use assignment or value-initialization instead [-Wclass-memaccess]
     memset(car,      0, sizeof(*car)      * nAtIndex);
                                                     ^
layer2/RepCartoon.cpp:44:7: note: ‘class CCInOut’ declared here
 class CCInOut {
       ^~~~~~~
In file included from layer2/CoordSet.h:24,
                 from layer2/RepCartoon.h:21,
                 from layer2/RepCartoon.cpp:27:
layer1/Setting.h: In function ‘V AtomSettingGetWD(PyMOLGlobals*, T*, int, V) [with V = bool; T = const AtomInfoType]’:
layer1/Setting.h:436:11: warning: ‘out’ is used uninitialized in this function [-Wuninitialized]
   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
   V out;
     ^~~
layer2/RepCartoon.cpp: In function ‘int GenerateRepCartoonProcessCylindricalHelices(PyMOLGlobals*, ObjectMolecule*, CoordSet*, CGO*, CExtrude*, int, int*, float*, float*, float*, const CCInOut*, int*, float*, int, int, float, float)’:
layer2/RepCartoon.cpp:1593:20: warning: ‘atom_index2’ may be used uninitialized in this function [-Wmaybe-uninitialized]
   int atom_index1, atom_index2, *s,
                    ^~~~~~~~~~~
layer2/RepCartoon.cpp: In function ‘void 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]
                     float ladder_alpha = 1.0f - AtomSettingGetWD(G, ai_i[i], cSetting_cartoon_transparency, 1.0f - alpha);
                                                 ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepCylBond.cpp -o build/temp.linux-x86_64-3.6/layer2/RepCylBond.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepDihedral.cpp -o build/temp.linux-x86_64-3.6/layer2/RepDihedral.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer2/RepDistDash.cpp -o build/temp.linux-x86_64-3.6/layer2/RepDistDash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/MovieScene.cpp -o build/temp.linux-x86_64-3.6/layer3/MovieScene.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/PlugIOManager.cpp -o build/temp.linux-x86_64-3.6/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]
             if(obj->State.size() <= state) {
                ~~~~~~~~~~~~~~~~~~^~~~~~~~
In file included from /usr/include/c++/8/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:114:12:   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]
     assert(sizeof...(pos) <= n_dim());
            ~~~~~~~~~~~~~~~^~~~~~~~~~
layer3/PlugIOManager.cpp: In function ‘pymol::CObject* PlugIOManagerLoad(PyMOLGlobals*, pymol::CObject**, const char*, int, int, const char*, int)’:
layer3/PlugIOManager.cpp:946:9: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 200 [-Wformat-truncation=]
         " PlugIOManagerLoad: can't load trajectory into object '%s'\n", obj->Name ENDFB(G);
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/bits/unique_ptr.h:37,
                 from /usr/include/c++/8/memory:80,
                 from layer0/os_python.h:23,
                 from layer3/PlugIOManager.cpp:20:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 58 and 313 bytes into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/RingFinder.cpp -o build/temp.linux-x86_64-3.6/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]
     } else if (depth < m_indices.size() - 1) {
                ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/Seeker.cpp -o build/temp.linux-x86_64-3.6/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]
   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]
           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]
           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]
             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]
           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*)’:
layer3/Seeker.cpp:1964:14: warning: deleting object of polymorphic class type ‘CSeeker’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   DeleteP(G->Seeker);
              ^~~~~~
layer0/MemoryDebug.h:86:39: note: in definition of macro ‘DeleteP’
 #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}}
                                       ^~~
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/Selector.cpp -o build/temp.linux-x86_64-3.6/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]
   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]
   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]
   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]
       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]
   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]
       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]
             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]
         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]
     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]
   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]
     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]
     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]
     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]
       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]
   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]
   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]
   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]
   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]
   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]
   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]
   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]
       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]
   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]
   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]
   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]
       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]
     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]
   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]
   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]
   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]
   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]
   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]
   if(ob)
   ^~
layer3/Selector.cpp:6066:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
     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]
       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]
   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]
   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]
     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]
     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]
       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]
   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]
       for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
                                 ~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/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]
   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]
   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]
           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]
                   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]
       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]
           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]
                   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]
     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]
       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]
       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]
       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]
     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]
     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]
     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]
     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]
     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]
       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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
     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]
       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]
     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]
           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]
             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]
       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]
         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]
             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]
             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]
             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]
             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]
             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]
             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]
             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]
             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]
             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]
             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]
             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]
             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]
           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]
                   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]
           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]
                   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]
         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]
       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]
   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]
     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]
     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]
       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]
     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]
         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
                               ~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/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]
     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 ‘int SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’:
layer3/Selector.cpp:1722:21: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 207 [-Wformat-truncation=]
                     " AssignSS-Warning: Ignoring incomplete residue /%s/%s/%s/%d%c ...\n",
                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from /usr/include/c++/8/cstdio:42,
                 from /usr/include/c++/8/ext/string_conversions.h:43,
                 from /usr/include/c++/8/bits/basic_string.h:6404,
                 from /usr/include/c++/8/string:52,
                 from /usr/include/c++/8/stdexcept:39,
                 from /usr/include/c++/8/array:39,
                 from /usr/include/c++/8/tuple:39,
                 from /usr/include/c++/8/functional:54,
                 from layer3/Selector.cpp:19:
/usr/include/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output 59 or more bytes (assuming 314) into a destination of size 255
   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __glibc_objsize (__s), __fmt,
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
        __va_arg_pack ());
        ~~~~~~~~~~~~~~~~~           
g++ -pthread -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.6/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.6m -c -MMD layer3/SelectorTmp.cpp -o build/temp.linux-x86_64-3.6/layer3/SelectorTmp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp
g++ -pthread -shared -Wl,-z,relro -Wl,-z,now -g -Wl,-z,relro -Wl,-z,now -g -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-x86_64-3.6/build/generated/ShaderText.o build/temp.linux-x86_64-3.6/contrib/mmtf-c/mmtf_parser.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/inthash.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o build/temp.linux-x86_64-3.6/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o build/temp.linux-x86_64-3.6/layer0/Block.o build/temp.linux-x86_64-3.6/layer0/CarveHelper.o build/temp.linux-x86_64-3.6/layer0/ContourSurf.o build/temp.linux-x86_64-3.6/layer0/Crystal.o build/temp.linux-x86_64-3.6/layer0/Deferred.o build/temp.linux-x86_64-3.6/layer0/Err.o build/temp.linux-x86_64-3.6/layer0/Feedback.o build/temp.linux-x86_64-3.6/layer0/Field.o build/temp.linux-x86_64-3.6/layer0/File.o build/temp.linux-x86_64-3.6/layer0/GenericBuffer.o build/temp.linux-x86_64-3.6/layer0/GraphicsUtil.o build/temp.linux-x86_64-3.6/layer0/Isosurf.o build/temp.linux-x86_64-3.6/layer0/Map.o build/temp.linux-x86_64-3.6/layer0/Match.o build/temp.linux-x86_64-3.6/layer0/Matrix.o build/temp.linux-x86_64-3.6/layer0/MemoryDebug.o build/temp.linux-x86_64-3.6/layer0/MemoryUsage.o build/temp.linux-x86_64-3.6/layer0/MyPNG.o build/temp.linux-x86_64-3.6/layer0/Parse.o build/temp.linux-x86_64-3.6/layer0/Pixmap.o build/temp.linux-x86_64-3.6/layer0/PostProcess.o build/temp.linux-x86_64-3.6/layer0/ShaderMgr.o build/temp.linux-x86_64-3.6/layer0/ShaderPrg.o build/temp.linux-x86_64-3.6/layer0/Sphere.o build/temp.linux-x86_64-3.6/layer0/Tetsurf.o build/temp.linux-x86_64-3.6/layer0/Texture.o build/temp.linux-x86_64-3.6/layer0/Tracker.o build/temp.linux-x86_64-3.6/layer0/Triangle.o build/temp.linux-x86_64-3.6/layer0/Util.o build/temp.linux-x86_64-3.6/layer0/Util2.o build/temp.linux-x86_64-3.6/layer0/Vector.o build/temp.linux-x86_64-3.6/layer0/Word.o build/temp.linux-x86_64-3.6/layer0/ccealignmodule.o build/temp.linux-x86_64-3.6/layer0/marching_cubes.o build/temp.linux-x86_64-3.6/layer0/os_gl.o build/temp.linux-x86_64-3.6/layer1/Basis.o build/temp.linux-x86_64-3.6/layer1/ButMode.o build/temp.linux-x86_64-3.6/layer1/CGO.o build/temp.linux-x86_64-3.6/layer1/COLLADA.o build/temp.linux-x86_64-3.6/layer1/Character.o build/temp.linux-x86_64-3.6/layer1/Color.o build/temp.linux-x86_64-3.6/layer1/Control.o build/temp.linux-x86_64-3.6/layer1/Extrude.o build/temp.linux-x86_64-3.6/layer1/Font.o build/temp.linux-x86_64-3.6/layer1/FontGLUT.o build/temp.linux-x86_64-3.6/layer1/FontGLUT8x13.o build/temp.linux-x86_64-3.6/layer1/FontGLUT9x15.o build/temp.linux-x86_64-3.6/layer1/FontGLUTHel10.o build/temp.linux-x86_64-3.6/layer1/FontGLUTHel12.o build/temp.linux-x86_64-3.6/layer1/FontGLUTHel18.o build/temp.linux-x86_64-3.6/layer1/FontType.o build/temp.linux-x86_64-3.6/layer1/Movie.o build/temp.linux-x86_64-3.6/layer1/Ortho.o build/temp.linux-x86_64-3.6/layer1/P.o build/temp.linux-x86_64-3.6/layer1/PConv.o build/temp.linux-x86_64-3.6/layer1/Picking.o build/temp.linux-x86_64-3.6/layer1/Pop.o build/temp.linux-x86_64-3.6/layer1/PyMOLObject.o build/temp.linux-x86_64-3.6/layer1/Ray.o build/temp.linux-x86_64-3.6/layer1/Rep.o build/temp.linux-x86_64-3.6/layer1/Scene.o build/temp.linux-x86_64-3.6/layer1/SceneMouse.o build/temp.linux-x86_64-3.6/layer1/ScenePicking.o build/temp.linux-x86_64-3.6/layer1/SceneRay.o build/temp.linux-x86_64-3.6/layer1/SceneRender.o build/temp.linux-x86_64-3.6/layer1/ScrollBar.o build/temp.linux-x86_64-3.6/layer1/Seq.o build/temp.linux-x86_64-3.6/layer1/Setting.o build/temp.linux-x86_64-3.6/layer1/Shaker.o build/temp.linux-x86_64-3.6/layer1/SymOp.o build/temp.linux-x86_64-3.6/layer1/SymOpPConv.o build/temp.linux-x86_64-3.6/layer1/SymOpTools.o build/temp.linux-x86_64-3.6/layer1/Symmetry.o build/temp.linux-x86_64-3.6/layer1/Text.o build/temp.linux-x86_64-3.6/layer1/TypeFace.o build/temp.linux-x86_64-3.6/layer1/View.o build/temp.linux-x86_64-3.6/layer1/Wizard.o build/temp.linux-x86_64-3.6/layer2/AssemblyHelpers.o build/temp.linux-x86_64-3.6/layer2/AtomInfo.o build/temp.linux-x86_64-3.6/layer2/AtomInfoHistory.o build/temp.linux-x86_64-3.6/layer2/BondTypeHistory.o build/temp.linux-x86_64-3.6/layer2/CifFile.o build/temp.linux-x86_64-3.6/layer2/CifMoleculeReader.o build/temp.linux-x86_64-3.6/layer2/CoordSet.o build/temp.linux-x86_64-3.6/layer2/DistSet.o build/temp.linux-x86_64-3.6/layer2/GadgetSet.o build/temp.linux-x86_64-3.6/layer2/HydrogenAdder.o build/temp.linux-x86_64-3.6/layer2/MmodTyping.o build/temp.linux-x86_64-3.6/layer2/MmtfMoleculeReader.o build/temp.linux-x86_64-3.6/layer2/Mol2Typing.o build/temp.linux-x86_64-3.6/layer2/MolV3000.o build/temp.linux-x86_64-3.6/layer2/ObjectAlignment.o build/temp.linux-x86_64-3.6/layer2/ObjectCGO.o build/temp.linux-x86_64-3.6/layer2/ObjectCallback.o build/temp.linux-x86_64-3.6/layer2/ObjectDist.o build/temp.linux-x86_64-3.6/layer2/ObjectGadget.o build/temp.linux-x86_64-3.6/layer2/ObjectGadgetRamp.o build/temp.linux-x86_64-3.6/layer2/ObjectGroup.o build/temp.linux-x86_64-3.6/layer2/ObjectMap.o build/temp.linux-x86_64-3.6/layer2/ObjectMesh.o build/temp.linux-x86_64-3.6/layer2/ObjectMolecule.o build/temp.linux-x86_64-3.6/layer2/ObjectMolecule2.o build/temp.linux-x86_64-3.6/layer2/ObjectMolecule3.o build/temp.linux-x86_64-3.6/layer2/ObjectSlice.o build/temp.linux-x86_64-3.6/layer2/ObjectSurface.o build/temp.linux-x86_64-3.6/layer2/ObjectVolume.o build/temp.linux-x86_64-3.6/layer2/RepAngle.o build/temp.linux-x86_64-3.6/layer2/RepCartoon.o build/temp.linux-x86_64-3.6/layer2/RepCylBond.o build/temp.linux-x86_64-3.6/layer2/RepDihedral.o build/temp.linux-x86_64-3.6/layer2/RepDistDash.o build/temp.linux-x86_64-3.6/layer2/RepDistLabel.o build/temp.linux-x86_64-3.6/layer2/RepDot.o build/temp.linux-x86_64-3.6/layer2/RepEllipsoid.o build/temp.linux-x86_64-3.6/layer2/RepLabel.o build/temp.linux-x86_64-3.6/layer2/RepMesh.o build/temp.linux-x86_64-3.6/layer2/RepNonbonded.o build/temp.linux-x86_64-3.6/layer2/RepNonbondedSphere.o build/temp.linux-x86_64-3.6/layer2/RepRibbon.o build/temp.linux-x86_64-3.6/layer2/RepSphere.o build/temp.linux-x86_64-3.6/layer2/RepSphereGenerate.o build/temp.linux-x86_64-3.6/layer2/RepSphereImmediate.o build/temp.linux-x86_64-3.6/layer2/RepSurface.o build/temp.linux-x86_64-3.6/layer2/RepWireBond.o build/temp.linux-x86_64-3.6/layer2/Sculpt.o build/temp.linux-x86_64-3.6/layer2/SculptCache.o build/temp.linux-x86_64-3.6/layer2/SideChainHelper.o build/temp.linux-x86_64-3.6/layer2/VFont.o build/temp.linux-x86_64-3.6/layer3/AtomIterators.o build/temp.linux-x86_64-3.6/layer3/CifDataValueFormatter.o build/temp.linux-x86_64-3.6/layer3/Editor.o build/temp.linux-x86_64-3.6/layer3/Executive.o build/temp.linux-x86_64-3.6/layer3/ExecutivePython.o build/temp.linux-x86_64-3.6/layer3/MaeExportHelpers.o build/temp.linux-x86_64-3.6/layer3/MoleculeExporter.o build/temp.linux-x86_64-3.6/layer3/MovieScene.o build/temp.linux-x86_64-3.6/layer3/PlugIOManager.o build/temp.linux-x86_64-3.6/layer3/RingFinder.o build/temp.linux-x86_64-3.6/layer3/Seeker.o build/temp.linux-x86_64-3.6/layer3/Selector.o build/temp.linux-x86_64-3.6/layer3/SelectorTmp.o build/temp.linux-x86_64-3.6/layer3/SpecRec.o build/temp.linux-x86_64-3.6/layer3/SpecRecSpecial.o build/temp.linux-x86_64-3.6/layer4/Cmd.o build/temp.linux-x86_64-3.6/layer4/Menu.o build/temp.linux-x86_64-3.6/layer4/PopUp.o build/temp.linux-x86_64-3.6/layer5/PyMOL.o build/temp.linux-x86_64-3.6/layer5/TestPyMOL.o build/temp.linux-x86_64-3.6/layer5/main.o build/temp.linux-x86_64-3.6/ov/src/OVContext.o build/temp.linux-x86_64-3.6/ov/src/OVHeap.o build/temp.linux-x86_64-3.6/ov/src/OVHeapArray.o build/temp.linux-x86_64-3.6/ov/src/OVLexicon.o build/temp.linux-x86_64-3.6/ov/src/OVOneToAny.o build/temp.linux-x86_64-3.6/ov/src/OVOneToOne.o build/temp.linux-x86_64-3.6/ov/src/OVRandom.o build/temp.linux-x86_64-3.6/ov/src/ov_utility.o -L/usr/lib64 -L/usr/lib -L/usr/lib64 -lpng -lfreetype -lxml2 -lGL -lGLEW -lnetcdf -lpython3.6m -o build/lib.linux-x86_64-3.6/pymol/_cmd.cpython-36m-x86_64-linux-gnu.so -fopenmp
building 'chempy.champ._champ' extension
creating build/temp.linux-x86_64-3.6/contrib/champ
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/champ.c -o build/temp.linux-x86_64-3.6/contrib/champ/champ.o
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/champ_module.c -o build/temp.linux-x86_64-3.6/contrib/champ/champ_module.o
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/chiral.c -o build/temp.linux-x86_64-3.6/contrib/champ/chiral.o
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/err2.c -o build/temp.linux-x86_64-3.6/contrib/champ/err2.o
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/feedback2.c -o build/temp.linux-x86_64-3.6/contrib/champ/feedback2.o
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/list.c -o build/temp.linux-x86_64-3.6/contrib/champ/list.o
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/os_memory.c -o build/temp.linux-x86_64-3.6/contrib/champ/os_memory.o
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/sort.c -o build/temp.linux-x86_64-3.6/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]
   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]
   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]
   hash=(int)rec;
        ^
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/strblock.c -o build/temp.linux-x86_64-3.6/contrib/champ/strblock.o
gcc -pthread -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.6m -c -MMD contrib/champ/vla.c -o build/temp.linux-x86_64-3.6/contrib/champ/vla.o
gcc -pthread -shared -Wl,-z,relro -Wl,-z,now -g -Wl,-z,relro -Wl,-z,now -g -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-x86_64-3.6/contrib/champ/champ.o build/temp.linux-x86_64-3.6/contrib/champ/champ_module.o build/temp.linux-x86_64-3.6/contrib/champ/chiral.o build/temp.linux-x86_64-3.6/contrib/champ/err2.o build/temp.linux-x86_64-3.6/contrib/champ/feedback2.o build/temp.linux-x86_64-3.6/contrib/champ/list.o build/temp.linux-x86_64-3.6/contrib/champ/os_memory.o build/temp.linux-x86_64-3.6/contrib/champ/sort.o build/temp.linux-x86_64-3.6/contrib/champ/strblock.o build/temp.linux-x86_64-3.6/contrib/champ/vla.o -L/usr/lib64 -lpython3.6m -o build/lib.linux-x86_64-3.6/chempy/champ/_champ.cpython-36m-x86_64-linux-gnu.so
+ sleep 1
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.FGptdG
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64
++ dirname /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64
+ cd pymol-open-source-2.5.0
+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ LDFLAGS='-Wl,-z,relro  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld'
+ /usr/bin/python3.6 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64 --use-msgpackc=c++11 --use-openmp=yes --pymol-path=/usr/lib64/python3.6/site-packages/pymol
running install
running install_lib
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.6/chempy/bmin/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.6/chempy/bmin/commands.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.6/chempy/bmin/realtime.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.6/chempy/bmin/state.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin
copying build/lib.linux-x86_64-3.6/chempy/bmin/util.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.6/chempy/champ/_champ.cpython-36m-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.6/chempy/champ/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.6/chempy/champ/amber99.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.6/chempy/champ/assign.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ
copying build/lib.linux-x86_64-3.6/chempy/champ/formal_charges.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/fast
copying build/lib.linux-x86_64-3.6/chempy/fast/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/fast
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/fragments
copying build/lib.linux-x86_64-3.6/chempy/fragments/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/fragments
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/mmtf
copying build/lib.linux-x86_64-3.6/chempy/mmtf/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/mmtf
copying build/lib.linux-x86_64-3.6/chempy/mmtf/io.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/mmtf
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.6/chempy/tinker/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.6/chempy/tinker/amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.6/chempy/tinker/keyword.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.6/chempy/tinker/realtime.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.6/chempy/tinker/state.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker
copying build/lib.linux-x86_64-3.6/chempy/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/arc.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/bond_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/bond_mmff.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/bonds.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/brick.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/cc1.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/charge.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/cif.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/cpv.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/dictdb.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/gamess1.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/gms.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/hetatm.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/io.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/lst.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/mae.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/map.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/mass.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/mmd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/models.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/mol.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/mol2.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/neighbor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/pdb.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/pkl.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/place.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/protein.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/protein_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/protein_amber99.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/protein_mmff.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/protein_residues.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/sdf.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/solvate.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/water_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/water_residues.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
copying build/lib.linux-x86_64-3.6/chempy/xyz.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/askpartial.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/change_confirm.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/colors.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/create_shortcut.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/fetch.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/help_shortcut.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/load_aln.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/load_mae.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/load_map.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/load_mtz.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/load_traj.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/movieexport.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/pluginitem.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/pluginmanager.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/png.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/props.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/render.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/save_molecule.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/save_object.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/shortcut_menu.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
copying build/lib.linux-x86_64-3.6/pmg_qt/forms/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/forms
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.6/pmg_qt/syntax/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.6/pmg_qt/syntax/pml.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.6/pmg_qt/syntax/pmlparser.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.6/pmg_qt/syntax/python.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt/syntax
copying build/lib.linux-x86_64-3.6/pmg_qt/TextEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/advanced_settings_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/builder.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/file_dialogs.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/keymapping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/mimic_pmg_tk.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/mimic_tk.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/properties_dialog.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/pymol_gl_widget.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/pymol_qt_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/shortcut_menu_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
copying build/lib.linux-x86_64-3.6/pmg_qt/volume.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_qt
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/skins
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/skins/demo
copying build/lib.linux-x86_64-3.6/pmg_tk/skins/demo/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/skins/demo
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/skins/normal
copying build/lib.linux-x86_64-3.6/pmg_tk/skins/normal/ModalWindow.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/skins/normal
copying build/lib.linux-x86_64-3.6/pmg_tk/skins/normal/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/skins/normal
copying build/lib.linux-x86_64-3.6/pmg_tk/skins/normal/builder.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/skins/normal
copying build/lib.linux-x86_64-3.6/pmg_tk/skins/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/skins
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/startup
copying build/lib.linux-x86_64-3.6/pmg_tk/startup/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk/startup
copying build/lib.linux-x86_64-3.6/pmg_tk/ColorEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.6/pmg_tk/Demo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.6/pmg_tk/PyMOLMapLoad.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.6/pmg_tk/SetEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.6/pmg_tk/Setting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.6/pmg_tk/TextEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.6/pmg_tk/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.6/pmg_tk/volume.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
copying build/lib.linux-x86_64-3.6/pmg_tk/PMGApp.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pmg_tk
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/_cmd.cpython-36m-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/Qt
copying build/lib.linux-x86_64-3.6/pymol/Qt/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/Qt
copying build/lib.linux-x86_64-3.6/pymol/Qt/utils.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/Qt
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.6/pymol/plugins/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.6/pymol/plugins/installation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.6/pymol/plugins/legacysupport.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.6/pymol/plugins/managergui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.6/pymol/plugins/managergui_qt.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/plugins
copying build/lib.linux-x86_64-3.6/pymol/plugins/repository.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/plugins
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/stereochemistry
copying build/lib.linux-x86_64-3.6/pymol/stereochemistry/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/stereochemistry
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/annotation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/appearance.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/benchmark.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/box.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/charge.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/cleanup.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/command.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/demo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/density.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/distance.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/dragging.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/filter.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/label.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/measurement.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/message.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/mutagenesis.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/nucmutagenesis.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/openvr.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/pair_fit.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/pseudoatom.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/renaming.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/sculpting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/security.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/stereodemo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/wizard/toggle.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizard
copying build/lib.linux-x86_64-3.6/pymol/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/__main__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/api.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/callback.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/cgo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/checking.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/cmd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/colorprinting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/colorramping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/commanding.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/completing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/computing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/constants.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/constants_palette.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/controlling.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/creating.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/diagnosing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/editing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/editor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/experimenting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/exporting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/externing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/feedingback.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/fitting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/headering.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/helping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/importing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/internal.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/invocation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/keyboard.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/keywords.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/lazyio.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/locking.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/menu.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/monitoring.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/morphing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/movie.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/moving.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/mpeg_encode.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/parser.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/parsing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/povray.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/preset.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/pymolhttpd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/querying.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/rpc.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/save_shortcut.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/selecting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/selector.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/seqalign.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/setting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/shortcut.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/shortcut_dict.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/shortcut_manager.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/util.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/vfont.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/viewing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/wizarding.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/xray.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying build/lib.linux-x86_64-3.6/pymol/xwin.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol2
copying build/lib.linux-x86_64-3.6/pymol2/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol2
copying build/lib.linux-x86_64-3.6/pymol2/cmd2.py -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol2
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin/__init__.py to __init__.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin/commands.py to commands.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin/realtime.py to realtime.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin/state.py to state.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bmin/util.py to util.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ/__init__.py to __init__.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ/amber99.py to amber99.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ/assign.py to assign.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ/formal_charges.py to formal_charges.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/fast/__init__.py to __init__.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/fragments/__init__.py to __init__.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/mmtf/__init__.py to __init__.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/mmtf/io.py to io.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker/__init__.py to __init__.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker/amber.py to amber.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker/keyword.py to keyword.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker/realtime.py to realtime.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/tinker/state.py to state.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/__init__.py to __init__.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/arc.py to arc.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bond_amber.py to bond_amber.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bond_mmff.py to bond_mmff.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/bonds.py to bonds.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/brick.py to brick.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/cc1.py to cc1.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/charge.py to charge.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/cif.py to cif.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/cpv.py to cpv.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/dictdb.py to dictdb.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/gamess1.py to gamess1.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/gms.py to gms.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/hetatm.py to hetatm.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/io.py to io.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/lst.py to lst.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/mae.py to mae.cpython-36.pyc
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byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/experimenting.py to experimenting.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/exporting.py to exporting.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/externing.py to externing.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/feedingback.py to feedingback.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/fitting.py to fitting.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/gui.py to gui.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/headering.py to headering.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/helping.py to helping.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/importing.py to importing.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/internal.py to internal.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/invocation.py to invocation.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/keyboard.py to keyboard.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/keywords.py to keywords.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/lazyio.py to lazyio.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/locking.py to locking.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/menu.py to menu.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/monitoring.py to monitoring.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/morphing.py to morphing.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/movie.py to movie.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/moving.py to moving.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/mpeg_encode.py to mpeg_encode.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/parser.py to parser.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/parsing.py to parsing.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/povray.py to povray.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/preset.py to preset.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/pymolhttpd.py to pymolhttpd.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/querying.py to querying.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/rpc.py to rpc.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/save_shortcut.py to save_shortcut.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/selecting.py to selecting.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/selector.py to selector.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/seqalign.py to seqalign.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/setting.py to setting.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/shortcut.py to shortcut.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/shortcut_dict.py to shortcut_dict.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/shortcut_manager.py to shortcut_manager.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/util.py to util.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/vfont.py to vfont.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/viewing.py to viewing.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/wizarding.py to wizarding.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/xray.py to xray.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/xwin.py to xwin.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol2/__init__.py to __init__.cpython-36.pyc
byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol2/cmd2.py to cmd2.cpython-36.pyc
writing byte-compilation script '/tmp/tmpa89j7zrt.py'
/usr/bin/python3.6 /tmp/tmpa89j7zrt.py
removing /tmp/tmpa89j7zrt.py
running install_egg_info
Writing /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol-2.5.0-py3.6.egg-info
copying LICENSE -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol
copying data -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/data
copying test -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/test
copying examples -> /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/examples
creating /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/bin
+ echo '#!/bin/sh'
+ echo 'export PYMOL_PATH=/usr/lib64/python3.6/site-packages/pymol'
+ echo 'exec /usr/bin/python3.6 /usr/lib64/python3.6/site-packages/pymol/__init__.py "$@"'
+ cp -a data examples test /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/examples/devel/link_demo.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/examples/devel/particle01.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/examples/devel/particle02.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/test/inp/B03.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/test/inp/B05.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/test/inp/B11.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/test/ref/T01.log
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/pymol_path/examples/devel/link_demo.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/pymol_path/examples/devel/particle01.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/pymol_path/examples/devel/particle02.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/pymol_path/test/inp/B03.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/pymol_path/test/inp/B05.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/pymol_path/test/inp/B11.py
+ rm -f /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/pymol_path/test/ref/T01.log
+ mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/bin
+ install -p -m 755 pymol /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/bin/
+ desktop-file-install --vendor= --dir=/builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/applications /builddir/build/SOURCES/pymol.desktop
+ mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/pixmaps
+ install -p -m 644 /builddir/build/SOURCES/pymol.png /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/pixmaps/
+ mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/metainfo
+ install -p -m 644 /builddir/build/SOURCES/pymol.appdata.xml /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/metainfo/
+ appstream-util validate-relax --nonet /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64//usr/share/metainfo/pymol.appdata.xml
/builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64//usr/share/metainfo/pymol.appdata.xml: OK
+ /usr/lib/rpm/find-debuginfo.sh -j4 --strict-build-id -m -i --build-id-seed 2.5.0-7.el8 --unique-debug-suffix -2.5.0-7.el8.x86_64 --unique-debug-src-base pymol-2.5.0-7.el8.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/pymol-open-source-2.5.0
extracting debug info from /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/chempy/champ/_champ.cpython-36m-x86_64-linux-gnu.so
extracting debug info from /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6/site-packages/pymol/_cmd.cpython-36m-x86_64-linux-gnu.so
/usr/lib/rpm/sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match.
51209 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
/sbin/ldconfig: Warning: ignoring configuration file that cannot be opened: /etc/ld.so.conf: No such file or directory
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/brp-python-bytecompile '' 1
Bytecompiling .py files below /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib/debug/usr/lib64/python3.6 using /usr/libexec/platform-python
Bytecompiling .py files below /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/lib64/python3.6 using /usr/libexec/platform-python
+ /usr/lib/rpm/brp-python-hardlink
+ PYTHON3=/usr/bin/python3.6
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
*** WARNING: ./usr/src/debug/pymol-2.5.0-7.el8.x86_64/layer3/MaeExportHelpers.h is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-2.5.0-7.el8.x86_64/layer3/MaeExportHelpers.cpp is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-2.5.0-7.el8.x86_64/layer0/GraphicsUtil.h is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-2.5.0-7.el8.x86_64/layer0/GraphicsUtil.cpp is executable but has no shebang, removing executable bit
Processing files: pymol-2.5.0-7.el8.x86_64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.8bRbLR
+ umask 022
+ cd /builddir/build/BUILD
+ cd pymol-open-source-2.5.0
+ DOCDIR=/builddir/build/BUILDROOT/pymol-2.5.0-7.el8.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.el8.x86_64/usr/share/doc/pymol
+ cp -pr AUTHORS /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/doc/pymol
+ cp -pr DEVELOPERS /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/doc/pymol
+ cp -pr README.md /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/doc/pymol
+ cp -pr ChangeLog /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/doc/pymol
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.8wXx8O
+ umask 022
+ cd /builddir/build/BUILD
+ cd pymol-open-source-2.5.0
+ LICENSEDIR=/builddir/build/BUILDROOT/pymol-2.5.0-7.el8.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.el8.x86_64/usr/share/licenses/pymol
+ cp -pr LICENSE /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64/usr/share/licenses/pymol
+ exit 0
Provides: PyMOL(x86-64) = 0:2.5.0-7.el8 application() application(pymol.desktop) metainfo() metainfo(pymol.appdata.xml) pymol = 2.5.0-7.el8 pymol(x86-64) = 2.5.0-7.el8 python3.6dist(pymol) = 2.5.0 python3dist(pymol) = 2.5.0
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: /bin/sh libGL.so.1()(64bit) libGLEW.so.2.0()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libfreetype.so.6()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(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) libnetcdf.so.15()(64bit) libpng16.so.16()(64bit) libpng16.so.16(PNG16_0)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.2.5)(64bit) libpython3.6m.so.1.0()(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_3.4.9)(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) = 3.6 rtld(GNU_HASH)
Processing files: pymol-debugsource-2.5.0-7.el8.x86_64
Provides: pymol-debugsource = 2.5.0-7.el8 pymol-debugsource(x86-64) = 2.5.0-7.el8
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.el8.x86_64
Provides: debuginfo(build-id) = 883464e505b8f822f976d576335e8f8448668877 debuginfo(build-id) = f5a751a7a0ec17c765d00dd040b1d1e5b93070d1 pymol-debuginfo = 2.5.0-7.el8 pymol-debuginfo(x86-64) = 2.5.0-7.el8
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.el8
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/pymol-2.5.0-7.el8.x86_64
Wrote: /builddir/build/RPMS/pymol-2.5.0-7.el8.x86_64.rpm
Wrote: /builddir/build/RPMS/pymol-debugsource-2.5.0-7.el8.x86_64.rpm
Wrote: /builddir/build/RPMS/pymol-debuginfo-2.5.0-7.el8.x86_64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.vj9leu
+ 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.el8.x86_64
+ exit 0
Finish: rpmbuild pymol-2.5.0-7.el8.src.rpm
Finish: build phase for pymol-2.5.0-7.el8.src.rpm
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/rhel+epel-8-x86_64-1777472477.301044/root/var/log/dnf.rpm.log
/var/lib/mock/rhel+epel-8-x86_64-1777472477.301044/root/var/log/dnf.librepo.log
/var/lib/mock/rhel+epel-8-x86_64-1777472477.301044/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.el8.src.rpm) Config(child) 3 minutes 3 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
Finish: run
Running RPMResults tool
Package info:
{
    "packages": [
        {
            "name": "pymol",
            "epoch": null,
            "version": "2.5.0",
            "release": "7.el8",
            "arch": "x86_64"
        },
        {
            "name": "pymol-debugsource",
            "epoch": null,
            "version": "2.5.0",
            "release": "7.el8",
            "arch": "x86_64"
        },
        {
            "name": "pymol-debuginfo",
            "epoch": null,
            "version": "2.5.0",
            "release": "7.el8",
            "arch": "x86_64"
        },
        {
            "name": "pymol",
            "epoch": null,
            "version": "2.5.0",
            "release": "7.el8",
            "arch": "src"
        }
    ]
}
RPMResults finished