Mock Version: 6.0
Mock Version: 6.0
Mock Version: 6.0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target x86_64 --nodeps /builddir/build/SPECS/pymol.spec'], chrootPath='/var/lib/mock/f42-build-58202973-6563139/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f597e9fd590>timeout=201600uid=1000gid=425user='mockbuild'unshare_net=TrueprintOutput=Falsenspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'])
Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']
Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', '6dd19fef88f84232b3fae1ffb040b4e3', '-D', '/var/lib/mock/f42-build-58202973-6563139/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target x86_64 --nodeps /builddir/build/SPECS/pymol.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1738540800
Wrote: /builddir/build/SRPMS/pymol-3.1.0-2.fc42.src.rpm
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -br --noclean --target x86_64 --nodeps /builddir/build/SPECS/pymol.spec'], chrootPath='/var/lib/mock/f42-build-58202973-6563139/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f597e9fd590>timeout=201600uid=1000gid=425user='mockbuild'unshare_net=TrueraiseExc=FalseprintOutput=Falsenspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'])
Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']
Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', 'b0502a3cadfb41c7b9e524db51032972', '-D', '/var/lib/mock/f42-build-58202973-6563139/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -br --noclean --target x86_64 --nodeps /builddir/build/SPECS/pymol.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1738540800
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.bv7qRa
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.r1Q0Xs
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ rm -rf pymol-open-source-3.1.0
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/pymol-open-source-3.1.0.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd pymol-open-source-3.1.0
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/pymol-wmclass-main.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f
+ /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/pymol-wmclass-pmgapp.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f
+ /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/pymol-mmtf.patch
+ /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f
+ ln -sr modules/web modules/pymol_web
+ sed -e 's|1.26.4,<2|1.26.4,<3|g' -i ./pyproject.toml
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.ktkYGw
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd pymol-open-source-3.1.0
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(packaging)'
+ echo 'python3dist(pip) >= 19'
+ '[' -f pyproject.toml ']'
+ echo '(python3dist(tomli) if python3-devel < 3.11)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ echo -n
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ VALAFLAGS=-g
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ CC=gcc
+ CXX=g++
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ RPM_TOXENV=py313
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir --output /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-buildrequires -p
Handling numpy>=1.26.4,<3 from build-system.requires
Requirement not satisfied: numpy>=1.26.4,<3
Handling setuptools>=69.2.0 from build-system.requires
Requirement not satisfied: setuptools>=69.2.0
Exiting dependency generation pass: build backend
+ cat /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-buildrequires
+ rm -rfv '*.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Wrote: /builddir/build/SRPMS/pymol-3.1.0-2.fc42.buildreqs.nosrc.rpm
Child return code was: 11
Dynamic buildrequires detected
Going to install missing buildrequires. See root.log for details.
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -br --noprep --noclean --target x86_64 --nodeps /builddir/build/SPECS/pymol.spec'], chrootPath='/var/lib/mock/f42-build-58202973-6563139/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f597e9fd590>timeout=201600uid=1000gid=425user='mockbuild'unshare_net=TrueraiseExc=FalseprintOutput=Falsenspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'])
Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']
Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', '93e8680369784b77bebf0419712e2a8a', '-D', '/var/lib/mock/f42-build-58202973-6563139/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -br --noprep --noclean --target x86_64 --nodeps /builddir/build/SPECS/pymol.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1738540800
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.9bRLBW
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd pymol-open-source-3.1.0
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(packaging)'
+ echo 'python3dist(pip) >= 19'
+ '[' -f pyproject.toml ']'
+ echo '(python3dist(tomli) if python3-devel < 3.11)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ echo -n
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ VALAFLAGS=-g
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ CC=gcc
+ CXX=g++
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ RPM_TOXENV=py313
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir --output /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-buildrequires -p
Handling numpy>=1.26.4,<3 from build-system.requires
Requirement satisfied: numpy>=1.26.4,<3
   (installed: numpy 2.2.4)
Handling setuptools>=69.2.0 from build-system.requires
Requirement satisfied: setuptools>=69.2.0
   (installed: setuptools 74.1.3)
Handling numpy>=1.26.4,<3 from pyproject.toml generated metadata: [dependencies] (pymol)
Requirement satisfied: numpy>=1.26.4,<3
   (installed: numpy 2.2.4)
Handling pillow==10.3.0 from pyproject.toml generated metadata: [optional-dependencies] test (pymol)
Ignoring alien requirement: pillow==10.3.0
Handling pytest==8.2.2 from pyproject.toml generated metadata: [optional-dependencies] test (pymol)
Ignoring alien requirement: pytest==8.2.2
+ cat /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-buildrequires
+ rm -rfv '*.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Wrote: /builddir/build/SRPMS/pymol-3.1.0-2.fc42.buildreqs.nosrc.rpm
Child return code was: 11
Dynamic buildrequires detected
Going to install missing buildrequires. See root.log for details.
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -ba --noprep --noclean --target x86_64 /builddir/build/SPECS/pymol.spec'], chrootPath='/var/lib/mock/f42-build-58202973-6563139/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f597e9fd590>timeout=201600uid=1000gid=425user='mockbuild'unshare_net=TrueprintOutput=Falsenspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'])
Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']
Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', 'df1e999cd42f42adab83a514fdeed155', '-D', '/var/lib/mock/f42-build-58202973-6563139/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.887y8i2c:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -ba --noprep --noclean --target x86_64 /builddir/build/SPECS/pymol.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1738540800
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.sXwPXE
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd pymol-open-source-3.1.0
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(packaging)'
+ echo 'python3dist(pip) >= 19'
+ '[' -f pyproject.toml ']'
+ echo '(python3dist(tomli) if python3-devel < 3.11)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ echo -n
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ VALAFLAGS=-g
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ CC=gcc
+ CXX=g++
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ RPM_TOXENV=py313
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir --output /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-buildrequires -p
Handling numpy>=1.26.4,<3 from build-system.requires
Requirement satisfied: numpy>=1.26.4,<3
   (installed: numpy 2.2.4)
Handling setuptools>=69.2.0 from build-system.requires
Requirement satisfied: setuptools>=69.2.0
   (installed: setuptools 74.1.3)
Handling numpy>=1.26.4,<3 from pyproject.toml generated metadata: [dependencies] (pymol)
Requirement satisfied: numpy>=1.26.4,<3
   (installed: numpy 2.2.4)
Handling pillow==10.3.0 from pyproject.toml generated metadata: [optional-dependencies] test (pymol)
Ignoring alien requirement: pillow==10.3.0
Handling pytest==8.2.2 from pyproject.toml generated metadata: [optional-dependencies] test (pymol)
Ignoring alien requirement: pytest==8.2.2
+ cat /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-buildrequires
+ rm -rfv '*.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.Wa8eCo
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd pymol-open-source-3.1.0
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ VALAFLAGS=-g
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ CC=gcc
+ CXX=g++
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_wheel.py -C=use-openmp=yes -C=testing=true -C=use-msgpackc=c++11 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir
Processing /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0
  Preparing metadata (pyproject.toml): started
  Running command Preparing metadata (pyproject.toml)
  running build_ext
  cmake /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 -DTARGET_NAME=_cmd -DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/lib.linux-x86_64-cpython-313/pymol -DCMAKE_BUILD_TYPE=Release -DALL_INC_DIR=include;contrib/uiuc/plugins/include;ov/src;layer0;layer1;layer2;layer3;layer4;layer5;build/generated;contrib/uiuc/plugins/molfile_plugin/src;contrib/mmtf-c;layerCTest;/usr/lib64/python3.13/site-packages/numpy/_core/include;/usr/include;/usr/include/freetype2;/usr/include/libxml2;/usr/include/python3.13;/usr/include/python3.13; -DALL_SRC=build/generated/ShaderText.cpp;contrib/mmtf-c/mmtf_parser.cpp;contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c;contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c;contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c;contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c;contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/carplugin.c;contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/corplugin.c;contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c;contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c;contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c;contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c;contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/hash.c;contrib/uiuc/plugins/molfile_plugin/src/inthash.c;contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c;contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c;contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c;contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c;contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c;contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c;contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c;contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c;layer0/Bezier.cpp;layer0/Block.cpp;layer0/CarveHelper.cpp;layer0/ContourSurf.cpp;layer0/Crystal.cpp;layer0/Err.cpp;layer0/Feedback.cpp;layer0/Field.cpp;layer0/File.cpp;layer0/GFXManager.cpp;layer0/GenericBuffer.cpp;layer0/GraphicsUtil.cpp;layer0/Isosurf.cpp;layer0/Map.cpp;layer0/Match.cpp;layer0/Matrix.cpp;layer0/MemoryDebug.cpp;layer0/MemoryUsage.cpp;layer0/MyPNG.cpp;layer0/Parse.cpp;layer0/Pixmap.cpp;layer0/PostProcess.cpp;layer0/PrintUtils.cpp;layer0/ShaderMgr.cpp;layer0/ShaderPreprocessor.cpp;layer0/ShaderPrg.cpp;layer0/Sphere.cpp;layer0/TTT.cpp;layer0/Tetsurf.cpp;layer0/Texture.cpp;layer0/Tracker.cpp;layer0/Triangle.cpp;layer0/Util.cpp;layer0/Util2.cpp;layer0/Vector.cpp;layer0/Word.cpp;layer0/ccealignmodule.cpp;layer0/marching_cubes.cpp;layer0/os_gl.cpp;layer1/Basis.cpp;layer1/ButMode.cpp;layer1/CGO.cpp;layer1/CGOGL.cpp;layer1/CGORenderer.cpp;layer1/COLLADA.cpp;layer1/Camera.cpp;layer1/Character.cpp;layer1/Color.cpp;layer1/Control.cpp;layer1/Extrude.cpp;layer1/Font.cpp;layer1/FontGLUT.cpp;layer1/FontGLUT8x13.cpp;layer1/FontGLUT9x15.cpp;layer1/FontGLUTHel10.cpp;layer1/FontGLUTHel12.cpp;layer1/FontGLUTHel18.cpp;layer1/FontType.cpp;layer1/ImageUtils.cpp;layer1/Movie.cpp;layer1/Ortho.cpp;layer1/P.cpp;layer1/PConv.cpp;layer1/Pick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-DALL_DEF=_PYMOL_LIBPNG;_PYMOL_FREETYPE;PYMOL_OPENMP;_PYMOL_VMD_PLUGINS;_HAVE_LIBXML;MMTF_MSGPACK_USE_CPP11;MSGPACK_NO_BOOST;_PYMOL_NO_MAIN;_PYMOL_CTEST;_PYMOL_NUMPY; -DALL_LIB_DIR=/usr/lib64;/usr/lib; -DALL_LIB=png;freetype;xml2;GL;GLEW;netcdf; -DALL_COMP_ARGS=-Werror=return-type;-Wunused-variable;-Wno-switch;-Wno-narrowing;-Wno-char-subscripts;-O3;-fopenmp; -DALL_EXT_LINK=-fopenmp -DSHARED_SUFFIX=.cpython-313-x86_64-linux-gnu.so
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  [  1%] Building CXX object CMakeFiles/_cmd.dir/contrib/mmtf-c/mmtf_parser.cpp.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/mmtf-c/mmtf_parser.cpp.o -MF CMakeFiles/_cmd.dir/contrib/mmtf-c/mmtf_parser.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/mmtf-c/mmtf_parser.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp
  [  1%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp
  [  2%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function ‘PlugIOManagerInitAll’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:271:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
    271 | if(ok) ok = ok && (molfile_xyzplugin_init() == VMDPLUGIN_SUCCESS);
        | ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:273:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
    273 |        if(ok) {
        |        ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function ‘PlugIOManagerFreeAll’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:411:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
    411 | if(ok) ok = ok && (molfile_xyzplugin_fini() == VMDPLUGIN_SUCCESS);
        | ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:413:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
    413 |        return ok;
        |        ^~~~~~
  [  2%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
   1097 | static void whereami(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
   1077 | static void thisline(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1028:12: warning: ‘fpexpftoc’ defined but not used [-Wunused-function]
   1028 | static int fpexpftoc(char *ftocstr) {
        |            ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1006:12: warning: ‘have_keyline’ defined but not used [-Wunused-function]
   1006 | static int have_keyline(FILE *file, const char *keystring1,
        |            ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:962:12: warning: ‘goto_keyline’ defined but not used [-Wunused-function]
    962 | static int goto_keyline(FILE *file, ...) {
        |            ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:901:14: warning: ‘strtoupper’ defined but not used [-Wunused-function]
    901 | static char *strtoupper(char *s) {
        |              ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:895:12: warning: ‘iswhiteline’ defined but not used [-Wunused-function]
    895 | static int iswhiteline(char *s) {
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:846:13: warning: ‘eatwhitelines’ defined but not used [-Wunused-function]
    846 | static void eatwhitelines(FILE *file) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:835:13: warning: ‘eatline’ defined but not used [-Wunused-function]
    835 | static void eatline(FILE * fd, int n)
        |             ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:711:12: warning: ‘symmetry_expand’ defined but not used [-Wunused-function]
    711 | static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms,
        |            ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:585:13: warning: ‘print_matrix4’ defined but not used [-Wunused-function]
    585 | static void print_matrix4(const float mat[16]) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:540:13: warning: ‘angular_momentum_expon’ defined but not used [-Wunused-function]
    540 | static void angular_momentum_expon(int  *ang_mom_expon,
        |             ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:507:13: warning: ‘del_wavefunction’ defined but not used [-Wunused-function]
    507 | static void del_wavefunction(qm_timestep_t *ts) {
        |             ^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:490:13: warning: ‘replace_wavefunction’ defined but not used [-Wunused-function]
    490 | static void replace_wavefunction(qm_timestep_t *ts, int n) {
        |             ^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:471:27: warning: ‘add_wavefunction’ defined but not used [-Wunused-function]
    471 | static qm_wavefunction_t* add_wavefunction(qm_timestep_t *ts) {
        |                           ^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:437:18: warning: ‘init_qmdata’ defined but not used [-Wunused-function]
    437 | static qmdata_t* init_qmdata() {
        |                  ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘DEN_read_volumetric_data’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:970:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    970 |     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:971:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    971 |     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘POT_read_volumetric_data’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1113:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1113 |     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1114:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1114 |     fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:243:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    243 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:252:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    252 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘abinit_header’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1511:3: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1511 |   fread(skip, 1, 8, fp);
        |   ^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_bonds_aux(void*, int*, int**, int**, float**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:328:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    328 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:346:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    346 |   fgets(line, LINESIZE, bgf->file);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:355:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    355 |     fgets(nextline, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:419:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    419 |         fgets(line, LINESIZE, bgf->file);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:194:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    194 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:203:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    203 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘void* open_bgf_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:59:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     59 |     fgets(line, LINESIZE, fd);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘GEO_read_next_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:619:5: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    619 |     fscanf(data->file, "%*s %f %f %f", &x, &y, &z);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:70:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  [  3%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c: In function ‘open_binpos_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:64:3: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     64 |   fread(magicchar,sizeof(char),4,fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:72:3: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     72 |   fread(&igarb,sizeof(int),1,fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [  3%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp
  [  3%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp
  [  4%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘read_bgf_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:120:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 224 [-Wstringop-truncation]
    120 |     strncpy(numstr, record + 31, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:125:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 214 [-Wstringop-truncation]
    125 |     strncpy(numstr+10, record + 41, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:130:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 204 [-Wstringop-truncation]
    130 |     strncpy(numstr+20, record + 51, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:120:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 224 [-Wstringop-truncation]
    120 |     strncpy(numstr, record + 31, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:125:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 214 [-Wstringop-truncation]
    125 |     strncpy(numstr+10, record + 41, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:130:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 204 [-Wstringop-truncation]
    130 |     strncpy(numstr+20, record + 51, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:326:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    326 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:339:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    339 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:344:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    344 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:349:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    349 |   fgets(line, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:363:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    363 |       fgets(line, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:373:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    373 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:266:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    266 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:268:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    268 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:272:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    272 |   fgets(line, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:295:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    295 |       fgets(line, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:305:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    305 |     fgets(line, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘open_car_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:169:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    169 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:179:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    179 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:182:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    182 |     fgets(line, LINESIZE, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:210:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    210 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:213:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    213 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:224:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    224 |     fgets(line, LINESIZE, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:226:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    226 |     fgets(line, LINESIZE, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:230:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    230 |   fgets(line, LINESIZE, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:234:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    234 |       fgets(line, LINESIZE, fd);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:245:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    245 |     fgets(line, LINESIZE, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘read_bgf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:144:10: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 242 [-Wstringop-truncation]
    144 |   strncpy(name, record + 13, 5);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:149:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 236 [-Wstringop-truncation]
    149 |   strncpy(resname, record + 19, 4);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:167:10: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 194 [-Wstringop-truncation]
    167 |   strncpy(type, record+61, 5);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:29: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=]
    127 |     sprintf(atom->resname, "%d", resid);
        |                             ^~
  In function ‘read_car_structure_line’,
      inlined from ‘read_car_structure’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:277:12:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:28: note: directive argument in the range [-2147483648, 9999999]
    127 |     sprintf(atom->resname, "%d", resid);
        |                            ^~~~
  In file included from /usr/include/stdio.h:970,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:85:
  In function ‘sprintf’,
      inlined from ‘read_car_structure_line’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:5,
      inlined from ‘read_car_structure’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:277:12:
  /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 2 and 12 bytes into a destination of size 8
     30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
        |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     31 |                                   __glibc_objsize (__s), __fmt,
        |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     32 |                                   __va_arg_pack ());
        |                                   ~~~~~~~~~~~~~~~~~
  [  4%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp
  [  4%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/corplugin.c
  [  5%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function ‘int read_brix_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:247:14: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    247 |         fread(brick, sizeof(char), 512, fd);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function ‘void* open_brix_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:79:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     79 |   fscanf(fd, "%3s", keyWord);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:86:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     86 |   fscanf(fd, " %s %d %d %d", keyWord, &org_x, &org_y, &org_z);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:93:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     93 |   fscanf(fd, " %s %d %d %d", keyWord, &ext_x, &ext_y, &ext_z);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:100:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    100 |   fscanf(fd, " %s %f %f %f", keyWord, &grid_x, &grid_y, &grid_z);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:109:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    109 |   fscanf(fd, " %s %f %f %f %f %f %f", keyWord,
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    110 |          &cell_x, &cell_y, &cell_z, &cell_alpha, &cell_beta, &cell_gamma);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:123:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    123 |   fscanf(fd, " %s %f", keyWord, &prod);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:128:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    128 |   fscanf(fd, " %s %f", keyWord, &plus);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:135:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    135 |   fscanf(fd, " %s %f", keyWord, &sigma);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [  5%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp.o
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘int read_ccp4_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:495:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    495 |         if ( fread(rowdata, sizeof(char), extent[0], fd) != extent[0] ) {
        |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:525:67: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    525 |         if ( fread(rowdata, sizeof(unsigned char), extent[0], fd) != extent[0] ) {
        |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:556:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    556 |         if (fread(rowdata, sizeof(float), extent[0], fd) != extent[0] ) {
        |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:588:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    588 |         if (fread(rowdata, sizeof(short), extent[0], fd) != extent[0] ) {
        |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:623:67: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    623 |         if (fread(rowdata, sizeof(unsigned short), extent[0], fd) != extent[0] ) {
        |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:655:60: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    655 |         if ( fread(rowdata, sizeof(uchar3), extent[0], fd) != extent[0] ) {
        |              ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘void* open_ccp4_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:304:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    304 |       fgets(symData, 81, fd);
        |       ~~~~~^~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  [  6%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c
  [  6%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c
  [  6%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:292:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
    292 |   if (NULL == fgets(fbuffer, 1024, data->file))
        |   ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:295:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
    295 |     if (NULL == fgets(fbuffer, 1024, data->file))
        |     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:669:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    669 |   fgets(fbuffer, 1024, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:554:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    554 |   fgets(fbuffer, 1024, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function ‘read_dcdstep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:546:16: warning: variable ‘readlen’ set but not used [-Wunused-but-set-variable]
    546 |     fio_size_t readlen; /* number of bytes actually read            */
        |                ^~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:60:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fastio.h:609:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function]
    609 | static int fio_write_str(fio_fd fd, const char *str) {
        |            ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fastio.h:605:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function]
    605 | static int fio_read_int32(fio_fd fd, int *i) {
        |            ^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fastio.h:459:19: warning: ‘fio_readv’ defined but not used [-Wunused-function]
    459 | static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) {
        |                   ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:362:5: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 4095 [-Wstringop-truncation]
    362 |     strncpy(atom->name, buf, sizeof(atom->name));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function ‘void* open_cube_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:175:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    175 |   fgets(readbuf, 1023, cube->fd);    // go on to next line
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:181:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    181 |   fgets(readbuf, 1023, cube->fd); // skip second header line
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:326:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    326 |       fgets(readbuf, 1023, cube->fd);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:337:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    337 |       fgets(readbuf, 1023, cube->fd);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:339:11: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    339 |     fscanf(cube->fd, "%d", &cube->nsets);
        |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:344:13: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    344 |       fscanf(cube->fd, "%d", &orb);
        |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:349:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    349 |     fgets(readbuf, 1023, cube->fd);  // gobble up rest of line
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:107:13: warning: ‘void cube_buildrotmat(cube_t*, float*, float*, float*)’ defined but not used [-Wunused-function]
    107 | static void cube_buildrotmat(cube_t *cube, float *o, float *a, float *b)
        |             ^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘int get_pte_idx_from_string(const char*)’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘int get_pte_idx(const char*)’ defined but not used [-Wunused-function]
    133 | static int get_pte_idx(const char *label)
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:267:5: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 4095 [-Wstringop-truncation]
    267 |     strncpy(atom->name, buf, sizeof(atom->name));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘open_ccp4_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:279:3: warning: ‘dataOffset’ may be used uninitialized [-Wmaybe-uninitialized]
    279 |   if (dataOffset != (CCP4HDSIZE + symBytes)) {
        |   ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:89:8: note: ‘dataOffset’ was declared here
     89 |   long dataOffset, filesize;
        |        ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function ‘int read_dsn6_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:233:14: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    233 |         fread(brick, sizeof(char), 512, fd);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function ‘void* open_dsn6_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:91:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     91 |   fread(fileHeader, sizeof(short), 19, fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:63:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: ‘void swap4_aligned(void*, long int)’ defined but not used [-Wunused-function]
    110 | static void swap4_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  [  7%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function ‘open_cube_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:179:10: warning: ‘__strncat_chk’ output may be truncated copying 240 bytes from a string of length 1023 [-Wstringop-truncation]
    179 |   strncat(voltmpl.dataname, readbuf, 240);      // 240 is max space left after
        |          ^
  [  7%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp
  [  8%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘bool MMTF_unpack_from_file(const char*, MMTF_container*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:1079:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1079 |     fread(buffer, fileLen, 1, file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function ‘void* open_fs4_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:79:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     79 |   fread(&dataBegin, sizeof(int), 1, fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:48:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: ‘void strnwscpy(char*, const char*, int)’ defined but not used [-Wunused-function]
    133 | static void strnwscpy(char *target, const char *source, const int len) {
        |             ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘int fort_get_endian_reclen(int, int, int, int*, int*)’ defined but not used [-Wunused-function]
     55 | static int fort_get_endian_reclen(int reclen, int word0, int word1,
        |            ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘int fort_eat_recmark(FILE*, int)’ defined but not used [-Wunused-function]
     36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) {
        |            ^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:47:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function ‘int read_edm_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:240:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    240 |   fgets(readbuf, 13, edm->fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function ‘void eatline(FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:44:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     44 |   fgets(readbuf, 1024, fd);    // go on to next line
        |   ~~~~~^~~~~~~~~~~~~~~~~~~
  [  8%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c
  [  9%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘have_gamess’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1106:8: warning: variable ‘word’ set but not used [-Wunused-but-set-variable]
   1106 |   char word[3][BUFSIZ];
        |        ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_basis_stats’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2264:8: warning: variable ‘word’ set but not used [-Wunused-but-set-variable]
   2264 |   char word[7][BUFSIZ];
        |        ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_wavefunction’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:3573:8: warning: variable ‘word’ set but not used [-Wunused-but-set-variable]
   3573 |   char word[6][BUFSIZ];
        |        ^~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘eatline’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    840 |     fgets(readbuf, 1024, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1002:13: warning: ‘print_input_data’ defined but not used [-Wunused-function]
   1002 | static void print_input_data(qmdata_t *data) {
        |             ^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:162:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘get_pte_idx’ defined but not used [-Wunused-function]
    133 | static int get_pte_idx(const char *label)
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: ‘get_pte_vdw_radius’ defined but not used [-Wunused-function]
    109 | static float get_pte_vdw_radius(const int idx)
        |              ^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: ‘get_pte_mass’ defined but not used [-Wunused-function]
    102 | static float get_pte_mass(const int idx)
        |              ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: ‘get_pte_label’ defined but not used [-Wunused-function]
     95 | static const char *get_pte_label(const int idx)
        |                    ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
   1097 | static void whereami(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
   1077 | static void thisline(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1028:12: warning: ‘fpexpftoc’ defined but not used [-Wunused-function]
   1028 | static int fpexpftoc(char *ftocstr) {
        |            ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:901:14: warning: ‘strtoupper’ defined but not used [-Wunused-function]
    901 | static char *strtoupper(char *s) {
        |              ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:895:12: warning: ‘iswhiteline’ defined but not used [-Wunused-function]
    895 | static int iswhiteline(char *s) {
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:585:13: warning: ‘print_matrix4’ defined but not used [-Wunused-function]
    585 | static void print_matrix4(const float mat[16]) {
        |             ^~~~~~~~~~~~~
  [  9%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function ‘void line3(FILE*, GRASSP*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:186:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    186 |   fread(line3, 1, 80, infile);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:284:3: note: in expansion of macro ‘TRASH’
    284 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:285:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    285 |   fread(line, 1, 80, infile);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:291:3: note: in expansion of macro ‘TRASH’
    291 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:305:3: note: in expansion of macro ‘TRASH’
    305 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:306:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    306 |   fread(line, 1, 80, infile);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:307:3: note: in expansion of macro ‘TRASH’
    307 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:311:3: note: in expansion of macro ‘TRASH’
    311 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:313:3: note: in expansion of macro ‘TRASH’
    313 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:318:3: note: in expansion of macro ‘TRASH’
    318 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:319:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    319 |   fread(line, 1, 80, infile);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:320:3: note: in expansion of macro ‘TRASH’
    320 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:328:3: note: in expansion of macro ‘TRASH’
    328 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:329:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    329 |   fread(line, 1, 80, infile);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:330:3: note: in expansion of macro ‘TRASH’
    330 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:354:3: note: in expansion of macro ‘TRASH’
    354 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:355:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    355 |   fread(vertex, 3 * sizeof(float), nvert, infile);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:356:3: note: in expansion of macro ‘TRASH’
    356 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:357:3: note: in expansion of macro ‘TRASH’
    357 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:358:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    358 |   fread(access, 3 * sizeof(float), nvert, infile);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:359:3: note: in expansion of macro ‘TRASH’
    359 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:360:3: note: in expansion of macro ‘TRASH’
    360 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:361:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    361 |   fread(normal, 3 * sizeof(float), nvert, infile);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:362:3: note: in expansion of macro ‘TRASH’
    362 |   TRASH;
        |   ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:371:5: note: in expansion of macro ‘TRASH’
    371 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:372:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    372 |     fread(triangle, 3 * sizeof(int), ntriangles, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:373:5: note: in expansion of macro ‘TRASH’
    373 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:374:5: note: in expansion of macro ‘TRASH’
    374 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:375:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    375 |     fread(properties, 3 * sizeof(float), nvert, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:394:5: note: in expansion of macro ‘TRASH’
    394 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:395:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    395 |     fread(striangle, sizeof(short), 3 * ntriangles, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:396:5: note: in expansion of macro ‘TRASH’
    396 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    280 | #define TRASH fread(trash, 4, 1, infile)
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:397:5: note: in expansion of macro ‘TRASH’
    397 |     TRASH;
        |     ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:398:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    398 |     fread(properties, sizeof(float), 3 * nvert, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘read_gamess_rundata’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:615:3: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
    615 |   strncpy(sys_data->basis_string, data->basis_string,
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:620:3: warning: ‘strncpy’ output may be truncated copying 4096 bytes from a string of length 8191 [-Wstringop-truncation]
    620 |   strncpy(sys_data->runtitle, data->runtitle, sizeof(sys_data->runtitle));
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:621:3: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
    621 |   strncpy(sys_data->geometry, data->geometry, sizeof(sys_data->geometry));
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:622:3: warning: ‘strncpy’ output may be truncated copying 81 bytes from a string of length 8191 [-Wstringop-truncation]
    622 |   strncpy(sys_data->version_string, data->version_string,
        |   ^
  [  9%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_coordinates’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1618:5: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 8191 [-Wstringop-truncation]
   1618 |     strncpy(atm->type, atname, sizeof(atm->type));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1618:5: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 8191 [-Wstringop-truncation]
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp:51:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp: In function ‘void* open_grid_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:84:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     84 |   fread(&dataBegin, sizeof(int), 1, fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:60:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: ‘void strnwscpy(char*, const char*, int)’ defined but not used [-Wunused-function]
    133 | static void strnwscpy(char *target, const char *source, const int len) {
        |             ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘int fort_get_endian_reclen(int, int, int, int*, int*)’ defined but not used [-Wunused-function]
     55 | static int fort_get_endian_reclen(int reclen, int word0, int word1,
        |            ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘int fort_eat_recmark(FILE*, int)’ defined but not used [-Wunused-function]
     36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) {
        |            ^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:59:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  [ 10%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp
  [ 10%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/hash.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/hash.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/hash.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/hash.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/hash.c
  [ 11%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/inthash.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/inthash.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/inthash.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/inthash.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/inthash.c
  [ 11%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c
  In function ‘MMTF_parser_integer_decode_from_16(short const*, unsigned int, int, unsigned int*)’,
      inlined from ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:702:59,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:578:50: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    578 |     float* output = (float*)MALLOC_ARRAY(float, (*output_length));
        |                                                  ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:699:18: note: ‘step1_length’ was declared here
    699 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:740:72: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    740 |         int32_t* output = MMTF_parser_recursive_indexing_decode_from_16(step1, step1_length, output_length);
        |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:737:18: note: ‘step1_length’ was declared here
    737 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:713:71: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    713 |         int32_t* step2 = MMTF_parser_recursive_indexing_decode_from_16(step1, step1_length, &step2_length);
        |                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:709:18: note: ‘step1_length’ was declared here
    709 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:685:71: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    685 |         int32_t* step2 = MMTF_parser_recursive_indexing_decode_from_16(step1, step1_length, &step2_length);
        |                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:681:18: note: ‘step1_length’ was declared here
    681 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:671:55: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    671 |         int32_t* step2 = MMTF_parser_run_length_decode(step1, step1_length, &step2_length);
        |                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:667:18: note: ‘step1_length’ was declared here
    667 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:657:55: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    657 |         int32_t* step2 = MMTF_parser_run_length_decode(step1, step1_length, &step2_length);
        |                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:653:18: note: ‘step1_length’ was declared here
    653 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  In function ‘MMTF_parser_decode_apply_strategy(char const*, unsigned int, unsigned int*, int, int, int*)’,
      inlined from ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:869:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:633:56: warning: ‘step1_length’ may be used uninitialized [-Wmaybe-uninitialized]
    633 |         int32_t* output = MMTF_parser_run_length_decode(step1, step1_length, output_length);
        |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp: In function ‘MMTF_parser_fetch_typed_array(msgpack::v2::object const*, unsigned long*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:630:18: note: ‘step1_length’ was declared here
    630 |         uint32_t step1_length;
        |                  ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:873:5: warning: ‘typecheck’ may be used uninitialized [-Wmaybe-uninitialized]
    873 |     if (typecode != typecheck) {
        |     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c/mmtf_parser.cpp:868:9: note: ‘typecheck’ was declared here
    868 |     int typecheck;
        |         ^~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:71:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: ‘void swap4_aligned(void*, long int)’ defined but not used [-Wunused-function]
    110 | static void swap4_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:70:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vmddir.h:145:12: warning: ‘int vmd_file_is_executable(const char*)’ defined but not used [-Wunused-function]
    145 | static int vmd_file_is_executable(const char * filename) {
        |            ^~~~~~~~~~~~~~~~~~~~~~
  [ 11%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_basis_options’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1422:5: warning: ‘__strncat_chk’ output may be truncated copying 1 byte from a string of length 9 [-Wstringop-truncation]
   1422 |     strncat(data->basis_string, &data->gbasis[3], 1);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1411:5: warning: ‘__strncat_chk’ output may be truncated copying 1 byte from a string of length 9 [-Wstringop-truncation]
   1411 |     strncat(data->basis_string, &data->gbasis[2], 1);
        |     ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:89:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘swap8_unaligned’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘swap4_unaligned’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:79:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fastio.h:459:19: warning: ‘fio_readv’ defined but not used [-Wunused-function]
    459 | static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) {
        |                   ^~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function ‘int mdio_readline(md_file*, char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:426:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    426 |         fgets(buf, n, mf->f);
        |         ~~~~~^~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:48:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_input_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1682:5: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 8191 [-Wstringop-truncation]
   1682 |     strncpy(atm->type, atname, sizeof(atm->type));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_contrl’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1981:3: warning: ‘strncpy’ specified bound 8192 equals destination size [-Wstringop-truncation]
   1981 |   strncpy(data->geometry, trimright(temp+7), sizeof(data->geometry));
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_proc_mem.isra.0’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1279:5: warning: ‘strncpy’ output may be truncated copying 256 bytes from a string of length 8191 [-Wstringop-truncation]
   1279 |     strncpy(data->memory,&word[2][0],sizeof(data->memory));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1272:5: warning: ‘strncpy’ specified bound 256 equals destination size [-Wstringop-truncation]
   1272 |     strncpy(data->memory,trimright(temp),sizeof(data->memory));
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In function ‘int {anonymous}::write_structure(void*, int, const molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1904:9: warning: unused variable ‘last_ctnumber’ [-Wunused-variable]
   1904 |     int last_ctnumber = -1;
        |         ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function ‘get_contrl_firefly’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1818:3: warning: ‘strncpy’ specified bound 8192 equals destination size [-Wstringop-truncation]
   1818 |   strncpy(data->geometry, trimright(temp+7), sizeof(data->geometry));
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function ‘g96_header(md_file*, char*, int, float*) [clone .constprop.0]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:650:39: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 500 [-Wstringop-truncation]
    650 |         if (title && titlelen) strncpy(title, buf, titlelen);
        |                                       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘get_traj_frame.isra.0’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:819:5: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 10 [-Wstringop-truncation]
    819 |     strncpy((*atoms)[i].type, (*atoms)[indexmap[i]].type, 10);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function ‘gro_header(md_file*, char*, int, float*, int*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1018:33: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 500 [-Wstringop-truncation]
   1018 |   if (title && titlelen) strncpy(title, buf, titlelen);
        |                                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp: In function ‘open_gro_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:103:12: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 80 [-Wstringop-truncation]
    103 |     strncpy(gmx->meta->title, mdh.title, 80);
        |            ^
  [ 12%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp
  [ 12%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:278:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    278 |     fgets(line, LINESIZE, mdf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:297:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    297 |       fgets(line, LINESIZE, mdf->file);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:319:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    319 |     fgets(line, LINESIZE, mdf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:357:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    357 |       fgets(line, LINESIZE, mdf->file);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘int read_mdf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:223:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    223 |     fgets(line, LINESIZE, mdf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:241:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    241 |       fgets(line, LINESIZE, mdf->file);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘void* open_mdf_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:164:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    164 |     fgets(line, LINESIZE, fd);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:176:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    176 |     fgets(line, LINESIZE, fd);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:183:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    183 |       fgets(line, LINESIZE, fd);
        |       ~~~~~^~~~~~~~~~~~~~~~~~~~
  [ 13%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp
  [ 13%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c
  [ 13%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp
  [ 14%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:275:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    275 |     fgets(line, LINESIZE, mol2->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:289:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    289 |     fgets(line, LINESIZE, mol2->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2_bonds_aux(void*, int*, int**, int**, float**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:199:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    199 |     fgets(line, LINESIZE, mol2->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:209:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    209 |     fgets(line, LINESIZE, mol2->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:127:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    127 |     fgets(line, LINESIZE, mol2->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:138:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    138 |     fgets(line, LINESIZE, mol2->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘void* open_mol2_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:74:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     74 |     fgets(line, LINESIZE, fd);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:81:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     81 |   fgets(line, LINESIZE, fd);  // Read and ignore the mol_name
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:82:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     82 |   fgets(line, LINESIZE, fd);  // Read the molecule info
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:91:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     91 |   fgets(line, LINESIZE, fd);  // Read and ignore the mol_type
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:92:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |   fgets(line, LINESIZE, fd);  // Read the charge_type
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘read_molden_rundata’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:596:25: warning: variable ‘hessian_data’ set but not used [-Wunused-but-set-variable]
    596 |   molfile_qm_hessian_t *hessian_data;
        |                         ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘count_orbitals’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1165:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1165 |   fscanf(data->file, " Ene= %f\n", &orbenergy);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1166:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1166 |   fscanf(data->file, " Spin= %s\n", spin);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1167:3: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1167 |   fscanf(data->file, " Occup= %f\n", &occu);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘eatline’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    840 |     fgets(readbuf, 1024, fd);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘open_molden_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:224:11: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    224 |           fscanf(data->file, "%d", &natm);
        |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1097:13: warning: ‘whereami’ defined but not used [-Wunused-function]
   1097 | static void whereami(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1077:13: warning: ‘thisline’ defined but not used [-Wunused-function]
   1077 | static void thisline(FILE *file) {
        |             ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1006:12: warning: ‘have_keyline’ defined but not used [-Wunused-function]
   1006 | static int have_keyline(FILE *file, const char *keystring1,
        |            ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:711:12: warning: ‘symmetry_expand’ defined but not used [-Wunused-function]
    711 | static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms,
        |            ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:585:13: warning: ‘print_matrix4’ defined but not used [-Wunused-function]
    585 | static void print_matrix4(const float mat[16]) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:507:13: warning: ‘del_wavefunction’ defined but not used [-Wunused-function]
    507 | static void del_wavefunction(qm_timestep_t *ts) {
        |             ^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:490:13: warning: ‘replace_wavefunction’ defined but not used [-Wunused-function]
    490 | static void replace_wavefunction(qm_timestep_t *ts, int n) {
        |             ^~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:48:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘get_pte_idx’ defined but not used [-Wunused-function]
    133 | static int get_pte_idx(const char *label)
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: ‘get_pte_vdw_radius’ defined but not used [-Wunused-function]
    109 | static float get_pte_vdw_radius(const int idx)
        |              ^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: ‘get_pte_mass’ defined but not used [-Wunused-function]
    102 | static float get_pte_mass(const int idx)
        |              ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: ‘get_pte_label’ defined but not used [-Wunused-function]
     95 | static const char *get_pte_label(const int idx)
        |                    ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:91:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     91 |     fgets(line, 80, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:116:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    116 |     fgets(line, 80, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:132:9: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    132 |    fgets(line, 80, infile);
        |    ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:149:11: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    149 |      fgets(line, 80, infile);
        |      ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:155:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    155 |               fgets(line, 80, infile);
        |               ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:161:11: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    161 |      fgets(line, 80, infile); //one more read to keep us in sync
        |      ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:170:27: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    170 |                      fgets(line, 80, infile);
        |                      ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:217:15: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    217 |          fgets(line, 80, infile);
        |          ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:237:23: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    237 |                  fgets(line, 80, infile);
        |                  ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:256:15: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    256 |          fgets(line, 80, infile);
        |          ~~~~~^~~~~~~~~~~~~~~~~~
  [ 14%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c
  [ 14%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function ‘read_next_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:103:10: warning: variable ‘numatoms’ set but not used [-Wunused-but-set-variable]
    103 |   int i, numatoms;
        |          ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function ‘open_namdbin_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:78:3: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     78 |   fread(&filen, sizeof(namdbin_int32), 1, fd);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function ‘read_molden_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:350:7: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    350 |       strncpy(atom->type, atname, sizeof(atom->type));
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:351:7: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    351 |       strncpy(atom->name, atname, sizeof(atom->name));
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:317:7: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    317 |       strncpy(atom->name, atname,     sizeof(atom->name));
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:326:7: warning: ‘strncpy’ output may be truncated copying 11 bytes from a string of length 1023 [-Wstringop-truncation]
    326 |       strncpy(data->atoms[i].type, atname, sizeof(data->atoms[i].type));
        |       ^
  [ 15%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp
  [ 15%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp: In function ‘int read_parm7_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:80:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     80 |         fgets(buf, 85, file);
        |         ~~~~~^~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_atoms(const char*, int, molfile_atom_t*, FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:204:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    204 |       fgets(buf, 85, file);
        |       ~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_atype(const char*, int, molfile_atom_t*, FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:257:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    257 |       fgets(buf, 85, file);
        |       ~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_resnames(const char*, int, char*, FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:275:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    275 |       fgets(buf, 85, file);
        |       ~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_respointers(const char*, int, molfile_atom_t*, int, const char*, FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:289:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    289 |   fscanf(file, " %d", &cur);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘parm7struct* read_parm7_header(FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:368:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    368 |   fgets(sdum, 512, file);
        |   ~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:371:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    371 |   fscanf(file, "%s\n", sdum); // "%FLAG"
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:378:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    378 |   fscanf(file, "%s\n", sdum); // "TITLE" or "CTITLE"
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:385:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    385 |   fscanf(file, "%s\n", sdum); // "FORMAT (20a4)"
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:399:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    399 |   fgets(prm->title, sizeof(prm->title), file);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:427:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    427 |     fgets(sdum, sizeof(sdum), file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:439:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    439 |   fscanf(file,parm7,
        |   ~~~~~~^~~~~~~~~~~~
    440 |          &prm->Natom,  &prm->Ntypes, &prm->Nbonh, &prm->Nbona,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    441 |          &prm->Ntheth, &prm->Ntheta, &prm->Nphih, &prm->Nphia,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    442 |          &prm->Jparm,  &prm->Nparm);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:443:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    443 |   fscanf(file, parm7,
        |   ~~~~~~^~~~~~~~~~~~~
    444 |          &prm->Nnb,   &prm->Nres,   &prm->Mbona,  &prm->Mtheta,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    445 |          &prm->Mphia, &prm->Numbnd, &prm->Numang, &prm->Mptra,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    446 |          &prm->Natyp, &prm->Nphb);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:447:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    447 |   fscanf(file, parm7,  &prm->Ifpert, &prm->Nbper,  &prm->Ngper,
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    448 |          &prm->Ndper, &prm->Mbper,  &prm->Mgper, &prm->Mdper,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    449 |          &prm->IfBox, &prm->Nmxrs,  &prm->IfCap);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:451:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    451 |   fscanf(file,"%8d",&prm->Numextra); //BB
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int read_parm7_flag(FILE*, const char*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:79:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     79 |   fscanf(file, "%s\n", buf);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:87:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     87 |   fscanf(file, "%s\n", buf);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:97:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     97 |   fscanf(file, "%s\n", buf);
        |   ~~~~~~^~~~~~~~~~~~~~~~~~~
  [ 16%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘read_parm7_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:277:12: warning: ‘__strncpy_chk’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
    277 |     strncpy(resnames, buf+4*j, 4);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:259:12: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
    259 |     strncpy(atom->type, buf+4*j, 4);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:206:12: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
    206 |     strncpy(atom->name, buf+4*j, 4);
        |            ^
  [ 16%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h: In member function ‘int {anonymous}::ReadPARM::readparm(FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:435:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    435 |           fscanf(file, " " DBLFMT, &prm->Charges[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:444:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    444 |           fscanf(file, " " DBLFMT, &prm->Masses[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:510:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    510 |           fscanf(file, " " DBLFMT, &prm->Rk[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:517:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    517 |           fscanf(file, " " DBLFMT, &prm->Req[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:524:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    524 |           fscanf(file, " " DBLFMT, &prm->Tk[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:531:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    531 |           fscanf(file, " " DBLFMT, &prm->Teq[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:538:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    538 |           fscanf(file, " " DBLFMT, &prm->Pk[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:545:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    545 |           fscanf(file, " " DBLFMT, &prm->Pn[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:552:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    552 |           fscanf(file, " " DBLFMT, &prm->Phase[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:559:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    559 |           fscanf(file, " " DBLFMT, &prm->Solty[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:567:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    567 |           fscanf(file, " " DBLFMT, &prm->Cn1[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:575:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    575 |           fscanf(file, " " DBLFMT, &prm->Cn2[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:756:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    756 |           fscanf(file, " " DBLFMT, &prm->HB12[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:763:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    763 |           fscanf(file, " " DBLFMT, &prm->HB6[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:771:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    771 |           fscanf(file, " " DBLFMT, &H[i]);
        |           ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:853:23: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    853 |                 fscanf(file, " " DBLFMT " " DBLFMT " " DBLFMT,
        |                 ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    854 |                                 &prm->Box[0], &prm->Box[1], &prm->Box[2]);
        |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:867:23: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    867 |                 fscanf(file, " %d " DBLFMT " " DBLFMT " " DBLFMT " " DBLFMT,
        |                 ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    868 |                                 &prm->Natcap, &prm->Cutcap,
        |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~
    869 |                                 &prm->Xcap, &prm->Ycap, &prm->Zcap);
        |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 16%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:32:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘get_pte_idx’ defined but not used [-Wunused-function]
    133 | static int get_pte_idx(const char *label)
        |            ^~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:31:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h: In function ‘read_next_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:119:3: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 82 [-Wstringop-truncation]
    119 |   strncpy(tmp, record, PDB_RECORD_LENGTH);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:144:5: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 52 [-Wstringop-truncation]
    144 |     strncpy(numstr, record + 30, 8);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:149:5: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 44 [-Wstringop-truncation]
    149 |     strncpy(numstr+10, record + 38, 8);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:154:5: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 36 [-Wstringop-truncation]
    154 |     strncpy(numstr+20, record + 46, 8);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:159:5: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 28 [-Wstringop-truncation]
    159 |     strncpy(numstr+30, record + 54, 6);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:164:5: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 22 [-Wstringop-truncation]
    164 |     strncpy(numstr+40, record + 60, 6);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h: In function ‘read_pdb_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:299:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 70 [-Wstringop-truncation]
    299 |   strncpy(name, record + 12, 4);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:304:3: warning: ‘strncpy’ output may be truncated copying 1 byte from a string of length 66 [-Wstringop-truncation]
    304 |   strncpy(altloc, record + 16, 1);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:308:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 65 [-Wstringop-truncation]
    308 |   strncpy(resname, record + 17, 4);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:317:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 60 [-Wstringop-truncation]
    317 |   strncpy(resid, record + 22, 4);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:159:5: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 28 [-Wstringop-truncation]
    159 |     strncpy(numstr+30, record + 54, 6);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:164:5: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 22 [-Wstringop-truncation]
    164 |     strncpy(numstr+40, record + 60, 6);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:330:5: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 10 [-Wstringop-truncation]
    330 |     strncpy(segname, record + 72, 4);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:339:5: warning: ‘strncpy’ output may be truncated copying 2 bytes from a string of length 6 [-Wstringop-truncation]
    339 |     strncpy(elementsymbol, record + 76, 2);
        |     ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h: In function ‘open_pdb_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:190:5: warning: ‘strncpy’ output may be truncated copying 9 bytes from a string of length 32 [-Wstringop-truncation]
    190 |     strncpy(date, record + 50, 9);
        |     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:200:5: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 20 [-Wstringop-truncation]
    200 |     strncpy(pdbcode, record + 62, 4);
        |     ^
  [ 17%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp
  [ 17%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp
  [ 18%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘int getUniqueResID(char*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:443:7: warning: unused variable ‘i’ [-Wunused-variable]
    443 |   int i, uid;
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘int parseStructureFaster(molfile_atom_t*, int*, pdbxParser*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:484:47: warning: unused variable ‘j’ [-Wunused-variable]
    484 |   int i, count, atomdata, pos, idx, xyzcount, j;
        |                                               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:503:8: warning: unused variable ‘oldChain’ [-Wunused-variable]
    503 |   char oldChain[8];
        |        ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘bool readAngleBonds(molfile_atom_t*, pdbxParser*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:803:7: warning: unused variable ‘bondTable’ [-Wunused-variable]
    803 |   int bondTable[32];
        |       ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:807:15: warning: unused variable ‘j’ [-Wunused-variable]
    807 |   int i, pos, j, k;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:811:8: warning: unused variable ‘modelNum’ [-Wunused-variable]
    811 |   char modelNum[8];
        |        ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:822:20: warning: unused variable ‘atom’ [-Wunused-variable]
    822 |   molfile_atom_t * atom;
        |                    ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:884:7: warning: unused variable ‘test’ [-Wunused-variable]
    884 |   int test = parser->nbonds + bnum;
        |       ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘bool readRMSDBonds(molfile_atom_t*, pdbxParser*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:984:7: warning: unused variable ‘bondTable’ [-Wunused-variable]
    984 |   int bondTable[32];
        |       ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:988:15: warning: unused variable ‘j’ [-Wunused-variable]
    988 |   int i, pos, j, k;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:991:8: warning: unused variable ‘modelNum’ [-Wunused-variable]
    991 |   char modelNum[8];
        |        ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1002:20: warning: unused variable ‘atom’ [-Wunused-variable]
   1002 |   molfile_atom_t * atom;
        |                    ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘void* open_file_write(const char*, const char*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1409:9: warning: unused variable ‘fd’ [-Wunused-variable]
   1409 |   FILE* fd;
        |         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:313:14: warning: ‘float stringToFloat(char*)’ defined but not used [-Wunused-function]
    313 | static float stringToFloat(char * str) {
        |              ^~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘int get_pte_idx(const char*)’ defined but not used [-Wunused-function]
    133 | static int get_pte_idx(const char *label)
        |            ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: ‘const char* get_pte_label(int)’ defined but not used [-Wunused-function]
     95 | static const char *get_pte_label(const int idx)
        |                    ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp: In function ‘read_phi_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp:216:14: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation]
    216 |       strncpy(currNum, currChar, 4);
        |              ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function ‘int read_plt_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:143:51: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    143 |   if ( fread(datablock, sizeof(float), ndata, fd) != ndata ) {
        |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~
  [ 18%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function ‘void* open_plt_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:69:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     69 |   fread(intHeader, sizeof(int), 5, fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:82:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     82 |   fread(floatHeader, sizeof(float), 6, fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  [ 18%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function ‘get_atom_radius’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:16: warning: variable ‘type’ set but not used [-Wunused-but-set-variable]
    166 |   char *name, *type;
        |                ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:9: warning: variable ‘name’ set but not used [-Wunused-but-set-variable]
    166 |   char *name, *type;
        |         ^~~~
  [ 19%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:103:12: warning: ‘fortread_4’ defined but not used [-Wunused-function]
    103 | static int fortread_4(void *dest, int n, int swap, FILE *fd) {
        |            ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘fort_get_endian_reclen’ defined but not used [-Wunused-function]
     55 | static int fort_get_endian_reclen(int reclen, int word0, int word1,
        |            ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘fort_eat_recmark’ defined but not used [-Wunused-function]
     36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) {
        |            ^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/fortread.h:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘swap8_aligned’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘swap8_unaligned’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘swap4_unaligned’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void put_element_ply(PlyFile*, void*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:459:7: warning: unused variable ‘i’ [-Wunused-variable]
    459 |   int i,j,k;
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function ‘read_pqr_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:109:3: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 81 [-Wstringop-truncation]
    109 |   strncpy(tmp, record, PQR_RECORD_LENGTH);
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void ascii_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1407:7: warning: unused variable ‘i’ [-Wunused-variable]
   1407 |   int i,j,k;
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void binary_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1541:7: warning: unused variable ‘i’ [-Wunused-variable]
   1541 |   int i,j,k;
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:107:17: warning: variable ‘vert_other’ set but not used [-Wunused-but-set-variable]
    107 |   PlyOtherProp *vert_other=NULL;
        |                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:108:17: warning: variable ‘face_other’ set but not used [-Wunused-but-set-variable]
    108 |   PlyOtherProp *face_other=NULL;
        |                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function ‘read_pqr_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:137:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 68 [-Wstringop-truncation]
    137 |   strncpy(name, record+12, 4);    name[4] = 0;
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:138:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 63 [-Wstringop-truncation]
    138 |   strncpy(resname, record+17, 4); resname[4] = 0;
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:139:3: warning: ‘strncpy’ output may be truncated copying 1 byte from a string of length 59 [-Wstringop-truncation]
    139 |   strncpy(chain, record+21, 1);   chain[1] = 0;
        |   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:140:3: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 58 [-Wstringop-truncation]
    140 |   strncpy(resid, record+22, 4);   resid[4] = 0;
        |   ^
  [ 19%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void binary_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1629:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1629 |       fread (&len, sizeof(int), 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1631:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   1631 |       fread (str, len, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void get_binary_item(FILE*, int, int*, unsigned int*, double*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2057:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   2057 |       fread (ptr, 1, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2063:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   2063 |       fread (ptr, 1, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2069:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   2069 |       fread (ptr, 2, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2075:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   2075 |       fread (ptr, 2, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2081:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   2081 |       fread (ptr, 4, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2087:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   2087 |       fread (ptr, 4, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2093:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   2093 |       fread (ptr, 4, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2099:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   2099 |       fread (ptr, 8, 1, fp);
        |       ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In function ‘(anonymous namespace)::read_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1786:22: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
   1786 |               strncpy( ct.particles[to].type, v->second.funct.c_str(),
        |                      ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: ‘void swap4_aligned(void*, long int)’ defined but not used [-Wunused-function]
    110 | static void swap4_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  [ 19%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In member function ‘(anonymous namespace)::SitesArray::insert_row(std::vector<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > const&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation]
    784 |         strncpy(arr, value.substr(1,value.size()-2).c_str(), N);
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation]
    786 |         strncpy(arr, value.c_str(), N);
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘recreate_command_line’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1334:11: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=]
   1334 |   line[0] = '\0';
        |   ~~~~~~~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1333:26: note: destination object of size 0 allocated by ‘malloc’
   1333 |   line = (char *) malloc (sizeof(char) * len);
        |                   ~~~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function ‘open_rst_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:48:11: warning: variable ‘timesteprst’ set but not used [-Wunused-but-set-variable]
     48 |   double  timesteprst;
        |           ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:67:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     67 |   fgets(title, 82, fd);
        |   ^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:70:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     70 |   fgets(line, 82, fd);
        |   ^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In member function ‘(anonymous namespace)::PseudoArray::insert_row(std::vector<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > const&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
    784 |         strncpy(arr, value.substr(1,value.size()-2).c_str(), N);
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
    786 |         strncpy(arr, value.c_str(), N);
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In member function ‘(anonymous namespace)::AtomArray::insert_row(std::vector<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > const&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:886:16: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation]
    886 |         strncpy( a.name,
        |                ^
  [ 20%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp
  [ 20%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘ascii_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1520:14: warning: ‘other_data’ may be used uninitialized [-Wmaybe-uninitialized]
   1520 |         item = elem_data + prop->offset;
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1423:9: note: ‘other_data’ was declared here
   1423 |   char *other_data;
        |         ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘binary_get_element(PlyFile*, char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1643:14: warning: ‘other_data’ may be used uninitialized [-Wmaybe-uninitialized]
   1643 |         item = elem_data + prop->offset;
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1555:9: note: ‘other_data’ was declared here
   1555 |   char *other_data;
        |         ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:23: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
    714 |         sprintf(sub, "%03x/", i);
        |                       ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:22: note: directive argument in the range [0, 2147483646]
    714 |         sprintf(sub, "%03x/", i);
        |                      ^~~~~~~
  In file included from /usr/include/stdio.h:970,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47:
  In function ‘sprintf’,
      inlined from ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:9:
  /usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 5 and 10 bytes into a destination of size 6
     30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     31 |                                   __glibc_objsize (__s), __fmt,
        |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     32 |                                   __va_arg_pack ());
        |                                   ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:30: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
    722 |             sprintf(subsub, "%03x", j);
        |                              ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:29: note: directive argument in the range [0, 2147483646]
    722 |             sprintf(subsub, "%03x", j);
        |                             ^~~~~~
  In function ‘sprintf’,
      inlined from ‘DDmkdir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:13:
  /usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 4 and 9 bytes into a destination of size 6
     30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     31 |                                   __glibc_objsize (__s), __fmt,
        |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     32 |                                   __va_arg_pack ());
        |                                   ~~~~~~~~~~~~~~~~~
  [ 21%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function ‘int read_spider_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    286 |   fread(datablock, total * sizeof(float), 1, fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:36:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     46 | static void swap4_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  [ 21%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:96:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     96 |     fgets(line, 80, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:104:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    104 |     fgets(line, 80, infile);
        |     ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:119:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    119 |       fgets(line, 80, infile);
        |       ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:131:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    131 |         fgets(line, 80, infile);
        |         ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:153:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    153 |       fgets(line, 80, infile);
        |       ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:162:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    162 |       fgets(line, 80, infile);
        |       ~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:171:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    171 |       fgets(line, 80, infile);
        |       ~~~~~^~~~~~~~~~~~~~~~~~
  [ 21%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c: In function ‘read_tinker_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c:103:5: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    103 |     strncpy(atom->name, buffer, sizeof(atom->name));
        |     ^
  [ 22%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c
  [ 22%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘read_vasp5xdatcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:224:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    224 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘read_vasp5xdatcar_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:174:27: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    174 |   for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file);
        |                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:180:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    180 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:189:26: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    189 |  for (i = 0; i < 3; ++i) fgets(lineptr, LINESIZE, data->file);
        |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:194:4: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    194 |    fgets(lineptr, LINESIZE, data->file);
        |    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:204:26: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    204 |  for (i = 0; i < 8; ++i) fgets(lineptr, LINESIZE, data->file);
        |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function ‘open_vasp5xdatcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:69:27: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     69 |   for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file);
        |                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:72:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     72 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:77:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     77 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘read_vaspchgcar_data’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:237:60: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    237 |   for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file);
        |                                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:282:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    282 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘read_vaspchgcar_metadata’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:150:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    150 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function ‘open_vaspchgcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:71:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     71 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:75:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     75 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:81:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     81 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:92:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:103:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    103 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:131:44: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    131 |   for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:41:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: ‘vasp_timestep_unitcell’ defined but not used [-Wunused-function]
    111 | static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
        |             ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘void* open_uhbd_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:22: warning: variable ‘o’ set but not used [-Wunused-but-set-variable]
     90 |   float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
        |                      ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:28: warning: variable ‘s’ set but not used [-Wunused-but-set-variable]
     90 |   float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
        |                            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘int read_uhbd_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:254:66: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    254 |       if (fread(datablock + z*xysize, sizeof(float), xysize, fd) != xysize) {
        |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~
  [ 22%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘void* open_uhbd_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:102:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    102 |   fread(&headersize, sizeof(int), 1, fd);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:47:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function]
    124 | static void swap8_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function]
     96 | static void swap2_aligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     65 | static void swap8_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function]
     32 | static void swap2_unaligned(void *v, long ndata) {
        |             ^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘read_vaspoutcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:239:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    239 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:242:9: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    242 |         fgets(lineptr, LINESIZE, data->file);
        |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘read_vaspoutcar_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:204:9: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    204 |         fgets(lineptr, LINESIZE, data->file);
        |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function ‘open_vaspoutcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:87:10: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     87 |          fgets(lineptr, LINESIZE, data->file);
        |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:675:35: warning: ‘__sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
    675 |             sprintf(answer, "%03x/", d1);
        |                                   ^
  In function ‘sprintf’,
      inlined from ‘DDreldir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:675:13,
      inlined from ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:779:23:
  /usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 5 and 10 bytes into a destination of size 9
     30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     31 |                                   __glibc_objsize (__s), __fmt,
        |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     32 |                                   __va_arg_pack ());
        |                                   ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:35: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size between 0 and 5 [-Wformat-overflow=]
    673 |             sprintf(answer, "%03x/%03x/", d1, d2);
        |                                   ^~~~
  In function ‘DDreldir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, int, int)’,
      inlined from ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:779:23:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:29: note: directive argument in the range [0, 2147483646]
    673 |             sprintf(answer, "%03x/%03x/", d1, d2);
        |                             ^~~~~~~~~~~~
  In function ‘sprintf’,
      inlined from ‘DDreldir(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:13,
      inlined from ‘framefile(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned long, unsigned long, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:779:23:
  /usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 9 and 19 bytes into a destination of size 9
     30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     31 |                                   __glibc_objsize (__s), __fmt,
        |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     32 |                                   __va_arg_pack ());
        |                                   ~~~~~~~~~~~~~~~~~
  [ 23%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c
  [ 23%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘read_vaspparchg_data’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:238:60: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    238 |   for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file);
        |                                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘read_vaspparchg_metadata’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:150:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    150 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function ‘open_vaspparchg_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:71:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     71 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:75:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     75 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:81:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     81 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:92:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:103:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    103 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:131:44: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    131 |   for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:41:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: ‘vasp_timestep_unitcell’ defined but not used [-Wunused-function]
    111 | static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
        |             ^~~~~~~~~~~~~~~~~~~~~~
  [ 24%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c
  [ 24%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘write_vaspposcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:360:40: warning: argument to ‘sizeof’ in ‘strncpy’ call is the same expression as the source; did you mean to use the size of the destination? [-Wsizeof-pointer-memaccess]
    360 |     strncpy(tmptype, atom->type, sizeof(atom->type));
        |                                        ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘read_vaspposcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:232:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    232 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:237:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    237 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:246:43: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    246 |   for (i = 0; i < data->version - 2; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:249:35: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    249 |   if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file);
        |                                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:256:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    256 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘read_vaspposcar_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:195:42: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    195 |  for (i = 0; i < data->version + 3; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:198:34: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    198 |  if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file);
        |                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:203:4: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    203 |    fgets(lineptr, LINESIZE, data->file);
        |    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function ‘open_vaspposcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:69:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     69 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:73:27: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     73 |   for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file);
        |                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:87:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     87 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘read_vaspxdatcar_timestep’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:283:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    283 |   fgets(lineptr, LINESIZE, data->file);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘read_vaspxdatcar_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:228:27: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    228 |   for (i = 0; i < 4; ++i) fgets(lineptr, LINESIZE, data->file);
        |                           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:233:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    233 |     fgets(lineptr, LINESIZE, data->file);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:237:32: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    237 |       for (i = 0; i < 2; ++i)  fgets(lineptr, LINESIZE, data->file);
        |                                ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:252:44: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    252 |   for (i = 0; i < 10 - data->version; ++i) fgets(lineptr, LINESIZE, data->file);
        |                                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function ‘open_vaspxdatcar_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:89:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     89 |   fgets(lineptr, LINESIZE, poscar);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:92:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |   fgets(lineptr, LINESIZE, poscar);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:97:5: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     97 |     fgets(lineptr, LINESIZE, poscar);
        |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:111:3: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    111 |   fgets(lineptr, LINESIZE, poscar);
        |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:121:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    121 |       fgets(lineptr, LINESIZE, poscar);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function ‘read_vaspxml_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:139:7: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    139 |       fgets(lineptr, LINESIZE, data->file);
        |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:144:9: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    144 |         fgets(lineptr, LINESIZE, data->file);
        |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function ‘open_vaspxml_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:86:8: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     86 |        fgets(lineptr, LINESIZE, data->file);
        |        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:92:8: warning: ignoring return value of ‘fgets’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     92 |        fgets(lineptr, LINESIZE, data->file);
        |        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:47:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At top level:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  [ 24%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c
  [ 25%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp.o
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  [ 26%] Building CXX object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:288:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    288 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:297:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    297 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_bonds_aux(void*, int*, int**, int**, float**)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:365:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    365 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:387:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    387 |   fgets(line, LINESIZE, bgf->file);
        |   ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:395:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    395 |     fgets(nextline, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:455:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    455 |         fgets(line, LINESIZE, bgf->file);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:241:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    241 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:250:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    250 |     fgets(line, LINESIZE, bgf->file);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘void* open_xbgf_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:72:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     72 |     fgets(line, LINESIZE, fd);
        |     ~~~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:276:45: warning: variable ‘total’ set but not used [-Wunused-but-set-variable]
    276 |   int x, y, z, xsize, ysize, zsize, xysize, total;
        |                                             ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:338:45: warning: variable ‘total’ set but not used [-Wunused-but-set-variable]
    338 |   int x, y, z, xsize, ysize, zsize, xysize, total;
        |                                             ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:371:15: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    371 |         fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz);
        |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data(void*, int, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:306:15: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    306 |         fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz);
        |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:72:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include/vmdconio.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include/vmdconio.h:56:12: warning: ‘int vmdcon_printf(int, const char*, ...)’ defined but not used [-Wunused-function]
     56 | static int vmdcon_printf(int lvl, const char *fmt, ...) {
        |            ^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function ‘vtf_read_bonds’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:147:48: warning: ‘%s’ directive argument is null [-Wformat-overflow=]
    147 |   sprintf(message, "vtfplugin:%d: error: %s: \"%s\"\n",
        |                                                ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘open_vtk_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:152:10: warning: ‘strncpy’ output may be truncated copying 256 bytes from a string of length 2039 [-Wstringop-truncation]
    152 |   strncpy(vtk->title, inbuf, sizeof(vtk->title) - 1);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘void eatline(FILE*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:238:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    238 |   fgets(readbuf, 1024, fd);    // go on to next line
        |   ~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘void* open_xsf_read(const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:408:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    408 |         fgets(readbuf, 256, xsf->fd);
        |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:442:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    442 |               fgets(readbuf, 256, xsf->fd);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:444:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    444 |               fgets(readbuf, 256, xsf->fd);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:446:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    446 |               fgets(readbuf, 256, xsf->fd);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:448:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    448 |               fgets(readbuf, 256, xsf->fd);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:450:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    450 |               fgets(readbuf, 256, xsf->fd);
        |               ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:473:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    473 |                 fgets(readbuf, 256, xsf->fd);
        |                 ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:508:16: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
    508 |           fgets(readbuf, 256, xsf->fd);
        |           ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:37:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘int get_pte_idx_from_string(const char*)’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function ‘vtf_open_file_read’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:538:9: warning: ‘__strncat_chk’ output may be truncated copying 200 bytes from a string of length 254 [-Wstringop-truncation]
    538 |         strncat(msg, keyword, 200);
        |         ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:629:7: warning: ‘__strncat_chk’ output may be truncated copying 200 bytes from a string of length 254 [-Wstringop-truncation]
    629 |       strncat(msg, keyword, 200);
        |       ^
  [ 26%] Building C object CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c.o
  /usr/bin/gcc -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c.o -MF CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c.o.d -o CMakeFiles/_cmd.dir/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:57:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function]
    160 | static int get_pte_idx_from_string(const char *label) {
        |            ^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c: In function ‘read_xyz_structure’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:133:7: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    133 |       strncpy(atom->name, buffer, sizeof(atom->name));
        |       ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘read_xsf_structure(void*, int*, molfile_atom_t*)’:
  [ 26%] Building CXX object CMakeFiles/_cmd.dir/layer0/Bezier.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Bezier.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Bezier.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Bezier.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Bezier.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:597:20: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation]
    597 |             strncpy(atom->name, buffer, sizeof(atom->name));
        |                    ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘read_xbgf_timestep(void*, int, molfile_timestep_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:143:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 223 [-Wstringop-truncation]
    143 |     strncpy(numstr, record + 32, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:148:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 213 [-Wstringop-truncation]
    148 |     strncpy(numstr+10, record + 42, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:153:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 203 [-Wstringop-truncation]
    153 |     strncpy(numstr+20, record + 52, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:143:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 223 [-Wstringop-truncation]
    143 |     strncpy(numstr, record + 32, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:148:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 213 [-Wstringop-truncation]
    148 |     strncpy(numstr+10, record + 42, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:153:12: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 203 [-Wstringop-truncation]
    153 |     strncpy(numstr+20, record + 52, 10);
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘open_xsf_read(char const*, char const*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:438:22: warning: ‘strncpy’ output may be truncated copying 255 bytes from a string of length 255 [-Wstringop-truncation]
    438 |               strncpy(set->dataname, readbuf, 255);
        |                      ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:172:10: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 241 [-Wstringop-truncation]
    172 |   strncpy(name, record + 14, 5);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:177:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 235 [-Wstringop-truncation]
    177 |   strncpy(resname, record + 20, 4);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:182:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 154 [-Wstringop-truncation]
    182 |   strncpy(segname, record + 101, 4);
        |          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:197:10: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 192 [-Wstringop-truncation]
    197 |   strncpy(type, record+63, 5);
        |          ^
  [ 27%] Building CXX object CMakeFiles/_cmd.dir/layer0/Block.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Block.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Block.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Block.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Block.cpp
  [ 27%] Building CXX object CMakeFiles/_cmd.dir/layer0/CarveHelper.cpp.o
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  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.cpp:8:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.h: In constructor ‘CarveHelper::CarveHelper(PyMOLGlobals*, float, const float*, std::size_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.h:23:9: warning: ‘CarveHelper::m_cutoff’ will be initialized after [-Wreorder]
     23 |   float m_cutoff;
        |         ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.h:22:16: warning:   ‘const float* CarveHelper::m_vertices’ [-Wreorder]
     22 |   const float* m_vertices;
        |                ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/CarveHelper.cpp:20:1: warning:   when initialized here [-Wreorder]
     20 | CarveHelper::CarveHelper(PyMOLGlobals* G, float cutoff, const float* vertices,
        | ^~~~~~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Field.cpp:83:1: warning: label ‘ok_except1’ defined but not used [-Wunused-label]
     83 | ok_except1:
        | ^~~~~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Field.cpp:179:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
    179 |   ok = ok && I->size() == size;
        |              ~~~~~~~~~~^~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp: In destructor ‘virtual GenericBuffer::~GenericBuffer()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp:208:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<BufferDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    208 |   for (auto i = 0; i < m_desc.size(); ++i) {
        |                    ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp: In member function ‘bool GenericBuffer::sepBufferData()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp:275:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<BufferDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    275 |   for (auto i = 0; i < m_desc.size(); ++i) {
        |                    ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp: In member function ‘void VertexBuffer::bind(GLuint, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/GenericBuffer.cpp:427:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<BufferDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    427 |     for (auto i = 0; i < m_desc.size(); ++i) {
        |                      ~~^~~~~~~~~~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.cpp: In function ‘void* VLADeleteRaw(void*, int, unsigned int)’:
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    218 |       if(index < -old_size)
        |          ~~~~~~^~~~~~~~~~~
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    230 |        (index < vla->size) && ((count + index) <= vla->size)) {
        |         ~~~~~~^~~~~~~~~~~
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    251 |       if(index < -old_size)
        |          ~~~~~~^~~~~~~~~~~
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    258 |     if(index > old_size)
        |        ~~~~~~^~~~~~~~~~
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        |                                        ~~~~~~^~~~~~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryUsage.cpp: In function ‘size_t pymol::memory_usage()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryUsage.cpp:38:21: warning: use of assignment suppression and length modifier together in gnu_scanf format [-Wformat=]
     38 |     std::fscanf(fp, "%*zu%zu", &vmRSS);
        |                     ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryUsage.cpp:38:16: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
     38 |     std::fscanf(fp, "%*zu%zu", &vmRSS);
        |     ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp: In function ‘int MyPNGWrite(pymol::zstring_view, const pymol::Image&, float, int, int, float, float, png_outbuf_t*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp:300:20: warning: comparison of integer expressions of different signedness: ‘png_uint_32’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
    300 |       for(k = 0; k < height; k++)
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp:341:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
    341 |           for(b = 0; b < height; b++) {
        |                      ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MyPNG.cpp:342:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
    342 |             for(a = 0; a < width; a++) {
        |                        ~~^~~~~~~
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Sphere.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Sphere.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Sphere.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Sphere.cpp
  [ 37%] Building CXX object CMakeFiles/_cmd.dir/layer0/TTT.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/TTT.cpp.o -MF CMakeFiles/_cmd.dir/layer0/TTT.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/TTT.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TTT.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.cpp:21:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderPrg.cpp:20:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 37%] Building CXX object CMakeFiles/_cmd.dir/layer0/Tetsurf.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Tetsurf.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Tetsurf.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Tetsurf.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Tetsurf.cpp
  [ 37%] Building CXX object CMakeFiles/_cmd.dir/layer0/Texture.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Texture.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Texture.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Texture.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Texture.cpp
  [ 38%] Building CXX object CMakeFiles/_cmd.dir/layer0/Tracker.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Tracker.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Tracker.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Tracker.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Tracker.cpp
  [ 38%] Building CXX object CMakeFiles/_cmd.dir/layer0/Triangle.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Triangle.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Triangle.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Triangle.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Triangle.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Texture.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 39%] Building CXX object CMakeFiles/_cmd.dir/layer0/Util.cpp.o
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Texture.cpp: In function ‘bool TextureIsCharTextured(PyMOLGlobals*, int, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Texture.cpp:130:9: warning: unused variable ‘use_shader’ [-Wunused-variable]
    130 |   short use_shader = (short) SettingGetGlobal_b(G, cSetting_use_shaders);
        |         ^~~~~~~~~~
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/Word.cpp.o -MF CMakeFiles/_cmd.dir/layer0/Word.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/Word.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Word.cpp
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  [ 40%] Building CXX object CMakeFiles/_cmd.dir/layer0/marching_cubes.cpp.o
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp: In function ‘mc::Mesh mc::march(const Field&, float, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp:517:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare]
    517 |   for (int z = 0; z < zDim; ++z) {
        |                   ~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp:550:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare]
    550 |   for (int z = 0; z < zEnd; ++z) {
        |                   ~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp:603:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
    603 |           if (z == zEnd - 1) {
        |               ~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp:608:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
    608 |         if (z == zEnd - 1) {
        |             ~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp: In function ‘void mc::calculateNormals(Mesh&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp:681:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    681 |   for (int i = 0; i < vertexCount; ++i) {
        |                   ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp:686:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    686 |   for (int i = 0; i < triangleCount; ++i) {
        |                   ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/marching_cubes.cpp:720:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    720 |   for (int i = 0; i < vertexCount; ++i) {
        |                   ~~^~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:49,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ccealignmodule.cpp:39:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array2d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, Array2D<T>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array2d_utils.h:62:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
     62 |     for (int i=0; i<M; i++)
        |     ^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array2d_utils.h:68:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
     68 |         A = B;
        |         ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:50:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array3d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, Array3D<T>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array3d_utils.h:47:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
     47 |     for (int i=0; i<M; i++)
        |     ^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array3d_utils.h:52:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
     52 |         A = B;
        |         ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:56:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_fortran_array2d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, Fortran_Array2D<T>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_fortran_array2d_utils.h:61:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
     61 |     for (int i=1; i<=M; i++)
        |     ^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_fortran_array2d_utils.h:67:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
     67 |         A = B;
        |         ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:57:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_fortran_array3d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, Fortran_Array3D<T>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_fortran_array3d_utils.h:65:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
     65 |     for (int i=1; i<=M; i++)
        |     ^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_fortran_array3d_utils.h:70:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
     70 |         A = B;
        |         ^
  [ 41%] Building CXX object CMakeFiles/_cmd.dir/layer0/os_gl.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer0/os_gl.cpp.o -MF CMakeFiles/_cmd.dir/layer0/os_gl.cpp.o.d -o CMakeFiles/_cmd.dir/layer0/os_gl.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_gl.cpp
  [ 41%] Building CXX object CMakeFiles/_cmd.dir/layer1/Basis.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Basis.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Basis.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Basis.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Basis.cpp
  [ 42%] Building CXX object CMakeFiles/_cmd.dir/layer1/ButMode.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/ButMode.cpp.o -MF CMakeFiles/_cmd.dir/layer1/ButMode.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/ButMode.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp
  [ 42%] Building CXX object CMakeFiles/_cmd.dir/layer1/CGO.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/CGO.cpp.o -MF CMakeFiles/_cmd.dir/layer1/CGO.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/CGO.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp
  [ 42%] Building CXX object CMakeFiles/_cmd.dir/layer1/CGOGL.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/CGOGL.cpp.o -MF CMakeFiles/_cmd.dir/layer1/CGOGL.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/CGOGL.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGOGL.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp:22:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp: In function ‘void ButModeFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CButMode’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ButMode.cpp:144:3: note: in expansion of macro ‘DeleteP’
    144 |   DeleteP(G->ButMode);
        |   ^~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:40:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp: In function ‘void CheckAttributesForUsage(const CGO*, AttribDataDesc&, AttribDataDesc&, CGO*, bool&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:8819:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   8819 |     for (auto idx = 0; idx < attrIdx; ++idx) {
        |                        ~~~~^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp: In function ‘void PopulateOpsIntoStructuresForConversion(std::map<int, int>&, std::map<int, std::map<int, AttribOp*> >&, AttribDataDesc&, AttribDataDesc&, int&, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:8904:37: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   8904 |           if (attrOp->incr_vertices != vertsperpickinfo) {
        |               ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp: In function ‘CGO* CGOConvertToShader(const CGO*, AttribDataDesc&, AttribDataDesc&, int, buffer_layout, bool, int*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:9236:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<AttribDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9236 |             for (auto idx = 0; idx < attrData.size(); ++idx) {
        |                                ~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:9251:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<AttribDesc>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9251 |             for (auto idx = 0; idx < attrData.size(); ++idx) {
        |                                ~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGO.cpp:9262:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   9262 |           for (int nxt = 0; nxt < attribOp->incr_vertices; ++nxt) {
        |                             ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt.h:45:
  In member function ‘TNT::Array1D<double>::set_(double*, double*, double const&)’,
      inlined from ‘TNT::Array1D<double>::Array1D(int, double const&)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array1d.h:119:6,
      inlined from ‘findBest(cePoint*, cePoint*, afp**, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ccealignmodule.cpp:506:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array1d.h:283:20: warning: ‘memset’ specified bound between 18446744056529682432 and 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]
    283 |                 *p = a;
        |                 ~~~^~~
  [ 43%] Building CXX object CMakeFiles/_cmd.dir/layer1/CGORenderer.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/CGORenderer.cpp.o -MF CMakeFiles/_cmd.dir/layer1/CGORenderer.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/CGORenderer.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGORenderer.cpp
  [ 43%] Building CXX object CMakeFiles/_cmd.dir/layer1/COLLADA.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/COLLADA.cpp.o -MF CMakeFiles/_cmd.dir/layer1/COLLADA.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/COLLADA.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/COLLADA.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/CGOGL.cpp:9:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 44%] Building CXX object CMakeFiles/_cmd.dir/layer1/Camera.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Camera.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Camera.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Camera.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Camera.cpp
  [ 44%] Building CXX object CMakeFiles/_cmd.dir/layer1/Character.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Character.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Character.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Character.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Character.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/COLLADA.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 44%] Building CXX object CMakeFiles/_cmd.dir/layer1/Color.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Color.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Color.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Color.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp
  [ 45%] Building CXX object CMakeFiles/_cmd.dir/layer1/Control.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Control.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Control.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Control.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Control.cpp
  [ 45%] Building CXX object CMakeFiles/_cmd.dir/layer1/Extrude.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Extrude.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Extrude.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Extrude.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp
  [ 45%] Building CXX object CMakeFiles/_cmd.dir/layer1/Font.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Font.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Font.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Font.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Font.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 46%] Building CXX object CMakeFiles/_cmd.dir/layer1/FontGLUT.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontGLUT.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontGLUT.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontGLUT.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUT.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘ObjectGadgetRamp* ColorGetRamp(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:178:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    178 |     if (index < I->Ext.size()) {
        |         ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorExtFromPyList(PyMOLGlobals*, PyObject*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:499:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    499 |   for (int a = 0; a < n_ext; ++a) {
        |                   ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:516:15: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    516 |     if (a_new == I->Ext.size()) {
        |         ~~~~~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorFromPyList(PyMOLGlobals*, PyObject*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:567:44: warning: comparison of integer expressions of different signedness: ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    567 |     if (partial_restore && I->Color.size() > index) {
        |                            ~~~~~~~~~~~~~~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:573:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    573 |     if (index >= I->Color.size()) {
        |         ~~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorGetIndex(PyMOLGlobals*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:681:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    681 |       if((i < I->Color.size()) && (i >= 0))
        |           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘const char* ColorGetName(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:762:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    762 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:774:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    774 |     if (a < I->Ext.size()) {
        |         ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorGetStatus(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:790:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    790 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘void ColorUpdateFromLut(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1693:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1693 |   for(i = 0; i < I->Color.size(); i++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1697:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1697 |     if(index < I->Color.size()) {
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘const float* ColorGet(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1806:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1806 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘const float* ColorGetRaw(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1833:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1833 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In function ‘int ColorGetEncoded(PyMOLGlobals*, int, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:1851:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1851 |   if((index >= 0) && (index < I->Color.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  [ 46%] Building CXX object CMakeFiles/_cmd.dir/layer1/FontGLUT8x13.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontGLUT8x13.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontGLUT8x13.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontGLUT8x13.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUT8x13.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitiveName(PyMOLGlobals*, const Sequence&, const char*) [with Sequence = std::vector<ExtRec>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:302:35:   required from here
    302 |   return findByCaseInsensitiveName(G, G->Color->Ext, name);
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:243:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    243 |   for (int a = 0; a < seq.size(); ++a) {
        |                   ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitiveName(PyMOLGlobals*, const Sequence&, const char*) [with Sequence = std::vector<ColorRec>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:624:38:   required from here
    624 |     color = findByCaseInsensitiveName(G, I->Color, name);
        |             ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:243:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    243 |   for (int a = 0; a < seq.size(); ++a) {
        |                   ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitivePrefix(PyMOLGlobals*, const Sequence&, const char*, int&) [with Sequence = std::vector<ColorRec>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:739:42:   required from here
    739 |   int color = findByCaseInsensitivePrefix(G, I->Color, name, best);
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:273:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ColorRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    273 |   for (int a = 0; a < seq.size(); ++a) {
        |                   ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitivePrefix(PyMOLGlobals*, const Sequence&, const char*, int&) [with Sequence = std::vector<ExtRec>]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:741:54:   required from here
    741 |     int const ext_color = findByCaseInsensitivePrefix(G, I->Ext, name, best);
        |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Color.cpp:273:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ExtRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    273 |   for (int a = 0; a < seq.size(); ++a) {
        |                   ~~^~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Control.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 47%] Building CXX object CMakeFiles/_cmd.dir/layer1/FontGLUT9x15.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontGLUT9x15.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontGLUT9x15.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontGLUT9x15.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUT9x15.cpp
  [ 47%] Building CXX object CMakeFiles/_cmd.dir/layer1/FontGLUTHel10.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontGLUTHel10.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontGLUTHel10.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontGLUTHel10.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUTHel10.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:22:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Control.cpp: In function ‘void ControlFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CControl’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Control.cpp:410:3: note: in expansion of macro ‘DeleteP’
    410 |   DeleteP(G->Control);
        |   ^~~~~~~
  [ 47%] Building CXX object CMakeFiles/_cmd.dir/layer1/FontGLUTHel12.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontGLUTHel12.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontGLUTHel12.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontGLUTHel12.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUTHel12.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUT.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 48%] Building CXX object CMakeFiles/_cmd.dir/layer1/FontGLUTHel18.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontGLUTHel18.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontGLUTHel18.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontGLUTHel18.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontGLUTHel18.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp: In function ‘ExtrudeComputeTangents(CExtrude*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp:742:13: warning: ‘MEM <vector(2) float> [(float *)_62]’ may be used uninitialized [-Wmaybe-uninitialized]
    742 |   *(v1++) = *(v++);             /* first segment */
        |             ^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp:744:13: warning: ‘MEM[(float *)_62 + 8B]’ may be used uninitialized [-Wmaybe-uninitialized]
    744 |   *(v1++) = *(v++);
        |             ^~~~~~
  [ 48%] Building CXX object CMakeFiles/_cmd.dir/layer1/FontType.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/FontType.cpp.o -MF CMakeFiles/_cmd.dir/layer1/FontType.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/FontType.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontType.cpp
  [ 49%] Building CXX object CMakeFiles/_cmd.dir/layer1/ImageUtils.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/ImageUtils.cpp.o -MF CMakeFiles/_cmd.dir/layer1/ImageUtils.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/ImageUtils.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ImageUtils.cpp
  [ 49%] Building CXX object CMakeFiles/_cmd.dir/layer1/Movie.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Movie.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Movie.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Movie.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Movie.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp: In function ‘ExtrudeCGOSurfaceTube(CExtrude const*, CGO*, cCylCap, float const*, bool, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp:949:46: warning: ‘stop’ may be used uninitialized [-Wmaybe-uninitialized]
    949 |             if(color_override && (b > start) && (b < stop))
        |                ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Extrude.cpp:876:14: note: ‘stop’ was declared here
    876 |   int start, stop;
        |              ^~~~
  [ 49%] Building CXX object CMakeFiles/_cmd.dir/layer1/Ortho.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Ortho.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Ortho.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Ortho.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ImageUtils.cpp: In function ‘pymol::Result<pymol::Image> PyMOLImageComposite(PyMOLGlobals*, const pymol::Image&, const pymol::Image&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ImageUtils.cpp:54:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
     54 |   for (int i = 0; i < image.getSizeInBytes() / image.getPixelSize(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/FontType.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Movie.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 50%] Building CXX object CMakeFiles/_cmd.dir/layer1/P.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/P.cpp.o -MF CMakeFiles/_cmd.dir/layer1/P.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/P.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp: In function ‘void OrthoAddOutput(PyMOLGlobals*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1099:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
   1099 |       if (cc >= OrthoLineLength - 6) { /* fail safe */
        |           ~~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp: In function ‘std::unique_ptr<pymol::Image> makeBgGridImage(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1321:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   1321 |   for (unsigned j = 0; j != tmpImg->getHeight(); ++j) {
        |                        ~~^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1322:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   1322 |     for (unsigned i = 0; i != tmpImg->getWidth(); ++i, q += 4) {
        |                          ~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp: In function ‘void OrthoDoDraw(PyMOLGlobals*, const OrthoDrawInfo&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1873:8: warning: variable ‘double_pump’ set but not used [-Wunused-but-set-variable]
   1873 |   auto double_pump = SettingGet<bool>(G, cSetting_stereo_double_pump_mono);
        |        ^~~~~~~~~~~
  [ 50%] Building CXX object CMakeFiles/_cmd.dir/layer1/PConv.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/PConv.cpp.o -MF CMakeFiles/_cmd.dir/layer1/PConv.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/PConv.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:1783:13: warning: ‘void OrthoDrawFontTextureDebug(PyMOLGlobals*, CGO*)’ defined but not used [-Wunused-function]
   1783 | static void OrthoDrawFontTextureDebug(PyMOLGlobals* G, CGO* orthoCGO)
        |             ^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:775:13: warning: ‘void OrthoKeyCmmd(PyMOLGlobals*, unsigned char)’ defined but not used [-Wunused-function]
    775 | static void OrthoKeyCmmd(PyMOLGlobals* G, unsigned char k)
        |             ^~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:59:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: In function ‘int WrapperObjectAssignSubScript(PyObject*, PyObject*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:873:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
    873 |       if (strlen(valstr) > ap->maxlen) {
        |           ~~~~~~~~~~~~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:897:18: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare]
    897 |       if (valint == -1 && PyErr_Occurred())
        |           ~~~~~~~^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: In function ‘int PAutoBlock(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:2337:27: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘long unsigned int’ [-Wsign-compare]
   2337 |     if (SavedThread[a].id == id) {
        |         ~~~~~~~~~~~~~~~~~~^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: In function ‘int PIsGlutThread()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:2363:39: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare]
   2363 |   return (PyThread_get_thread_ident() == P_glut_thread_id);
        |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:2471:13: warning: ‘void PLockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function]
   2471 | static void PLockAPIWhileBlocked(PyMOLGlobals * G)
        |             ^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:2460:13: warning: ‘void PUnlockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function]
   2460 | static void PUnlockAPIWhileBlocked(PyMOLGlobals * G)
        |             ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp: In function ‘int PConvPyListToBitmask(PyObject*, int*, ov_size)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp:83:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
     83 |   for(int i = 0; i < ll; i++)
        |                  ~~^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp: In function ‘PyObject* PConvLabPosVecToPyList(const std::vector<LabPosType>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.cpp:1194:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<LabPosType>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1194 |     for (int a = 0; a < vec.size(); a++) {
        |                     ~~^~~~~~~~~~~~
  In file included from /usr/include/string.h:548,
                   from /usr/include/python3.13/Python.h:39,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:24:
  In function ‘strcat’,
      inlined from ‘OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:340:13:
  /usr/include/bits/string_fortified.h:140:33: warning: ‘__strcat_chk’ accessing 4611686018427387981 or more bytes at offsets [76, 261196] and [-4611686018427387904, 4611686018427387903] may overlap 1 byte at offset [76, 9223372036854775807] [-Wrestrict]
    140 |   return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest));
        |          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In function ‘strcat’,
      inlined from ‘OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ortho.cpp:357:13:
  /usr/include/bits/string_fortified.h:140:33: warning: ‘__strcat_chk’ accessing 4611686018427387981 or more bytes at offsets [76, 261196] and [-4611686018427387904, 4611686018427387903] may overlap 1 byte at offset [76, 9223372036854775807] [-Wrestrict]
    140 |   return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest));
        |          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp: In function ‘PLabelAtomAlt(PyMOLGlobals*, AtomInfoType*, char const*, char const*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.cpp:323:12: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation]
    323 |     strncpy(label, origexpr, OrthoLineLength);
        |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 50%] Building CXX object CMakeFiles/_cmd.dir/layer1/Picking.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Picking.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Picking.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Picking.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Picking.cpp
  [ 51%] Building CXX object CMakeFiles/_cmd.dir/layer1/Pop.cpp.o
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  [ 51%] Building CXX object CMakeFiles/_cmd.dir/layer1/PyMOLObject.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/PyMOLObject.cpp.o -MF CMakeFiles/_cmd.dir/layer1/PyMOLObject.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/PyMOLObject.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp
  [ 52%] Building CXX object CMakeFiles/_cmd.dir/layer1/Ray.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Ray.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Ray.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Ray.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Pop.cpp:22:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Pop.cpp: In function ‘void PopFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CPop’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Pop.cpp:54:3: note: in expansion of macro ‘DeleteP’
     54 |   DeleteP(G->Pop);
        |   ^~~~~~~
  [ 52%] Building CXX object CMakeFiles/_cmd.dir/layer1/Rep.cpp.o
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Scene.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Scene.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Scene.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp
  [ 53%] Building CXX object CMakeFiles/_cmd.dir/layer1/SceneMouse.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SceneMouse.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SceneMouse.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SceneMouse.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp: In function ‘int ObjectMotion(pymol::CObject*, MViewAction, int, int, float, float, int, float, int, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp:193:15: warning: ignoring return value of ‘constexpr const _Tp& std::max(const _Tp&, const _Tp&) [with _Tp = int]’, declared with attribute ‘nodiscard’ [-Wunused-result]
    193 |       std::max(0, first);
        |       ~~~~~~~~^~~~~~~~~~
  In file included from /usr/include/c++/15/bits/stl_uninitialized.h:63,
                   from /usr/include/c++/15/memory:71,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:23,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.cpp:17:
  /usr/include/c++/15/bits/stl_algobase.h:258:5: note: declared here
    258 |     max(const _Tp& __a, const _Tp& __b)
        |     ^~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp: In function ‘void RayRender(CRay*, unsigned int*, double, float, int, unsigned int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6070:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6070 |       if(x_stop > width)
        |          ~~~~~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6072:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6072 |       if(y_stop > height)
        |          ~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6153:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6153 |       for(y = 0; y < height; y++)
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6154:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6154 |         for(x = 0; x < width; x++) {
        |                    ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6165:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6165 |           if(x < (width - 1)) {
        |              ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6176:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6176 |           if(y < (height - 1)) {
        |              ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6237:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6237 |             for(y = 0; y < height; y++)
        |                        ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6238:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6238 |               for(x = 0; x < width; x++) {
        |                          ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6248:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6248 |                   if(x < (width - 1)) {
        |                      ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6260:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6260 |                   if(y < (height - 1)) {
        |                      ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6311:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6311 |           for(y = 0; y < height; y++){
        |                      ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6331:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6331 |             for(x = 0; x < width; x++) {
        |                        ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6350:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6350 |                   if(x < (width - 1)) {
        |                      ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6364:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6364 |                   if(y < (height - 1)) {
        |                      ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6378:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6378 |                   if(x && (y < (height - 1))) {
        |                            ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6385:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6385 |                   if(y && (x < (width - 1))) {
        |                            ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6392:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6392 |                   if((y < (height - 1)) && (x < (width - 1))) {
        |                       ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6392:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6392 |                   if((y < (height - 1)) && (x < (width - 1))) {
        |                                             ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6548:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6548 |       for(y = 0; y < height; y++) {
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:6549:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
   6549 |         for(x = 0; x < width; x++) {
        |                    ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp: In function ‘int SceneViewEqual(float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp:134:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const std::size_t’ {aka ‘const long unsigned int’} [-Wsign-compare]
    134 |   for(i = 0; i < cSceneViewSize; i++) {
        |              ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp: In function ‘void SceneFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.cpp:4166:3: warning: deleting object of polymorphic class type ‘CScene’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
   4166 |   delete G->Scene;
        |   ^~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Rep.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp:4:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 53%] Building CXX object CMakeFiles/_cmd.dir/layer1/ScenePicking.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/ScenePicking.cpp.o -MF CMakeFiles/_cmd.dir/layer1/ScenePicking.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/ScenePicking.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp: In function ‘void SceneClickPickBond(PyMOLGlobals*, int, int, int, const NamedPicking&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp:513:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare]
    513 |     if (atIndex == LastPicked.src.index)
        |         ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  [ 54%] Building CXX object CMakeFiles/_cmd.dir/layer1/SceneRay.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SceneRay.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SceneRay.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SceneRay.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRay.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp: In function ‘RayTraceThread(_CRayThreadInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:3608:39: warning: ‘hl’ may be used uninitialized [-Wmaybe-uninitialized]
   3608 |           compute_background_for_pixel(bkrd_uc, isOutsideInY,
        |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
   3609 |               bg_image_mode, bg_image_tilesize, bg_rgb, bg_image_linear,
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   3610 |               (unsigned char*) T->bkrd_data, T->bgWidth, T->bgHeight,
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   3611 |               x, wr, hl, hpixelx, orig_opaque_back );
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Ray.cpp:3269:9: note: ‘hl’ was declared here
   3269 |   float hl;
        |         ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:4:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp: In function ‘void PickColorConverterSetRgbaBitsFromGL(PyMOLGlobals*, PickColorConverter&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:67:26: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
     67 |   if (currentFrameBuffer != G->ShaderMgr->defaultBackbuffer.framebuffer) {
        |       ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:80:26: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
     80 |   if (currentFrameBuffer != G->ShaderMgr->defaultBackbuffer.framebuffer) {
        |       ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp: In function ‘SceneClickTransformObject(PyMOLGlobals*, pymol::CObject*, NamedPicking const&, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp:455:32: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 237 [-Wformat-truncation=]
    455 |           " You clicked %s -> (%s)\n", buffer.c_str(), name ENDFB(G);
        |                                ^~                      ~~~~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/c++/15/cstdio:47,
                   from /usr/include/c++/15/ext/string_conversions.h:47,
                   from /usr/include/c++/15/bits/basic_string.h:4230,
                   from /usr/include/c++/15/string:56,
                   from /usr/include/c++/15/bits/locale_classes.h:42,
                   from /usr/include/c++/15/bits/ios_base.h:43,
                   from /usr/include/c++/15/ios:46,
                   from /usr/include/c++/15/bits/ostream.h:43,
                   from /usr/include/c++/15/ostream:42,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/pymol/zstring_view.h:12,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.h:4,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp:1:
  In function ‘snprintf’,
      inlined from ‘SceneClickTransformObject(PyMOLGlobals*, pymol::CObject*, NamedPicking const&, int, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneMouse.cpp:454:11:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output 21 or more bytes (assuming 276) into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  In function ‘SceneRenderPickingMultiPick(PyMOLGlobals*, SceneUnitContext*, Multipick*, unsigned int)’,
      inlined from ‘SceneRenderPicking(PyMOLGlobals*, int, ClickSide, int, Picking*, int, int, Multipick*, SceneUnitContext*, unsigned int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:323:32:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:257:7: warning: ‘previous.src.index’ may be used uninitialized [-Wmaybe-uninitialized]
    257 |       if (pik->src.index != previous.src.index ||
        |       ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp: In function ‘SceneRenderPicking(PyMOLGlobals*, int, ClickSide, int, Picking*, int, int, Multipick*, SceneUnitContext*, unsigned int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScenePicking.cpp:246:11: note: ‘previous.src.index’ was declared here
    246 |   Picking previous;
        |           ^~~~~~~~
  [ 54%] Building CXX object CMakeFiles/_cmd.dir/layer1/SceneRender.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SceneRender.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SceneRender.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SceneRender.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRay.cpp:2:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 54%] Building CXX object CMakeFiles/_cmd.dir/layer1/SceneView.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SceneView.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SceneView.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SceneView.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneView.cpp
  [ 55%] Building CXX object CMakeFiles/_cmd.dir/layer1/ScrollBar.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/ScrollBar.cpp.o -MF CMakeFiles/_cmd.dir/layer1/ScrollBar.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/ScrollBar.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/ScrollBar.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:11:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp: In function ‘void DoRendering(PyMOLGlobals*, CScene*, GridInfo*, int, int, float*, SceneUnitContext*, float, bool, bool, SceneRenderWhich, SceneRenderOrder)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:946:32: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
    946 |     if (currentDrawFramebuffer == G->ShaderMgr->defaultBackbuffer.framebuffer) {
        |         ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:979:36: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
    979 |         if (currentDrawFramebuffer == G->ShaderMgr->defaultBackbuffer.framebuffer) {
        |             ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:1106:36: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
   1106 |         if (currentDrawFramebuffer ==
        |             ~~~~~~~~~~~~~~~~~~~~~~~^~
   1107 |             G->ShaderMgr
        |             ~~~~~~~~~~~~
   1108 |                 ->defaultBackbuffer.framebuffer) { // if rendering to screen, need to
        |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:1130:37: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
   1130 |         if ((currentDrawFramebuffer == G->ShaderMgr->defaultBackbuffer.framebuffer) &&
        |              ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp: In function ‘void SceneInitializeViewport(PyMOLGlobals*, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SceneRender.cpp:1657:30: warning: comparison of integer expressions of different signedness: ‘GLint’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
   1657 |       if (currentFrameBuffer ==
        |           ~~~~~~~~~~~~~~~~~~~^~
   1658 |           G->ShaderMgr->defaultBackbuffer.framebuffer) { // if writing to screen, then
        |           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 55%] Building CXX object CMakeFiles/_cmd.dir/layer1/Seq.cpp.o
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  [ 56%] Building CXX object CMakeFiles/_cmd.dir/layer1/Shaker.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Shaker.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Shaker.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Shaker.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Shaker.cpp
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SymOp.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SymOp.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SymOp.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp: In member function ‘pymol::SymOp::to_string[abi:cxx11]() const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp:37:32: warning: ‘%d’ directive output may be truncated writing between 1 and 4 bytes into a region of size between 0 and 5 [-Wformat-truncation=]
     37 |   std::snprintf(code, 8, "%u_%d%d%d", index + 1, x + 5, y + 5, z + 5);
        |                                ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp:37:26: note: directive argument in the range [-123, 132]
     37 |   std::snprintf(code, 8, "%u_%d%d%d", index + 1, x + 5, y + 5, z + 5);
        |                          ^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp:37:26: note: directive argument in the range [-123, 132]
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/c++/15/cstdio:47,
                   from /usr/include/c++/15/ext/string_conversions.h:47,
                   from /usr/include/c++/15/bits/basic_string.h:4230,
                   from /usr/include/c++/15/string:56,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.h:9,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp:7:
  In function ‘snprintf’,
      inlined from ‘pymol::SymOp::to_string[abi:cxx11]() const’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOp.cpp:37:16:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 6 and 17 bytes into a destination of size 8
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/SymOpTools.cpp.o -MF CMakeFiles/_cmd.dir/layer1/SymOpTools.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/SymOpTools.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/SymOpTools.cpp
  [ 57%] Building CXX object CMakeFiles/_cmd.dir/layer1/Symmetry.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Symmetry.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Symmetry.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Symmetry.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 58%] Building CXX object CMakeFiles/_cmd.dir/layer1/Text.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Text.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Text.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Text.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Text.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: In function ‘int SeqFindRowCol(PyMOLGlobals*, int, int, int*, int*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:61:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
     61 |         if((char_num >= 0) && (char_num < row->ext_len) && (row->char2col)) {
        |                                ~~~~~~~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: In member function ‘virtual void CSeq::reshape(int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:114:28: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    114 |       if(I->Row[a].ext_len > I->Size)
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: In member function ‘virtual void CSeq::draw(CGO*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:392:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
    392 |         if(max_len < row->ext_len)
        |            ~~~~~~~~^~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.h:21,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:22:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: In function ‘void SeqFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CSeq’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:731:3: note: in expansion of macro ‘DeleteP’
    731 |   DeleteP(G->Seq);
        |   ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.cpp:717:13: warning: ‘void SeqPurgeRowVLA(PyMOLGlobals*)’ defined but not used [-Wunused-function]
    717 | static void SeqPurgeRowVLA(PyMOLGlobals * G)
        |             ^~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp: In function ‘void SettingUniqueResetAll(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp:501:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<SettingUniqueEntry>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    501 |   for (int a = 2; a < I->entry.size(); a++) {
        |                   ~~^~~~~~~~~~~~~~~~~
  [ 58%] Building CXX object CMakeFiles/_cmd.dir/layer1/TypeFace.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/TypeFace.cpp.o -MF CMakeFiles/_cmd.dir/layer1/TypeFace.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/TypeFace.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/TypeFace.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp: In function ‘void SettingGenerateSideEffects(PyMOLGlobals*, int, const char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp:2020:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
   2020 |     if (SettingGetGlobal_b(G, cSetting_precomputed_lighting))
        |     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.cpp:2022:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
   2022 |       SceneInvalidate(G);
        |       ^~~~~~~~~~~~~~~
  [ 59%] Building CXX object CMakeFiles/_cmd.dir/layer1/View.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/View.cpp.o -MF CMakeFiles/_cmd.dir/layer1/View.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/View.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/View.cpp
  [ 59%] Building CXX object CMakeFiles/_cmd.dir/layer1/Wizard.cpp.o
  [ 59%] Building CXX object CMakeFiles/_cmd.dir/layer2/AssemblyHelpers.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/AssemblyHelpers.cpp.o -MF CMakeFiles/_cmd.dir/layer2/AssemblyHelpers.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/AssemblyHelpers.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AssemblyHelpers.cpp
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer1/Wizard.cpp.o -MF CMakeFiles/_cmd.dir/layer1/Wizard.cpp.o.d -o CMakeFiles/_cmd.dir/layer1/Wizard.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp
  [ 60%] Building CXX object CMakeFiles/_cmd.dir/layer2/AtomInfo.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/AtomInfo.cpp.o -MF CMakeFiles/_cmd.dir/layer2/AtomInfo.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/AtomInfo.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Text.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp: In member function ‘virtual void CWizard::draw(CGO*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:727:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
    727 |     else
        |     ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:729:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
    729 |       drawTopEdge();
        |       ^~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp: In function ‘void WizardFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CWizard’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Wizard.cpp:845:3: note: in expansion of macro ‘DeleteP’
    845 |   DeleteP(G->Wizard);
        |   ^~~~~~~
  [ 60%] Building CXX object CMakeFiles/_cmd.dir/layer2/AtomInfoHistory.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/AtomInfoHistory.cpp.o -MF CMakeFiles/_cmd.dir/layer2/AtomInfoHistory.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/AtomInfoHistory.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfoHistory.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp:37:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp: In function ‘bool AtomResiFromResv(char*, size_t, int, char)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp:787:56: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    787 |     return snprintf(resi, size, "%d%c", resv, inscode) < size;
        |            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.cpp:788:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    788 |   return snprintf(resi, size, "%d", resv) < size;
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
  [ 60%] Building CXX object CMakeFiles/_cmd.dir/layer2/BondTypeHistory.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/BondTypeHistory.cpp.o -MF CMakeFiles/_cmd.dir/layer2/BondTypeHistory.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/BondTypeHistory.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/BondTypeHistory.cpp
  [ 61%] Building CXX object CMakeFiles/_cmd.dir/layer2/CifFile.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/CifFile.cpp.o -MF CMakeFiles/_cmd.dir/layer2/CifFile.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/CifFile.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp
  [ 61%] Building CXX object CMakeFiles/_cmd.dir/layer2/CifMoleculeReader.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/CifMoleculeReader.cpp.o -MF CMakeFiles/_cmd.dir/layer2/CifMoleculeReader.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/CifMoleculeReader.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp
  [ 62%] Building CXX object CMakeFiles/_cmd.dir/layer2/CoordSet.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/CoordSet.cpp.o -MF CMakeFiles/_cmd.dir/layer2/CoordSet.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/CoordSet.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp: In function ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > pymol::integer_packing_decode(const std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >&, int, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp:585:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    585 |   for (int i = 0, j = 0; i < packedInts.size(); ++i, ++j) {
        |                          ~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp: In function ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > pymol::string_array_decode(const std::vector<unsigned char>&, std::vector<std::map<std::__cxx11::basic_string<char>, msgpack::v2::object> >&, const std::string&, const std::vector<unsigned char>&, std::vector<std::map<std::__cxx11::basic_string<char>, msgpack::v2::object> >&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp:668:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    668 |   for (int i = 1; i < decodedOffsets.size(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifFile.cpp:675:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::variant<signed char, short int, int, unsigned char, short unsigned int, unsigned int, float, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    675 |   for (int i = 0; i < indices.size(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 62%] Building CXX object CMakeFiles/_cmd.dir/layer2/DistSet.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/DistSet.cpp.o -MF CMakeFiles/_cmd.dir/layer2/DistSet.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/DistSet.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp: In member function ‘void seqvec_t::set(int, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:109:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    109 |     if (i > size())
        |         ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp: In member function ‘const char* seqvec_t::get(int) const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    115 |     if (i < 1 || i > size())
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp: In function ‘CoordSet** read_pdbx_struct_assembly(PyMOLGlobals*, const pymol::cif_data*, const AtomInfoType*, const CoordSet*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:801:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    801 |       while (j < c_src_len * c_it->size()) {
        |              ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 62%] Building CXX object CMakeFiles/_cmd.dir/layer2/GadgetSet.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/GadgetSet.cpp.o -MF CMakeFiles/_cmd.dir/layer2/GadgetSet.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/GadgetSet.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/GadgetSet.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp: In member function ‘int CoordSet::extendIndices(int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp:1599:18: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare]
   1599 |     if (NAtIndex < nAtom) {
        |         ~~~~~~~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp: In function ‘void CoordSetAtomToPDBStrVLA(PyMOLGlobals*, char**, int*, const AtomInfoType*, const float*, int, const PDBInfoRec*, const double*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.cpp:1013:14: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying 6 bytes from a string of the same length [-Wstringop-truncation]
   1013 |       strncpy(anisoline, "ANISOU", 6);
        |       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp: In function ‘int DistSetGetLabelVertex(DistSet*, int, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp:43:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::array<float, 3> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     43 |   if (at >= 0 && at < I->LabCoord.size()) {
        |                  ~~~^~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp: In member function ‘pymol::Result<std::array<float, 3> > DistSet::getLabelOffset(int) const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/DistSet.cpp:59:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<LabPosType>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     59 |   if (atm < 0 || atm >= this->LabPos.size()) {
        |                  ~~~~^~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/GadgetSet.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 63%] Building CXX object CMakeFiles/_cmd.dir/layer2/HydrogenAdder.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/HydrogenAdder.cpp.o -MF CMakeFiles/_cmd.dir/layer2/HydrogenAdder.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/HydrogenAdder.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/MmodTyping.cpp.o -MF CMakeFiles/_cmd.dir/layer2/MmodTyping.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/MmodTyping.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmodTyping.cpp
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  [ 64%] Building CXX object CMakeFiles/_cmd.dir/layer2/Mol2Typing.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/Mol2Typing.cpp.o -MF CMakeFiles/_cmd.dir/layer2/Mol2Typing.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/Mol2Typing.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/Mol2Typing.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/MolV3000.cpp.o -MF CMakeFiles/_cmd.dir/layer2/MolV3000.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/MolV3000.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MolV3000.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp: In function ‘int ObjectMoleculeAddSeleHydrogensRefactored(ObjectMolecule*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp:286:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
    286 |   for (unsigned atm = 0; atm < n_atom_old; atm++) {
        |                          ~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp:304:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
    304 |   for (unsigned atm = 0; atm < n_atom_old; ++atm) {
        |                          ~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/HydrogenAdder.cpp:352:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
    352 |     for (unsigned idx = 0; idx < cs->NIndex; ++idx) {
        |                            ~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp: In function ‘ObjectMolecule* ObjectMoleculeReadMmtfStr(PyMOLGlobals*, ObjectMolecule*, const char*, int, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp:183:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    183 |   for (int entityIndex = 0; entityIndex < container->entityListCount; ++entityIndex) {
        |                             ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp:186:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    186 |     for (int i = 0; i < entity->chainIndexListCount; ++i) {
        |                     ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp:240:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
    240 |         for (int l = 0, offset = atomIndex; l < group->bondAtomListCount / 2; ++l) {
        |                                             ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/MmtfMoleculeReader.cpp:304:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    304 |   for (int l = 0; l < container->bondAtomListCount / 2; ++l) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 65%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectAlignment.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectAlignment.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectAlignment.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectAlignment.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifMoleculeReader.cpp:31:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h: In function ‘read_chem_comp_bond_dict(pymol::cif_data const*, bond_dict_t&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:93:12: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
     93 |     strncpy(s, s_, sizeof(s));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:41:12: warning: ‘strncpy’ specified bound 4 equals destination size [-Wstringop-truncation]
     41 |     strncpy(s, name, sizeof(halfkey_t));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:41:12: warning: ‘strncpy’ specified bound 4 equals destination size [-Wstringop-truncation]
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:93:12: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
     93 |     strncpy(s, s_, sizeof(s));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:41:12: warning: ‘strncpy’ specified bound 4 equals destination size [-Wstringop-truncation]
     41 |     strncpy(s, name, sizeof(halfkey_t));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:93:12: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
     93 |     strncpy(s, s_, sizeof(s));
        |            ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h: In member function ‘bond_dict_t::get(PyMOLGlobals*, char const*, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CifBondDict.h:93:12: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
  [ 65%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectCGO.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectCGO.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectCGO.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectCGO.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp
  [ 65%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectCallback.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectCallback.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectCallback.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectCallback.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCallback.cpp
  [ 66%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectCurve.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectCurve.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectCurve.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectCurve.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘PyObject* ObjectCGOAllStatesAsPyList(ObjectCGO*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:54:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     54 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘int ObjectCGOAllStatesFromPyList(ObjectCGO*, PyObject*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:105:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    105 |     for(a = 0; a < I->State.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In member function ‘virtual void ObjectCGO::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:206:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    206 |     if((state >= 0) && (state < I->State.size())) {
        |                         ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In member function ‘virtual void ObjectCGO::render(RenderInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:503:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
    503 |         if (!ray)
        |         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:505:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
    505 |           ObjectCGORenderState(G, pass, ray, I, info, sobj, color, ramp, use_shader, cgo_lighting);
        |           ^~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h: In copy constructor ‘ObjectCGOState::ObjectCGOState(const ObjectCGOState&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h:28:17: warning: ‘ObjectCGOState::G’ will be initialized after [-Wreorder]
     28 |   PyMOLGlobals* G;
        |                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h:27:25: warning:   ‘pymol::cache_ptr<CGO> ObjectCGOState::renderCGO’ [-Wreorder]
     27 |   pymol::cache_ptr<CGO> renderCGO;
        |                         ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:532:1: warning:   when initialized here [-Wreorder]
    532 | ObjectCGOState::ObjectCGOState(const ObjectCGOState& other)
        | ^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h:29:58: warning: ‘ObjectCGOState::hasOpaque’ will be initialized after [-Wreorder]
     29 |   bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque;
        |                                                          ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.h:29:44: warning:   ‘bool ObjectCGOState::cgo_lighting’ [-Wreorder]
     29 |   bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque;
        |                                            ^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:532:1: warning:   when initialized here [-Wreorder]
    532 | ObjectCGOState::ObjectCGOState(const ObjectCGOState& other)
        | ^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGOFromCGO(PyMOLGlobals*, ObjectCGO*, CGO*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:617:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    617 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGODefine(PyMOLGlobals*, ObjectCGO*, PyObject*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:682:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    682 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:665:7: warning: variable ‘size_n’ set but not used [-Wunused-but-set-variable]
    665 |   int size_n;
        |       ^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGOFromFloatArray(PyMOLGlobals*, ObjectCGO*, float*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCGO.cpp:740:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectCGOState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    740 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCallback.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 66%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectDist.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectDist.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectDist.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectDist.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:6:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In member function ‘void ObjectCurveState::updateRawCGO()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:93:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSplinePoint>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     93 |   for (int i = 1; i < bezierPoints.size(); ++i) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:103:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSplinePoint>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    103 |   for (int i = 0; i < bezierPoints.size(); ++i) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:120:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSplinePoint>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    120 |     if (i != bezierPoints.size() - 1) {
        |         ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In member function ‘virtual void ObjectCurve::render(RenderInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:230:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCurveState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    230 |     if (state >= m_states.size()) {
        |         ~~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In function ‘PyObject* BezierSplineAsPyList(const pymol::BezierSpline&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:406:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSplinePoint>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    406 |   for (int i = 0; i < bezPts.size(); i++) {
        |                   ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In member function ‘PyObject* ObjectCurveState::asPyList() const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:415:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::BezierSpline>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    415 |   for (int i = 0; i < splines.size(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: In member function ‘PyObject* ObjectCurve::statesAsPyList() const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:425:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectCurveState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    425 |   for (int a = 0; a < m_states.size(); a++) {
        |                   ~~^~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectCurve.cpp:41:13: warning: ‘void ValidateCGO(CGO&, const ObjectCurveState&, float)’ defined but not used [-Wunused-function]
     41 | static void ValidateCGO(
        |             ^~~~~~~~~~~
  [ 67%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectGadget.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectGadget.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectGadget.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectGadget.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGadget.cpp
  [ 67%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectGadgetRamp.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectGadgetRamp.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectGadgetRamp.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectGadgetRamp.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGadgetRamp.cpp
  [ 67%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectGroup.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectGroup.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectGroup.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectGroup.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGroup.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘int ObjectDistMoveWithObject(ObjectDist*, ObjectMolecule*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:111:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    111 |   for (int i=0; i<I->DSet.size(); i++) {
        |                 ~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘void ObjectDistUpdateExtents(ObjectDist*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:136:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    136 |   for(int a = 0; a < I->DSet.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘PyObject* ObjectDistDSetAsPyList(ObjectDist*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:148:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    148 |   for(int a = 0; a < I->DSet.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘int ObjectDistDSetFromPyList(ObjectDist*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:165:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    165 |     for(int a = 0; a < I->DSet.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In member function ‘virtual void ObjectDist::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:241:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    241 |   for(int a = 0; a < I->DSet.size(); a++)
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp: In function ‘void ObjectDistInvalidateRep(ObjectDist*, cRep_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectDist.cpp:257:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<pymol::copyable_ptr<DistSet> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    257 |   for(a = 0; a < I->DSet.size(); a++)
        |              ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp: In member function ‘ObjectAlignment::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp:918:39: warning: ‘MEM[(float *)&gvert]’ may be used uninitialized [-Wmaybe-uninitialized]
    918 |               float mean[3], vert[3], gvert[3];
        |                                       ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp:918:39: warning: ‘MEM[(float *)&gvert + 4B]’ may be used uninitialized [-Wmaybe-uninitialized]
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp:975:25: warning: ‘MEM[(float *)&first]’ may be used uninitialized [-Wmaybe-uninitialized]
    975 |                   float first[3];
        |                         ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectAlignment.cpp:975:25: warning: ‘MEM[(float *)&first + 4B]’ may be used uninitialized [-Wmaybe-uninitialized]
  [ 68%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMap.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMap.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMap.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMap.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGadget.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectGadgetRamp.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 68%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMesh.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMesh.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMesh.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMesh.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp
  [ 68%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMolecule.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMolecule.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMolecule.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMolecule.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp
  [ 69%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMolecule2.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMolecule2.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMolecule2.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMolecule2.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:36:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapValidXtal(ObjectMap*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:134:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    134 |   if((state >= 0) && (state < I->State.size())) {
        |                       ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapTrim(ObjectMap*, int, float*, float*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:915:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    915 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
        |                              ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapDouble(ObjectMap*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:932:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    932 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
        |                              ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapHalve(ObjectMap*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:947:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    947 |   } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) {
        |                              ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘void ObjectMapRegeneratePoints(ObjectMap*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1190:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1190 |   for (i=0; i<om->State.size();i++){
        |             ~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘PyObject* ObjectMapAllStatesAsPyList(ObjectMap*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1280:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1280 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapAllStatesFromPyList(ObjectMap*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1438:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1438 |     for(a = 0; a < I->State.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapNewCopy(PyMOLGlobals*, const ObjectMap*, ObjectMap**, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1510:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1510 |       for(state = 0; state < src->State.size(); state++) {
        |                      ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1519:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1519 |       if(source_state < src->State.size()) {
        |          ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapState* ObjectMapStatePrime(ObjectMap*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1536:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1536 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘void ObjectMapUpdateExtents(ObjectMap*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1549:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1549 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In member function ‘virtual void ObjectMap::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:1675:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1675 |     for(a = 0; a < I->State.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapCCP4StrToMap(ObjectMap*, char*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2298:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
   2298 |   if(bytes < 256 * sizeof(int)) {
        |      ~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2308:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2308 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2943:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2943 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapXPLORStrToMap(ObjectMap*, char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3217:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   3217 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapFLDStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3438:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   3438 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapBRIXStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3767:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   3767 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4173:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   4173 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadCCP4(PyMOLGlobals*, ObjectMap*, const char*, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4695:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4695 |       if(state < I->State.size()) {
        |          ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘int ObjectMapACNTStrToMap(ObjectMap*, char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5246:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   5246 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadXPLOR(PyMOLGlobals*, ObjectMap*, const char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5558:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   5558 |         if(state < I->State.size()) {
        |            ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadChemPyBrick(PyMOLGlobals*, ObjectMap*, PyObject*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5713:24: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   5713 |     if(I->State.size() <= state) {
        |        ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadChemPyMap(PyMOLGlobals*, ObjectMap*, PyObject*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5811:24: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   5811 |     if(I->State.size() <= state) {
        |        ~~~~~~~~~~~~~~~~^~~~~~~~
  [ 69%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectMolecule3.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectMolecule3.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectMolecule3.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectMolecule3.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule3.cpp
  [ 70%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectSlice.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectSlice.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectSlice.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectSlice.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:33:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘int ObjectMoleculeFillOpenValences(ObjectMolecule*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:3549:14: warning: comparison of integer expressions of different signedness: ‘const unsigned int’ and ‘signed char’ [-Wsign-compare]
   3549 |       if((nn >= ai->valence) || (!flag))
        |           ~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘pymol::Result<> ObjectMoleculeAddBondByIndices(ObjectMolecule*, unsigned int, unsigned int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:4346:12: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   4346 |   if (atm1 >= I->NAtom || atm2 >= I->NAtom) {
        |       ~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:4346:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   4346 |   if (atm1 >= I->NAtom || atm2 >= I->NAtom) {
        |                           ~~~~~^~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:43:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In member function ‘bool ObjectMolecule::atomHasAnyCoordinates(size_t) const’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:11774:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
  11774 |   for (size_t i = 0; i < NCSet; ++i) {
        |                      ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp: In function ‘bool ObjectMoleculeConnect(ObjectMolecule*, int&, pymol::vla<BondType>&, CoordSet*, int, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3764:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   3764 |     for (unsigned i = 0; i < cs->NIndex; ++i) {
        |                          ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3793:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
   3793 |         if (i <= j && !symop)
        |             ~~^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp: In function ‘bool ObjectMoleculeConnect(ObjectMolecule*, int&, pymol::vla<BondType>&, CoordSet*, int, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3898:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   3898 |       for (unsigned i = 0; i < cs->NIndex; ++i) {
        |                            ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3914:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   3914 |     for (unsigned a = 0; a < cs->NTmpBond; ++a) {
        |                          ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:3964:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   3964 |     for (unsigned a = 0; a < cs->NTmpLinkBond; ++a) {
        |                          ~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp: In member function ‘ObjectMesh::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:508:39: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=]
    508 |         "ObjectMeshUpdate-Error: map '%s' has been deleted.\n",
        |                                       ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 50 and 305 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:541:38: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=]
    541 |             " ObjectMesh: updating \"%s\".\n", I->Name ENDFB(G);
        |                                      ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 27 and 282 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:33:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule3.cpp: In function ‘std::vector<int> ObjectMoleculeGetMolMappingVec(const ObjectMolecule&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule3.cpp:42:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare]
     42 |   for (size_t b = 0; b < objmol.NBond; ++b) {
        |                      ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule3.cpp: In function ‘void ObjectMoleculePBCUnwrap(ObjectMolecule&, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule3.cpp:151:34: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
    151 |       for (unsigned atm = 0; atm != objmol.NAtom; ++atm) {
        |                              ~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp: In function ‘ObjectMeshDump(ObjectMesh*, char const*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMesh.cpp:333:25: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=]
    333 |       " ObjectMeshDump: %s written to %s\n", I->Name, fname ENDFB(I->G);
        |                         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output 31 or more bytes (assuming 286) into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘PyObject* ObjectSliceAllStatesAsPyList(ObjectSlice*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:78:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     78 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:210:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    210 |   for(a = 0; a < State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:633:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    633 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘void ObjectSliceDrag(ObjectSlice*, int, int, float*, float*, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:679:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    679 |     if(state < I->State.size())
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘int ObjectSliceGetVertex(ObjectSlice*, int, int, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:750:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    750 |     if(state < I->State.size())
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::render(RenderInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:925:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    925 |       if(state < I->State.size())
        |          ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:967:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    967 |         if(cur_state >= I->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:981:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    981 |     if(state < I->State.size())
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:1226:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1226 |     if(cur_state >= I->State.size())
        |        ~~~~~~~~~~^~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘ObjectSliceState* ObjectSliceStateGetActive(ObjectSlice*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:1244:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1244 |     if(state < I->State.size()) {
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘ObjectSlice* ObjectSliceFromMap(PyMOLGlobals*, ObjectSlice*, ObjectMap*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:1285:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1285 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In function ‘void ObjectSliceRecomputeExtent(ObjectSlice*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:1362:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSliceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1362 |   for(a = 0; a < I->State.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  [ 70%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectSurface.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectSurface.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectSurface.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectSurface.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp: In member function ‘ObjectSlice::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:639:42: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 225 [-Wformat-truncation=]
    639 |           "ObjectSliceUpdate-Error: map '%s' has been deleted.\n", oss->MapName
        |                                          ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:44:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 51 and 306 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSlice.cpp:650:39: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 231 [-Wformat-truncation=]
    650 |             " ObjectSlice: updating \"%s\".\n", I->Name ENDFB(I->G);
        |                                       ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 28 and 283 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeMOLStr2CoordSet(PyMOLGlobals*, char const*, AtomInfoType**, char const**) [clone .constprop.0]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:7597:37: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 224 [-Wformat-truncation=]
   7597 |     " ObjMolMOLStr2CoordSet: title '%s'\n", nameTmp ENDFB(G)
        |                                     ^~      ~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:49:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 34 and 289 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:7645:16: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation]
   7645 |         strncpy(atInfo[a].elem, cc, cElemNameLen);
        |         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapDump(ObjectMap const*, char const*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5984:24: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 239 [-Wformat-truncation=]
   5984 |       " ObjectMapDump: %s written to %s\n", om->Name, fname ENDFB(om->G);
        |                        ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/python3.13/Python.h:37,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:21:
  In function ‘snprintf’,
      inlined from ‘ObjectMapDump(ObjectMap const*, char const*, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:5983:5:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output 30 or more bytes (assuming 285) into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  [ 70%] Building CXX object CMakeFiles/_cmd.dir/layer2/ObjectVolume.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/ObjectVolume.cpp.o -MF CMakeFiles/_cmd.dir/layer2/ObjectVolume.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/ObjectVolume.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp: In function ‘ObjectMoleculeAddPseudoatom(ObjectMolecule*, int, char const*, char const*, char const*, char const*, char const*, char const*, float, int, float, float, char const*, float const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:335:27: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=]
    335 |         " ObjMol: created %s/%s/%s/%s`%d%c/%s\n",
        |                           ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/python3.13/Python.h:37,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:24:
  In function ‘snprintf’,
      inlined from ‘ObjectMoleculeAddPseudoatom(ObjectMolecule*, int, char const*, char const*, char const*, char const*, char const*, char const*, float, int, float, float, char const*, float const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule2.cpp:334:7:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 26 and 291 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  [ 71%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepAngle.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepAngle.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepAngle.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepAngle.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepAngle.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeLoadRSTFile(PyMOLGlobals*, ObjectMolecule*, char const*, int, int, char)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:1407:10: warning: ‘buffer’ may be used uninitialized [-Wmaybe-uninitialized]
   1407 |     mfree(buffer);
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:1304:9: note: ‘buffer’ was declared here
   1304 |   char *buffer, *p;
        |         ^~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:35:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘PyObject* ObjectSurfaceAllStatesAsPyList(ObjectSurface*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:84:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     84 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘void ObjectSurfaceDump(ObjectSurface*, const char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:237:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    237 |     if(state < I->State.size()) {
        |        ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In member function ‘virtual void ObjectSurface::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:282:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    282 |     for(int a = 0; a < I->State.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘int ObjectSurfaceInvalidateMapName(ObjectSurface*, const char*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:312:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    312 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘ObjectSurface* ObjectSurfaceFromBox(PyMOLGlobals*, ObjectSurface*, ObjectMap*, int, int, float*, float*, float, cIsosurfaceMode, float, pymol::vla<float>&&, cIsosurfaceSide, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:1042:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1042 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘int ObjectSurfaceSetLevel(ObjectSurface*, float, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:1138:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectSurfaceState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1138 |     for(int a = 0; a < I->State.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘PyObject* ObjectVolumeAllStatesAsPyList(ObjectVolume*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:133:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    133 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘int ObjectVolumeAllStatesFromPyList(ObjectVolume*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:254:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    254 |     for(int a = 0; a < I->State.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘int ObjectVolumeInvalidateMapName(ObjectVolume*, const char*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:319:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    319 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::invalidate(cRep_t, cRepInv_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:347:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    347 |     for(a = 0; a < I->State.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:408:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    408 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:446:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<float>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    446 |         for (i = 0; i < vs->Ramp.size(); i += 5) {
        |                     ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::render(RenderInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:765:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    765 |   for(a = 0; a < I->State.size(); ++a) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘ObjectVolume* ObjectVolumeFromXtalSym(PyMOLGlobals*, ObjectVolume*, ObjectMap*, CSymmetry*, int, int, float*, float*, float, int, float, float*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:1125:22: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1125 |   if(I->State.size() <= state) {
        |      ~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘void ObjectVolumeRecomputeExtent(ObjectVolume*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:1226:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectVolumeState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1226 |   for(int a = 0; a < I->State.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: At global scope:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:663:15: warning: ‘size_t createPreintegrationTexture(PyMOLGlobals*, const float*, int)’ defined but not used [-Wunused-function]
    663 | static size_t createPreintegrationTexture(PyMOLGlobals * G, const float *Table, const int count)
        |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4291:18: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=]
   4291 |     " ObjectMap: %s\n", cc ENDFB(I->G);
        |                  ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4290:3:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4291:18: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=]
   4291 |     " ObjectMap: %s\n", cc ENDFB(I->G);
        |                  ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4290:3:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In member function ‘ObjectMolecule::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:10623:82: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=]
  10623 |               " ObjectMolecule-DEBUG: updating representations for state %d of \"%s\".\n",
        |                                                                                  ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 68 and 333 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, float const*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:10749:43: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=]
  10749 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
        |                                           ^~
  10750 |               buffer, v[0], v[1], v[2], state + 1, mode, 0);
        |               ~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:10749:21: note: directive argument in the range [-2147483647, 2147483647]
  10749 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:10749:14: note: ‘sprintf’ output between 78 and 2036 bytes into a destination of size 1024
  10749 |       sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n",
        |       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  10750 |               buffer, v[0], v[1], v[2], state + 1, mode, 0);
        |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepAngle.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp: In function ‘ObjectVolumeStateGetMapState(ObjectVolumeState*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:80:33: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=]
     80 |       "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName
        |                                 ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/python3.13/Python.h:37,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:20:
  In function ‘snprintf’,
      inlined from ‘ObjectVolumeStateGetMapState(ObjectVolumeState*)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectVolume.cpp:79:5:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 46 and 301 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In function ‘ObjectSurfaceDump(ObjectSurface*, char const*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:269:30: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
    269 |         " ObjectSurfaceDump: %s written to %s\n", I->Name, fname ENDFB(I->G);
        |                              ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:45:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output 34 or more bytes (assuming 289) into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  [ 71%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepCartoon.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepCartoon.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepCartoon.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepCartoon.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp
  In function ‘ObjectMoleculeXYZStr2CoordSet(PyMOLGlobals*, char const*, AtomInfoType**, char const**)’,
      inlined from ‘ObjectMoleculeReadStr(PyMOLGlobals*, ObjectMolecule*, char const**, cLoadType_t, int, int, int, int, char*, short, _OVLexicon*)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:8569:43:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.cpp:2916:16: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation]
   2916 |         strncpy(ai->elem, cc, cElemNameLen);
        |         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2962:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
   2962 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
        |                      ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2961:5,
      inlined from ‘ObjectMapReadPHIStr(PyMOLGlobals*, ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4804:25,
      inlined from ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4836:28:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2971:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
   2971 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
        |                      ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2970:5,
      inlined from ‘ObjectMapReadPHIStr(PyMOLGlobals*, ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4804:25,
      inlined from ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4836:28:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2977:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
   2977 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
        |                      ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:2976:5,
      inlined from ‘ObjectMapReadPHIStr(PyMOLGlobals*, ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4804:25,
      inlined from ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4836:28:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3059:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=]
   3059 |       " PHIStrToMap: %s\n", cc ENDFB(I->G);
        |                      ^~     ~~
  In function ‘snprintf’,
      inlined from ‘ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:3058:5,
      inlined from ‘ObjectMapReadPHIStr(PyMOLGlobals*, ObjectMap*, char*, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4804:25,
      inlined from ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMap.cpp:4836:28:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp: In member function ‘ObjectSurface::update()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectSurface.cpp:494:43: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=]
    494 |               " ObjectSurface: updating \"%s\".\n", I->Name ENDFB(I->G);
        |                                           ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 30 and 285 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  [ 72%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepCylBond.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepCylBond.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepCylBond.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepCylBond.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCylBond.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 72%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepDihedral.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepDihedral.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepDihedral.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepDihedral.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDihedral.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp: In function ‘Rep* RepCartoonNew(CoordSet*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:3746:11: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class CCInOut’; use assignment or value-initialization instead [-Wclass-memaccess]
   3746 |     memset(car,      0, sizeof(*car)      * nAtIndex);
        |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:45:7: note: ‘class CCInOut’ declared here
     45 | class CCInOut {
        |       ^~~~~~~
  [ 72%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepDistDash.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepDistDash.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepDistDash.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepDistDash.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDistDash.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCylBond.cpp:32:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDihedral.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:29:
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:338:23:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.h:25,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.h:25,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:36:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:339:23:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  [ 73%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepDistLabel.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepDistLabel.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepDistLabel.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepDistLabel.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDistLabel.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDistDash.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 73%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepDot.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepDot.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepDot.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepDot.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp
  [ 73%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepEllipsoid.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepEllipsoid.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepEllipsoid.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepEllipsoid.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepEllipsoid.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp: In function ‘do_ring(PyMOLGlobals*, nuc_acid_data*, int, int*, ObjectMolecule*, CoordSet*, float, CGO*, int, float, int, int, int, float, float, int*, float*, float)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:1008:75: warning: ‘i’ may be used uninitialized [-Wmaybe-uninitialized]
   1008 |                     float ladder_alpha = 1.0f - AtomSettingGetWD(G, ai_i[i], cSetting_cartoon_transparency, 1.0f - alpha);
        |                                                                     ~~~~~~^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepCartoon.cpp:462:11: note: ‘i’ was declared here
    462 |       int i;
        |           ^
  [ 74%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepLabel.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepLabel.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepLabel.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepLabel.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepLabel.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDistLabel.cpp:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp:32:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 74%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepMesh.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepMesh.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepMesh.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepMesh.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/CoordSet.h:22,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.h:21,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp: In function ‘RepDotDoNew(CoordSet*, cRepDot_t, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp:463:46: warning: ‘vn’ may be used uninitialized [-Wmaybe-uninitialized]
    463 |     I->VN = ReallocForSure(I->VN, float, (vn - I->VN));
        |                                           ~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepDot.cpp:263:14: note: ‘vn’ was declared here
    263 |   float *v, *vn;
        |              ^~
  [ 75%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepNonbonded.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepNonbonded.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepNonbonded.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepNonbonded.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepNonbonded.cpp
  [ 75%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepNonbondedSphere.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepNonbondedSphere.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepNonbondedSphere.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepNonbondedSphere.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepNonbondedSphere.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepLabel.cpp:31:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 75%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepRibbon.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepRibbon.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepRibbon.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepRibbon.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepNonbonded.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 76%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphere.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepNonbondedSphere.cpp:30:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /usr/include/c++/15/memory:80,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:23,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp:17:
  In member function ‘std::unique_ptr<CField, std::default_delete<CField> >::~unique_ptr()’,
      inlined from ‘pymol::cache_ptr<CField, std::default_delete<CField> >::~cache_ptr()’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/pymol/memory.h:47:7,
      inlined from ‘Isofield::~Isofield()’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Isosurf.h:30:8,
      inlined from ‘RepMeshNew(CoordSet*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp:1063:5:
  /usr/include/c++/15/bits/unique_ptr.h:398:19: warning: ‘field’ may be used uninitialized [-Wmaybe-uninitialized]
    398 |         if (__ptr != nullptr)
        |             ~~~~~~^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp: In function ‘RepMeshNew(CoordSet*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepMesh.cpp:725:13: note: ‘field’ was declared here
    725 |   Isofield *field;
        |             ^~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp: In function ‘RepRibbonNew(CoordSet*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp:422:15: warning: ‘MEM <vector(2) float> [(float *)_706]’ may be used uninitialized [-Wmaybe-uninitialized]
    422 |     *(v1++) = *(v++);           /* first segment */
        |               ^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepRibbon.cpp:424:15: warning: ‘MEM[(float *)_706 + 8B]’ may be used uninitialized [-Wmaybe-uninitialized]
    424 |     *(v1++) = *(v++);
        |               ^~~~~~
  [ 76%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphereGenerate.cpp
  [ 77%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphereImmediate.cpp
  [ 77%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp
  [ 77%] Building CXX object CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o -MF CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepWireBond.cpp
  [ 78%] Building CXX object CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o -MF CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/Sculpt.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphere.cpp:34:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphereImmediate.cpp:20:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 78%] Building CXX object CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o -MF CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SculptCache.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSphereGenerate.cpp:20:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepWireBond.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 78%] Building CXX object CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o -MF CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/Sculpt.cpp:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 79%] Building CXX object CMakeFiles/_cmd.dir/layer2/VFont.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer2/VFont.cpp.o -MF CMakeFiles/_cmd.dir/layer2/VFont.cpp.o.d -o CMakeFiles/_cmd.dir/layer2/VFont.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/VFont.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp:35:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 79%] Building CXX object CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o -MF CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp: In function ‘void RepSurfaceSmoothEdges(RepSurface*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp:4701:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4701 |     for (auto j = 0; j < edges[i].size(); j += 3) {
        |                      ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp:4713:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4713 |     for (auto j = 0; j < edges[i].size(); j += 3) {
        |                      ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/RepSurface.cpp:4724:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4724 |     for (auto i = 0; i < unique_edges.size(); i += 2) {
        |                      ~~^~~~~~~~~~~~~~~~~~~~~
  [ 80%] Building CXX object CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o -MF CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/CifDataValueFormatter.cpp
  [ 80%] Building CXX object CMakeFiles/_cmd.dir/layer3/Editor.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Editor.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Editor.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Editor.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp: In member function ‘virtual bool SeleAtomIterator::next()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp:65:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     65 |   while ((++a) < I->Table.size()) {
        |          ~~~~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp: In member function ‘virtual bool SeleCoordIterator::next()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/AtomIterators.cpp:133:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    133 |   for (a++; a < I->Table.size(); a++) {
        |             ~~^~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:25,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.h:24,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.h:9,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:10:
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:57:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.h:25:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:55:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:49:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/SideChainHelper.cpp:47:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  [ 80%] Building CXX object CMakeFiles/_cmd.dir/layer3/Executive.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Executive.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Executive.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Executive.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp
  [ 81%] Building CXX object CMakeFiles/_cmd.dir/layer3/ExecutivePython.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/ExecutivePython.cpp.o -MF CMakeFiles/_cmd.dir/layer3/ExecutivePython.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/ExecutivePython.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/ExecutivePython.cpp
  [ 81%] Building CXX object CMakeFiles/_cmd.dir/layer3/Interactions.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Interactions.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Interactions.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Interactions.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Interactions.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp: In function ‘pymol::Result<> EditorSelect(PyMOLGlobals*, const char*, const char*, const char*, const char*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:778:7: warning: variable ‘result’ set but not used [-Wunused-but-set-variable]
    778 |   int result = false;
        |       ^~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsosurfaceEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:990:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    990 |         if(map_state >= mapObj->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsomeshEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, float)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:1136:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1136 |         if(map_state >= mapObj->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveVolume(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:1309:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1309 |         if(map_state >= mapObj->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSmooth(PyMOLGlobals*, const char*, int, int, int, int, int, int, float, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:6186:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare]
   6186 |       for (int c = 0; c < n_atom; ++c) {
        |                       ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveMapSet(PyMOLGlobals*, const char*, int, const char*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:6356:34: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   6356 |             if(obj->State.size() > max_n_state)
        |                ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:6467:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6467 |                     if(src_state < obj->State.size()) {
        |                        ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/ExecutivePython.cpp:1:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘void ExecutiveRenderSelectionsFromTargets(PyMOLGlobals*, bool, int, int, int, GridInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:8341:33: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
   8341 |         if (I->selIndicatorsCGO = optimized) {
        |             ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘float ExecutiveRMSPairs(PyMOLGlobals*, const std::vector<SelectorTmp>&, int, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11154:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  11154 |   for(a = 0; a < pairs; a++) {
        |              ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11159:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
  11159 |     if(a < (pairs - 1))
        |        ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/ExecutivePython.cpp: In function ‘pymol::Result<> ExecutiveSetRawAlignment(PyMOLGlobals*, pymol::zstring_view, PyObject*, pymol::zstring_view, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/ExecutivePython.cpp:171:23: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare]
    171 |   for(size_t c = 0; c < n_cols; ++c) {
        |                     ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/ExecutivePython.cpp:180:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare]
    180 |     for(size_t i = 0; i < n_idx; ++i) {
        |                       ~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveColor(PyMOLGlobals*, const char*, const char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12528:7: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable]
  12528 |   int ok = false;
        |       ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Interactions.cpp: In function ‘int pymol::PrepareNeighborTables(PyMOLGlobals*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Interactions.cpp:708:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    708 |   for (int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘void ExecutiveSymExp(PyMOLGlobals*, const char*, const char*, const char*, float, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14196:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  14196 |             for (unsigned idx = 0; idx < cs->NIndex; ++idx) {
        |                                    ~~~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14223:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
  14223 |             for (unsigned atm = 0; atm < new_obj->NAtom; ++atm) {
        |                                    ~~~~^~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:52:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:100:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
    100 |         else \
        |         ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
    141 |    ListDetach(List,copy,Link,ElemType); \
        |    ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14324:7: note: in expansion of macro ‘ListDelete’
  14324 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
        |       ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:102:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
    102 |           (Elem)->Link = nullptr; \
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
    141 |    ListDetach(List,copy,Link,ElemType); \
        |    ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14324:7: note: in expansion of macro ‘ListDelete’
  14324 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
        |       ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:100:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
    100 |         else \
        |         ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
    141 |    ListDetach(List,copy,Link,ElemType); \
        |    ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14336:7: note: in expansion of macro ‘ListDelete’
  14336 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
        |       ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:102:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
    102 |           (Elem)->Link = nullptr; \
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’
    141 |    ListDetach(List,copy,Link,ElemType); \
        |    ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14336:7: note: in expansion of macro ‘ListDelete’
  14336 |       ListDelete(I->Spec, rec, next, SpecRec);        /* NOTE: order N in list length! TO FIX */
        |       ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In member function ‘virtual int CExecutive::click(int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15027:68: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15027 |               if(((panel->is_group) && (((xx) - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
        |                                        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15028:69: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15028 |                  ((!panel->is_group) && (((xx) - 1) / DIP2PIXEL(8)) > panel->nest_level)) {
        |                                         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In member function ‘virtual int CExecutive::release(int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15316:65: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15316 |                (((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
        |                                       ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15317:66: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15317 |                 ((!panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > panel->nest_level))) {
        |                                        ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In member function ‘virtual int CExecutive::drag(int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15458:70: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15458 |                   if(((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) ||
        |                                            ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15459:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15459 |                      ((!panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > panel->nest_level)) {
        |                                             ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15494:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  15494 |                   if(!((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1))) {
        |                                             ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:27:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘void ExecutiveFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CExecutive’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:16446:3: note: in expansion of macro ‘DeleteP’
  16446 |   DeleteP(G->Executive);
        |   ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSliceNew(PyMOLGlobals*, const char*, const char*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:16757:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  16757 |         if(map_state >= mapObj->State.size())
        |            ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In instantiation of ‘ExecutiveUpdateObjectsImpl(PyMOLGlobals*, const pymol::CObject&, std::unordered_set<const pymol::CObject*>&)::<lambda(const auto:3&, const auto:4&)> [with auto:3 = ObjectMolecule*; auto:4 = const ObjectDist*]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17125:27:   required from here
  17125 |         if (is_mol_in_dist(mol, measure)) {
        |             ~~~~~~~~~~~~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17107:21: warning: loop variable ‘ds’ creates a copy from type ‘const pymol::copyable_ptr<DistSet>’ [-Wrange-loop-construct]
  17107 |     for (const auto ds : dist->DSet) {
        |                     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17107:21: note: use reference type to prevent copying
  17107 |     for (const auto ds : dist->DSet) {
        |                     ^~
        |                     &
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In instantiation of ‘ExecutiveUpdateObjectsImpl(PyMOLGlobals*, const pymol::CObject&, std::unordered_set<const pymol::CObject*>&)::<lambda(const auto:3&, const auto:4&)> [with auto:3 = const ObjectMolecule*; auto:4 = ObjectDist*]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17134:27:   required from here
  17134 |         if (is_mol_in_dist(mol, measure)) {
        |             ~~~~~~~~~~~~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17107:21: warning: loop variable ‘ds’ creates a copy from type ‘const pymol::copyable_ptr<DistSet>’ [-Wrange-loop-construct]
  17107 |     for (const auto ds : dist->DSet) {
        |                     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:17107:21: note: use reference type to prevent copying
  17107 |     for (const auto ds : dist->DSet) {
        |                     ^~
        |                     &
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:39:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h: In instantiation of ‘pymol::TrackerAdapter<T>::TrackerAdapterIterator<IsConst>::TrackerAdapterIterator(CTracker*, int) [with bool IsConst = false; T = SpecRec]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h:99:29:   required from ‘pymol::TrackerAdapter<T>::iterator pymol::TrackerAdapter<T>::begin() [with T = SpecRec; iterator = pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>]’
     99 |   iterator begin() { return iterator(m_tracker, m_list_id); }
        |                             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:204:62:   required from here
    204 |   for (auto& rec : ExecutiveGetSpecRecsFromPattern(G, pattern)) {
        |                                                              ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h:80:15: warning: ‘pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>::m_tracker’ will be initialized after [-Wreorder]
     80 |     CTracker* m_tracker;
        |               ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h:79:9: warning:   ‘int pymol::TrackerAdapter<SpecRec>::TrackerAdapterIterator<false>::m_iter_id’ [-Wreorder]
     79 |     int m_iter_id = -1;
        |         ^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/TrackerList.h:35:14: warning:   when initialized here [-Wreorder]
     35 |     explicit TrackerAdapterIterator(CTracker* tracker, int list_id)
        |              ^~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp: In function ‘EditorPrepareDrag(PyMOLGlobals*, pymol::CObject*, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:1935:29: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=]
   1935 |         " Editor: grabbing (%s).", name ENDFB(G);
        |                             ^~     ~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:42:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 22 and 277 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp: In function ‘EditorDefineExtraPks(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:337:29: warning: ‘%s’ directive writing up to 255 bytes into a region of size 249 [-Wformat-overflow=]
    337 |     sprintf(buffer, "(byres %s)", name);
        |                             ^~    ~~~~
  [ 81%] Building CXX object CMakeFiles/_cmd.dir/layer3/MaeExportHelpers.cpp.o
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:337:12: note: ‘sprintf’ output between 9 and 264 bytes into a destination of size 256
    337 |     sprintf(buffer, "(byres %s)", name);
        |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/MaeExportHelpers.cpp.o -MF CMakeFiles/_cmd.dir/layer3/MaeExportHelpers.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/MaeExportHelpers.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:339:31: warning: ‘%s’ directive writing up to 255 bytes into a region of size 247 [-Wformat-overflow=]
    339 |     sprintf(buffer, "(bychain %s)", name);
        |                               ^~    ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:339:12: note: ‘sprintf’ output between 11 and 266 bytes into a destination of size 256
    339 |     sprintf(buffer, "(bychain %s)", name);
        |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:341:32: warning: ‘%s’ directive writing up to 255 bytes into a region of size 246 [-Wformat-overflow=]
    341 |     sprintf(buffer, "(byobject %s)", name);
        |                                ^~    ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Editor.cpp:341:12: note: ‘sprintf’ output between 12 and 267 bytes into a destination of size 256
    341 |     sprintf(buffer, "(byobject %s)", name);
        |     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 82%] Building CXX object CMakeFiles/_cmd.dir/layer3/MoleculeExporter.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/MoleculeExporter.cpp.o -MF CMakeFiles/_cmd.dir/layer3/MoleculeExporter.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/MoleculeExporter.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MoleculeExporter.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp:17:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 82%] Building CXX object CMakeFiles/_cmd.dir/layer3/MovieScene.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/MovieScene.cpp.o -MF CMakeFiles/_cmd.dir/layer3/MovieScene.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/MovieScene.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MovieScene.cpp
  [ 83%] Building CXX object CMakeFiles/_cmd.dir/layer3/PlugIOManager.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/PlugIOManager.cpp.o -MF CMakeFiles/_cmd.dir/layer3/PlugIOManager.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/PlugIOManager.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:23,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp:11:
  In function ‘SettingUniqueGetTypedValuePtr(PyMOLGlobals*, int, int, int, bool*)’,
      inlined from ‘SettingUniqueGetIfDefined<bool>(PyMOLGlobals*, int, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:472:39,
      inlined from ‘AtomSettingGetIfDefined<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool*)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:509:33,
      inlined from ‘AtomSettingGetWD<bool, AtomInfoType const>(PyMOLGlobals*, AtomInfoType const*, int, bool)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:519:36,
      inlined from ‘SettingGet<bool>(PyMOLGlobals*, SeleCoordIterator const&, int)bool’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp:26:26,
      inlined from ‘MaeExportGetAtomStyle(PyMOLGlobals*, SeleCoordIterator const&)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MaeExportHelpers.cpp:75:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Setting.h:461:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized]
    461 |   int i = *out;
        |           ^~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h: In function ‘MaeExportGetAtomStyle(PyMOLGlobals*, SeleCoordIterator const&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/AtomInfo.h:518:5: note: ‘out’ was declared here
    518 |   V out;
        |     ^~~
  [ 83%] Building CXX object CMakeFiles/_cmd.dir/layer3/RingFinder.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/RingFinder.cpp.o -MF CMakeFiles/_cmd.dir/layer3/RingFinder.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/RingFinder.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/RingFinder.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MoleculeExporter.cpp:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Movie.h:24,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/MovieScene.cpp:11:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp: In function ‘ObjectMap* PlugIOManagerLoadVol(PyMOLGlobals*, ObjectMap*, const char*, int, int, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:411:34: warning: comparison of integer expressions of different signedness: ‘std::vector<ObjectMapState>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
    411 |             if(obj->State.size() <= state) {
        |                ~~~~~~~~~~~~~~~~~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/RingFinder.cpp: In member function ‘void AbstractRingFinder::recursion(int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/RingFinder.cpp:23:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
     23 |     } else if (depth < m_indices.size() - 1) {
        |                ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
  [ 83%] Building CXX object CMakeFiles/_cmd.dir/layer3/Seeker.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Seeker.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Seeker.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Seeker.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp
  [ 84%] Building CXX object CMakeFiles/_cmd.dir/layer3/Selector.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/Selector.cpp.o -MF CMakeFiles/_cmd.dir/layer3/Selector.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/Selector.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp: In function ‘PlugIOManagerLoad’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:941:65: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 200 [-Wformat-truncation=]
    941 |         " PlugIOManagerLoad: can't load trajectory into object '%s'\n", obj->Name ENDFB(G);
        |                                                                 ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/python3.13/Python.h:37,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/os_python.h:34,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:21:
  In function ‘snprintf’,
      inlined from ‘PlugIOManagerLoad’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/PlugIOManager.cpp:940:7:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 58 and 313 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  In function ‘ExecutiveGetAdjustedSelectionWidth(PyMOLGlobals*, bool)’,
      inlined from ‘ExecutiveRenderSelections(PyMOLGlobals*, int, int, GridInfo*)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:8414:50:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:8192:36: warning: ‘width’ may be used uninitialized [-Wmaybe-uninitialized]
   8192 |     width = static_cast<int>(width * 1.44f);
        |                              ~~~~~~^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveRenderSelections(PyMOLGlobals*, int, int, GridInfo*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:8180:7: note: ‘width’ was declared here
   8180 |   int width;
        |       ^~~~~
  [ 84%] Building CXX object CMakeFiles/_cmd.dir/layer3/SelectorTmp.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/SelectorTmp.cpp.o -MF CMakeFiles/_cmd.dir/layer3/SelectorTmp.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/SelectorTmp.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/SelectorTmp.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveRemoveAtoms(PyMOLGlobals*, char const*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:9120:58: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 207 and 217 [-Wformat-truncation=]
   9120 |                 " Remove: eliminated %d atoms in model \"%s\".\n",
        |                                                          ^~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:94:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 42 and 307 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetBondSettingFromString(PyMOLGlobals*, int, char const*, char const*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11551:28: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  11551 |                 " Setting: %s set for %d bonds in object \"%s\".\n",
        |                            ^~
  11552 |                 name, nSet, obj->Name ENDF(G);
        |                 ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11551:17: note: directive argument in the range [1, 2147483647]
  11551 |                 " Setting: %s set for %d bonds in object \"%s\".\n",
        |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 42 and 560 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In function ‘void SeekerRefresh(PyMOLGlobals*, std::vector<CSeqRow>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:485:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
    485 |   for(int b = 0; b < nRow; b++) {
        |                  ~~^~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In function ‘void SeekerUpdate(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:1150:23: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1150 |           if(row->len < min_pad) {
        |              ~~~~~~~~~^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:1186:23: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1186 |           if(row->len < min_pad) {
        |              ~~~~~~~~~^~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:1248:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
   1248 |             for(int i = 0; i < str_size; i++){
        |                            ~~^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In function ‘void SeekerUpdate(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:1930:27: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   1930 |           if(row->ext_len < stop)
        |              ~~~~~~~~~~~~~^~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Seq.h:21,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:26:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp: In function ‘void SeekerFree(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CSeeker’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Seeker.cpp:1964:3: note: in expansion of macro ‘DeleteP’
   1964 |   DeleteP(G->Seeker);
        |   ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveGetBondSetting(PyMOLGlobals*, int, char*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11632:26: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  11632 |               " Getting: %s for %d bonds in object \"%s\".\n",
        |                          ^~
  11633 |               name, nSet, obj->Name ENDF(G);
        |               ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11632:15: note: directive argument in the range [1, 2147483647]
  11632 |               " Getting: %s for %d bonds in object \"%s\".\n",
        |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 38 and 556 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetBondSetting(PyMOLGlobals*, int, _object*, char const*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11732:62: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 217 [-Wformat-truncation=]
  11732 |                   " Setting: %s set for %d bonds in object \"%s\".\n",
        |                                                              ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 42 or more bytes (assuming 306) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveUnsetBondSetting(PyMOLGlobals*, int, char const*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11811:26: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  11811 |               " Setting: %s unset for %d bonds in object \"%s\".\n",
        |                          ^~
  11812 |               name, nSet, rec->obj->Name ENDF(G);
        |               ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11811:15: note: directive argument in the range [1, 2147483647]
  11811 |               " Setting: %s unset for %d bonds in object \"%s\".\n",
        |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 44 and 562 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetObjSettingFromString(PyMOLGlobals*, int, char const*, pymol::CObject*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12353:30: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12353 |                   " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                              ^~
  12354 |                   name, value2, obj->Name, state + 1 ENDF(G);
        |                   ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12353:19: note: directive argument in the range [1, 2147483647]
  12353 |                   " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1584 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12345:30: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12345 |                   " Setting: %s set to %s in object \"%s\".\n",
        |                              ^~
  12346 |                   name, value2, obj->Name ENDF(G);
        |                   ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1566 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12324:29: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12324 |           PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G);
        |                             ^~                ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 21 and 1298 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSettingFromString(PyMOLGlobals*, int, char const*, char const*, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12256:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12256 |                         " Setting: %s set for %d atoms in object \"%s\".\n",
        |                                    ^~
  12257 |                         name, op.i4, rec->obj->Name ENDF(G);
        |                         ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 42 and 561 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12224:32: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12224 |                     " Setting: %s set to %s in %d objects, state %d.\n",
        |                                ^~
  12225 |                     name, value2, nObj, state + 1 ENDF(G);
        |                     ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12224:21: note: directive argument in the range [1, 2147483647]
  12224 |                     " Setting: %s set to %s in %d objects, state %d.\n",
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12224:21: note: directive argument in the range [1, 2147483647]
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1338 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12221:32: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12221 |                     " Setting: %s set to %s in %d objects.\n", name, value2, nObj ENDF(G);
        |                                ^~                              ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12221:21: note: directive argument in the range [1, 2147483647]
  12221 |                     " Setting: %s set to %s in %d objects.\n", name, value2, nObj ENDF(G);
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1320 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12288:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12288 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                                    ^~
  12289 |                         name, value2, rec->obj->Name, state + 1 ENDF(G);
        |                         ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12288:25: note: directive argument in the range [1, 2147483647]
  12288 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1584 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12280:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12280 |                         " Setting: %s set to %s in object \"%s\".\n",
        |                                    ^~
  12281 |                         name, value2, rec->obj->Name ENDF(G);
        |                         ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1566 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12184:29: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=]
  12184 |           PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G);
        |                             ^~                ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output between 21 and 1298 bytes into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:41:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In member function ‘virtual bool SelectorAtomIterator::next()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:180:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
    180 |   if ((++a) >= selector->Table.size())
        |       ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘bool SelectorIsSelectionDiscrete(PyMOLGlobals*, SelectorID_t, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1023:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1023 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorClassifyAtoms(PyMOLGlobals*, int, int, ObjectMolecule*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1077:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1077 |   while(a < I->Table.size()) {
        |         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1101:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1101 |       while(a1 < I->Table.size()) {
        |             ~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘const char* SelectorGetNameFromIndex(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1514:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<SelectionInfoRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1514 |   for(int a = 1; a < I->Info.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1648:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1648 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1675:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1675 |             while(a1 < I->Table.size()) {
        |                   ~~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1869:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   1869 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                               ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘PyObject* SelectorColorectionGet(PyMOLGlobals*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2682:18: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2682 |     for(b = 0; b < n_used; b++) {
        |                ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2698:16: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2698 |   for(a = 0; a < n_used; a++) {
        |              ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2710:18: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
   2710 |     for(b = 0; b < n_used; b++) {
        |                ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorColorectionApply(PyMOLGlobals*, PyObject*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2758:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
   2758 |     for(b = 0; b < n_used; b++) {       /* update selection indices */
        |                ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2763:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   2763 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2767:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare]
   2767 |       for(b = 0; b < n_used; b++) {
        |                  ~~^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘PyObject* SelectorSecretsAsPyList(PyMOLGlobals*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2868:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<SelectionInfoRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   2868 |   for(int a = 0; a < I->Info.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘PyObject* SelectorAsPyList(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:2947:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   2947 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorCountStates(PyMOLGlobals*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3441:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3441 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorCheckIntersection(PyMOLGlobals*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3465:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3465 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorCountAtoms(PyMOLGlobals*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3483:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3483 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘void SelectorSetDeleteFlagOnSelectionInObject(PyMOLGlobals*, int, ObjectMolecule*, signed char)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3498:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3498 |   for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int* SelectorGetIndexVLAImpl(PyMOLGlobals*, CSelector*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3584:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3584 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘void SelectorLogSele(PyMOLGlobals*, const char*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3643:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3643 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘ObjectMolecule* SelectorGetSingleObjectMolecule(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3808:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3808 |   for (a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                          ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘ObjectMolecule* SelectorGetFirstObjectMolecule(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3838:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3838 |   for (a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                          ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘ObjectMolecule** SelectorGetObjectMoleculeVLA(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:3862:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   3862 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorSubdivide(PyMOLGlobals*, const char*, SelectorID_t, SelectorID_t, SelectorID_t, SelectorID_t, const char*, const char*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:4261:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4261 |       for(a = 0; a < I->Table.size(); a++)
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorGetSeleNCSet(PyMOLGlobals*, SelectorID_t)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:4565:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4565 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorGetArrayNCSet(PyMOLGlobals*, const sele_array_t&, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:4595:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4595 |   for(a = start; a < I->Table.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorMapMaskVDW(PyMOLGlobals*, int, ObjectMapState*, float, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:4749:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   4749 |   for(a = 0; a < I->Table.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorMapGaussian(PyMOLGlobals*, int, ObjectMapState*, float, int, int, int, int, float)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:5109:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   5109 |   for(a = 0; a < I->Table.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:5153:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   5153 |   for(a = 0; a < I->Table.size(); a++) {
        |              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorMapCoulomb(PyMOLGlobals*, int, ObjectMapState*, float, int, int, int, float)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:5361:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   5361 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorCreateObjectMolecule(PyMOLGlobals*, SelectorID_t, const char*, int, int, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6050:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
   6050 |   if(ob)
        |   ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6054:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
   6054 |     SelectorUpdateTable(G, source, -1);
        |     ^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6065:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6065 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In lambda function:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6091:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6091 |   for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                         ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6121:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6121 |   for(a = cNDummyModels; a < I->Obj.size(); a++) {  /* find bonds wholly contained in the selection */
        |                          ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6147:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6147 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6188:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6188 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6212:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6212 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)  /* any selected atoms in this state? */
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorEmbedSelection(PyMOLGlobals*, const int*, pymol::zstring_view, ObjectMolecule*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6648:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6648 |   for(a = start; a < I->Table.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘sele_array_t SelectorSelectFromTagDict(PyMOLGlobals*, const std::unordered_map<int, int>&)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:6743:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   6743 |       for(int a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                 ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorModulate1(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7281:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7281 |           for (a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7304:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7304 |                   for(a = 0; ok && a < I->Table.size(); a++) {
        |                                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7367:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7367 |       for(a = 0; a < I->Table.size(); a++) {
        |                  ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7381:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7381 |           for(a = 0; a < I->Table.size(); a++) {
        |                      ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7404:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7404 |                   for(a = 0; ok && a < I->Table.size(); a++) {
        |                                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7445:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7445 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorSelect0(PyMOLGlobals*, EvalElem*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7478:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7478 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7489:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7489 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7494:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7494 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7501:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7501 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7505:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7505 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7509:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7509 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7513:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7513 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7517:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7517 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7526:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7526 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7543:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7543 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7548:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7548 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7553:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7553 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7558:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7558 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7563:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7563 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7568:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7568 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7573:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7573 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7577:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7577 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7581:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7581 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7586:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7586 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7591:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7591 |     for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7598:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7598 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7614:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7614 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7620:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7620 |     for(a = 0; a < I->Table.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7629:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7629 |     for(a = 0; a < I->Table.size(); a++) {
        |                ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7641:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7641 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:7661:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   7661 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘pymol::Result<> SelectorSelect1(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8366:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8366 |           for(a = cNDummyModels; a < I->Obj.size(); a++)
        |                                  ~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8376:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<ObjectMolecule*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8376 |             else if(model > I->Obj.size())
        |                     ~~~~~~^~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorSelect2(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8458:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8458 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8462:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8462 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                               ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8510:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8510 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8521:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8521 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8532:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8532 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8543:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8543 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8558:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8558 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8569:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8569 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8580:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8580 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8591:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8591 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8606:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8606 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8617:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8617 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8628:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8628 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:8639:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   8639 |             for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                                   ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorLogic1(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9116:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9116 |           for(a = 0; a < I->Table.size(); a++) {
        |                      ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9145:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9145 |                   for(a = 0; a < I->Table.size(); a++) {
        |                              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘int SelectorOperator22(PyMOLGlobals*, EvalElem*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9404:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare]
   9404 |           for(a = 0; a < table_size; a++) {
        |                      ~~^~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9426:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9426 |                   for(a = 0; a < I->Table.size(); a++) {
        |                              ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9456:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9456 |         for(a = 0; a < I->Table.size(); a++) {
        |                    ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9461:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9461 |       for(a = cNDummyAtoms; a < I->Table.size(); a++)
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘pymol::Result<std::unique_ptr<int [], std::default_delete<int []> > > SelectorEvaluate(PyMOLGlobals*, std::vector<std::__cxx11::basic_string<char> >&, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:9610:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   9610 |   while(ok && c < word.size()) {
        |               ~~^~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘DistSet* SelectorGetDistSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, float, float*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10201:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10201 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘DistSet* SelectorGetAngleSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, int, int, float*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10483:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10483 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10507:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10507 |       for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                             ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘DistSet* SelectorGetDihedralSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, int, int, int, int, float*, int*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10712:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10712 |     for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                           ~~^~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:10789:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TableRec>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  10789 |         for(a = cNDummyAtoms; a < I->Table.size(); a++) {
        |                               ~~^~~~~~~~~~~~~~~~~
  [ 85%] Building CXX object CMakeFiles/_cmd.dir/layer3/SpecRec.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/SpecRec.cpp.o -MF CMakeFiles/_cmd.dir/layer3/SpecRec.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/SpecRec.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/SpecRec.cpp
  [ 85%] Building CXX object CMakeFiles/_cmd.dir/layer3/SpecRecSpecial.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer3/SpecRecSpecial.cpp.o -MF CMakeFiles/_cmd.dir/layer3/SpecRecSpecial.cpp.o.d -o CMakeFiles/_cmd.dir/layer3/SpecRecSpecial.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/SpecRecSpecial.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSymmetry(PyMOLGlobals*, pymol::zstring_view, int, CSymmetry const&, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5973:46: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 199 [-Wformat-truncation=]
   5973 |       " %s-Warning: Cannot set symmetry for '%s' (type %s)\n", __func__,
        |                                              ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 84 and 339 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5982:43: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 202 [-Wformat-truncation=]
   5982 |       " %s-Details: Updated symmetry for '%s'\n", __func__, obj->Name ENDFB(G);
        |                                           ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 56 and 311 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5973:46: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 199 [-Wformat-truncation=]
   5973 |       " %s-Warning: Cannot set symmetry for '%s' (type %s)\n", __func__,
        |                                              ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 84 and 339 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  [ 85%] Building CXX object CMakeFiles/_cmd.dir/layer4/Cmd.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer4/Cmd.cpp.o -MF CMakeFiles/_cmd.dir/layer4/Cmd.cpp.o.d -o CMakeFiles/_cmd.dir/layer4/Cmd.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp
  [ 86%] Building CXX object CMakeFiles/_cmd.dir/layer4/Menu.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer4/Menu.cpp.o -MF CMakeFiles/_cmd.dir/layer4/Menu.cpp.o.d -o CMakeFiles/_cmd.dir/layer4/Menu.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Menu.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveBond(PyMOLGlobals*, char const*, char const*, int, int, int, pymol::zstring_view)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:9484:67: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 200 and 210 [-Wformat-truncation=]
   9484 |                   " Valence: %d bond valences adjusted in model \"%s\".\n", cnt,
        |                                                                   ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 49 and 314 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:9496:59: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 218 [-Wformat-truncation=]
   9496 |                   " Unbond: %d bonds removed from model \"%s\".\n",
        |                                                           ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 41 and 306 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:9471:53: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 214 and 224 [-Wformat-truncation=]
   9471 |                   " Bond: %d bonds added to model \"%s\".\n", cnt, rec->obj->Name
        |                                                     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 35 and 300 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  [ 86%] Building CXX object CMakeFiles/_cmd.dir/layer4/PopUp.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer4/PopUp.cpp.o -MF CMakeFiles/_cmd.dir/layer4/PopUp.cpp.o.d -o CMakeFiles/_cmd.dir/layer4/PopUp.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/PopUp.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:56:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp: In function ‘PyObject* CmdPushUndo(PyObject*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:2199:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
   2199 |     if(ok)
        |     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:2201:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
   2201 |       if(s0[0])
        |       ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp: In function ‘PyObject* CmdGetMinMax(PyObject*, PyObject*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:4452:7: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable]
   4452 |   int ok = false;
        |       ^~
  [ 86%] Building CXX object CMakeFiles/_cmd.dir/layer5/PyMOL.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer5/PyMOL.cpp.o -MF CMakeFiles/_cmd.dir/layer5/PyMOL.cpp.o.d -o CMakeFiles/_cmd.dir/layer5/PyMOL.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:65:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.h: In instantiation of ‘PyObject* PConvToPyObject(const std::array<_Tp, _Nm>&) [with T = float; long unsigned int N = 3; PyObject = _object]’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:365:27:   required from ‘PyObject* APIResult(PyMOLGlobals*, pymol::Result<T>&) [with T = std::array<float, 3>; PyObject = _object]’
    365 |     return PConvToPyObject(res.result());
        |            ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/Cmd.cpp:4017:19:   required from here
   4017 |   return APIResult(G, result);
        |          ~~~~~~~~~^~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PConv.h:259:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
    259 |   for (int i = 0; i < N; ++i) {
        |                   ~~^~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSetting(PyMOLGlobals*, int, _object*, pymol::zstring_view, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12004:70: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 217 [-Wformat-truncation=]
  12004 |                           " Setting: %s set for %d atoms in object \"%s\".\n",
        |                                                                      ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 42 or more bytes (assuming 297) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11915:42: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  11915 |                     " Setting: %s set to %s in %d objects, state %d.\n",
        |                                          ^~
  11916 |                     name, value, nObj, state + 1 ENDF(G);
        |                           ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11915:21: note: directive argument in the range [1, 2147483647]
  11915 |                     " Setting: %s set to %s in %d objects, state %d.\n",
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11915:21: note: directive argument in the range [1, 2147483647]
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 43 or more bytes (assuming 1084) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11912:42: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  11912 |                     " Setting: %s set to %s in %d objects.\n", name, value, nObj ENDF(G);
        |                                          ^~                          ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11912:21: note: directive argument in the range [1, 2147483647]
  11912 |                     " Setting: %s set to %s in %d objects.\n", name, value, nObj ENDF(G);
        |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 34 or more bytes (assuming 1066) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12036:46: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  12036 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                                              ^~
  12037 |                         name, value, rec->obj->Name, state + 1 ENDF(G);
        |                               ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12036:25: note: directive argument in the range [1, 2147483647]
  12036 |                         " Setting: %s set to %s in object \"%s\", state %d.\n",
        |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 43 or more bytes (assuming 1330) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12029:46: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  12029 |                         " Setting: %s set to %s in object \"%s\".\n",
        |                                              ^~
  12030 |                         name, value, rec->obj->Name ENDF(G);
        |                               ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 34 or more bytes (assuming 1312) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:11871:39: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=]
  11871 |           PRINTF " Setting: %s set to %s.\n", name, value ENDF(G);
        |                                       ^~            ~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 21 or more bytes (assuming 1044) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/vla.h:7,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Symmetry.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/PyMOLObject.h:26,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2/ObjectMolecule.h:24,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/P.h:22,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/PopUp.cpp:31:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/PopUp.cpp: In function ‘void PopUpFree(Block*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CPopUp’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4/PopUp.cpp:402:3: note: in expansion of macro ‘DeleteP’
    402 |   DeleteP(I);
        |   ^~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveUnsetSetting(PyMOLGlobals*, int, pymol::zstring_view, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12465:68: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 215 [-Wformat-truncation=]
  12465 |                       " Setting: %s unset for %d atoms in object \"%s\".\n",
        |                                                                    ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 44 or more bytes (assuming 299) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12487:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=]
  12487 |                         " Setting: %s unset in object \"%s\", state %d.\n",
        |                                                         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12487:25: note: directive argument in the range [1, 2147483647]
  12487 |                         " Setting: %s unset in object \"%s\", state %d.\n",
        |                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 41 or more bytes (assuming 305) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:12481:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=]
  12481 |                         " Setting: %s unset in object \"%s\".\n",
        |                                                         ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:282:53: note: ‘snprintf’ output 32 or more bytes (assuming 287) into a destination of size 255
    282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |                                                     ^
  [ 87%] Building CXX object CMakeFiles/_cmd.dir/layer5/TestPyMOL.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer5/TestPyMOL.cpp.o -MF CMakeFiles/_cmd.dir/layer5/TestPyMOL.cpp.o.d -o CMakeFiles/_cmd.dir/layer5/TestPyMOL.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/TestPyMOL.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp:35:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp: In function ‘PyMOLreturn_status Loader(CPyMOL*, const char*, const char*, int, const char*, const char*, int, int, int, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp:1586:27: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘long unsigned int’ [-Wsign-compare]
   1586 |         if((stop - start) >= sizeof(WordType))
        |            ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp: In function ‘SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1717:70: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 207 [-Wformat-truncation=]
   1717 |                     " AssignSS-Warning: Ignoring incomplete residue /%s/%s/%s/%d%c ...\n",
        |                                                                      ^~
  In file included from /usr/include/stdio.h:970,
                   from /usr/include/c++/15/cstdio:47,
                   from /usr/include/c++/15/ext/string_conversions.h:47,
                   from /usr/include/c++/15/bits/basic_string.h:4230,
                   from /usr/include/c++/15/string:56,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:20:
  In function ‘snprintf’,
      inlined from ‘SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Selector.cpp:1716:19:
  /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 59 and 324 bytes into a destination of size 255
     68 |   return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1,
        |          ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     69 |                                    __glibc_objsize (__s), __fmt,
        |                                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
     70 |                                    __va_arg_pack ());
        |                                    ~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp:23:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp: In function ‘void PyMOL_Stop(CPyMOL*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/MemoryDebug.h:74:32: warning: deleting object of polymorphic class type ‘CMovie’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
     74 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=nullptr;}}
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/PyMOL.cpp:2031:3: note: in expansion of macro ‘DeleteP’
   2031 |   DeleteP(G->Movie);
        |   ^~~~~~~
  [ 87%] Building CXX object CMakeFiles/_cmd.dir/layer5/main.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layer5/main.cpp.o -MF CMakeFiles/_cmd.dir/layer5/main.cpp.o.d -o CMakeFiles/_cmd.dir/layer5/main.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/main.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/TestPyMOL.cpp:35:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSpectrum(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, float, float, int, int, pymol::zstring_view, int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:4786:24: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation]
   4786 |                 strncpy(value_s, raw_ptr, sizeof(value_e));
        |                 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  [ 88%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In member function ‘CExecutive::drag(int, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15625:55: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=]
  15625 |                   sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n",
        |                                                       ^~
  15626 |                           order_input, (location == -2) ? "upper" : "current");
        |                           ~~~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:15625:26: note: ‘sprintf’ output between 32 and 1057 bytes into a destination of size 1024
  15625 |                   sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n",
        |                   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  15626 |                           order_input, (location == -2) ? "upper" : "current");
        |                           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5/main.cpp:53:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  [ 88%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test_Algorithm.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_Algorithm.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_Algorithm.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_Algorithm.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Algorithm.cpp
  [ 88%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test_Bezier.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_Bezier.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_Bezier.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_Bezier.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Bezier.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveManageObject(PyMOLGlobals*, pymol::CObject*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14601:37: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=]
  14601 |         " Executive-Warning: name \"%s\" collides with a selection language keyword.\n",
        |                                     ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 73 and 328 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14596:36: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=]
  14596 |         " Executive: object name \"%s\" is illegal -- renamed to 'all_'.\n", obj->Name
        |                                    ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 61 and 316 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14627:11: warning: ‘strcpy’ offset 0 is out of the bounds [0, 0] [-Warray-bounds=]
  14627 |     strcpy(rec->name, obj->Name);
        |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
  [ 89%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test_CCrystal.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_CCrystal.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_CCrystal.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_CCrystal.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_CCrystal.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveGroup(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:2275:40: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=]
   2275 |                   " Executive: adding '%s' to group '%s'.\n", rec.name, rec.group_name
        |                                        ^~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 36 and 546 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetName(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, bool)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:3535:41: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 222 [-Wformat-truncation=]
   3535 |       " Warning: Invalid characters in '%s' have been replaced or stripped\n",
        |                                         ^~
   3536 |       name ENDFB(G);
        |       ~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 67 and 322 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  [ 89%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test_CifFile.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_CifFile.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_CifFile.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_CifFile.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_CifFile.cpp
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5097:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 213 [-Wformat-truncation=]
   5097 |             " Executive: skipping unrecognized object \"%s\" of type %d.\n",
        |                                                         ^~
  In function ‘ExecutiveSetNamedEntries(PyMOLGlobals*, _object*, int, int, int)’,
      inlined from ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5727:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 56 and 321 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5122:58: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 210 [-Wformat-truncation=]
   5122 |           "ExectiveSetNamedEntries-Error: after object \"%s\".\n", rec->name ENDFB(G);
        |                                                          ^~
  In function ‘ExecutiveSetNamedEntries(PyMOLGlobals*, _object*, int, int, int)’,
      inlined from ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:5727:38:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/Feedback.h:274:15: note: ‘snprintf’ output between 49 and 304 bytes into a destination of size 255
    274 |     (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT,
        |               ^
  [ 90%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test_Classic_VLA.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_Classic_VLA.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_Classic_VLA.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_Classic_VLA.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Classic_VLA.cpp
  [ 90%] Building CXX object CMakeFiles/_cmd.dir/layerCTest/Test_Event.cpp.o
  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_Event.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_Event.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_Event.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Event.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_Executive.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_Executive.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_Executive.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Executive.cpp
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  /usr/bin/g++ -DMMTF_MSGPACK_USE_CPP11 -DMSGPACK_NO_BOOST -DPYMOL_OPENMP -D_HAVE_LIBXML -D_PYMOL_CTEST -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -D_PYMOL_VMD_PLUGINS -D_cmd_EXPORTS -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/include -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer2 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer4 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer5 -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/generated -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/mmtf-c -I/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest -I/usr/lib64/python3.13/site-packages/numpy/_core/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.13 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O3 -DNDEBUG -fPIC -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 -fopenmp -MD -MT CMakeFiles/_cmd.dir/layerCTest/Test_Image.cpp.o -MF CMakeFiles/_cmd.dir/layerCTest/Test_Image.cpp.o.d -o CMakeFiles/_cmd.dir/layerCTest/Test_Image.cpp.o -c /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Image.cpp
  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer1/Scene.h:29,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.h:36,
                   from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Executive.cpp:3:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Image.cpp: In function ‘void C_A_T_C_H_T_E_S_T_32()’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_Image.cpp:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
    187 |   for (int i = 0; i < img.getSizeInBytes(); i++) {
        |                   ~~^~~~~~~~~~~~~~~~~~~~~~
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  In file included from /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layerCTest/Test_ShaderPreprocessor.cpp:5:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h: In constructor ‘CShaderPrg::CShaderPrg(PyMOLGlobals*, const std::string&, const std::string&, const std::string&, pymol::copyable_ptr<GeometryShaderParams>, pymol::copyable_ptr<TessellationShaderParams>)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:65:49: warning: ‘CShaderPrg::tessParams’ will be initialized after [-Wreorder]
     65 |   pymol::copyable_ptr<TessellationShaderParams> tessParams;
        |                                                 ^~~~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:63:27: warning:   ‘const std::string CShaderPrg::vertfile’ [-Wreorder]
     63 |   const std::string name, vertfile, fragfile;
        |                           ^~~~~~~~
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ShaderMgr.h:73:3: warning:   when initialized here [-Wreorder]
     73 |   CShaderPrg(PyMOLGlobals* G_, const std::string& name,
        |   ^~~~~~~~~~
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  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src/OVContext.cpp: In function ‘void OVContext_Del(OVContext*)’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ov/src/OVContext.cpp:21:13: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable]
     21 |     OVHeap *heap = I->heap;
        |             ^~~~
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CMakeFiles/_cmd.dir/layer2/RepSphere.cpp.o CMakeFiles/_cmd.dir/layer2/RepSphereGenerate.cpp.o CMakeFiles/_cmd.dir/layer2/RepSphereImmediate.cpp.o CMakeFiles/_cmd.dir/layer2/RepSurface.cpp.o CMakeFiles/_cmd.dir/layer2/RepWireBond.cpp.o CMakeFiles/_cmd.dir/layer2/Sculpt.cpp.o CMakeFiles/_cmd.dir/layer2/SculptCache.cpp.o CMakeFiles/_cmd.dir/layer2/SideChainHelper.cpp.o CMakeFiles/_cmd.dir/layer2/VFont.cpp.o CMakeFiles/_cmd.dir/layer3/AtomIterators.cpp.o CMakeFiles/_cmd.dir/layer3/CifDataValueFormatter.cpp.o CMakeFiles/_c/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘recreate_command_line’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1334:11: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=]
   1334 |   line[0] = '\0';
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1333:26: note: destination object of size 0 allocated by ‘malloc’
   1333 |   line = (char *) malloc (sizeof(char) * len);
        |                          ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp: In function ‘ExecutiveManageObject’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer3/Executive.cpp:14627:11: warning: ‘strcpy’ writing between 1 and 256 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=]
  14627 |     strcpy(rec->name, obj->Name);
        |           ^
  lto1: note: destination object is likely at address zero
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [8, 12] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [16, 20] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [24, 28] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 4 into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 4 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 4 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 4 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [8, 12] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 8 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [8, 12] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 8 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [12, 16] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 12 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [12, 16] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 12 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [16, 20] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 16 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [16, 20] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 16 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [20, 24] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 20 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [20, 24] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 20 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1497:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [24, 28] into destination object ‘nx’ of size 4
   1494 |   int32_t nx, ny, nz;
        |           ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 24 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset [24, 28] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:11: note: at offset 24 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [8, 12] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [16, 20] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [24, 28] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 4 into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 4 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 4 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 4 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [8, 12] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 8 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [8, 12] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 8 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [12, 16] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 12 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [12, 16] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 12 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [16, 20] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 16 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [16, 20] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 16 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [20, 24] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 20 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [20, 24] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 20 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1498:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [24, 28] into destination object ‘ny’ of size 4
   1494 |   int32_t nx, ny, nz;
        |               ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 24 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset [24, 28] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:15: note: at offset 24 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [8, 12] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [16, 20] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [24, 28] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 4 into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 4 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 4 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 4 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [8, 12] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 8 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [8, 12] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 8 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [12, 16] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 12 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [12, 16] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 12 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [16, 20] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 16 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [16, 20] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 16 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [20, 24] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 20 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [20, 24] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 20 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_posn_momentum_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1499:24:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘handle_posn_momentum_v1’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [24, 28] into destination object ‘nz’ of size 4
   1494 |   int32_t nx, ny, nz;
        |                   ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 24 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset [24, 28] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1494:19: note: at offset 24 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [8, 12] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [16, 20] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [24, 28] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 4 into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 4 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 4 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 4 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [8, 12] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 8 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [8, 12] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 8 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [12, 16] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 12 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [12, 16] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 12 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [16, 20] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 16 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [16, 20] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 16 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [20, 24] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 20 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [20, 24] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 20 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1550:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [24, 28] into destination object ‘nx’ of size 4
   1548 |     int32_t nx, ny, nz;
        |             ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 24 into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset [24, 28] into destination object ‘nx’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:13: note: at offset 24 into destination object ‘nx’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [8, 12] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [16, 20] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [24, 28] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 4 into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 4 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 4 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 4 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [8, 12] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 8 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [8, 12] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 8 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [12, 16] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 12 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [12, 16] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 12 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [16, 20] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 16 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [16, 20] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 16 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [20, 24] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 20 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [20, 24] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 20 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1551:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [24, 28] into destination object ‘ny’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                 ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 24 into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset [24, 28] into destination object ‘ny’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:17: note: at offset 24 into destination object ‘ny’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 4 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [8, 12] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [16, 20] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 8 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [24, 28] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 4 into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 4 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 4 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 4 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [8, 12] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 8 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [8, 12] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 8 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [12, 16] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 12 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [12, 16] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 12 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [16, 20] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 16 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [16, 20] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 16 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [20, 24] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 20 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [20, 24] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 20 into destination object ‘nz’ of size 4
  In function ‘swap4_unaligned’,
      inlined from ‘get_float’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:615:36,
      inlined from ‘get_int32’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:606:10,
      inlined from ‘handle_wrapped_v1’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1552:26,
      inlined from ‘frame_from_bytes’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1751:29:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:54:16: warning: writing 4 bytes into a region of size 0 [-Wstringop-overflow=]
     54 |     dataptr[0] = dataptr[3];
        |                ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function ‘frame_from_bytes’:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [24, 28] into destination object ‘nz’ of size 4
   1548 |     int32_t nx, ny, nz;
        |                     ^
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 24 into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset [24, 28] into destination object ‘nz’ of size 4
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1548:21: note: at offset 24 into destination object ‘nz’ of size 4
  In member function ‘set_’,
      inlined from ‘__ct ’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array1d.h:119:6,
      inlined from ‘findBest’ at /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/layer0/ccealignmodule.cpp:506:28:
  /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/include/tnt/tnt_array1d.h:283:20: warning: ‘__builtin_memset’ specified bound between 18446744056529682432 and 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]
    283 |                 *p = a;
        |                    ^
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  copying modules/chempy/tinker/realtime.py -> build/lib.linux-x86_64-cpython-313/chempy/tinker
  copying modules/chempy/tinker/state.py -> build/lib.linux-x86_64-cpython-313/chempy/tinker
  creating build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/__init__.py -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  creating build/lib.linux-x86_64-cpython-313/pmg_qt/syntax
  copying modules/pmg_qt/syntax/__init__.py -> build/lib.linux-x86_64-cpython-313/pmg_qt/syntax
  copying modules/pmg_qt/syntax/pml.py -> build/lib.linux-x86_64-cpython-313/pmg_qt/syntax
  copying modules/pmg_qt/syntax/pmlparser.py -> build/lib.linux-x86_64-cpython-313/pmg_qt/syntax
  copying modules/pmg_qt/syntax/python.py -> build/lib.linux-x86_64-cpython-313/pmg_qt/syntax
  creating build/lib.linux-x86_64-cpython-313/pmg_tk/skins
  copying modules/pmg_tk/skins/__init__.py -> build/lib.linux-x86_64-cpython-313/pmg_tk/skins
  creating build/lib.linux-x86_64-cpython-313/pmg_tk/startup
  copying modules/pmg_tk/startup/__init__.py -> build/lib.linux-x86_64-cpython-313/pmg_tk/startup
  creating build/lib.linux-x86_64-cpython-313/pmg_tk/skins/demo
  copying modules/pmg_tk/skins/demo/__init__.py -> build/lib.linux-x86_64-cpython-313/pmg_tk/skins/demo
  creating build/lib.linux-x86_64-cpython-313/pmg_tk/skins/normal
  copying modules/pmg_tk/skins/normal/ModalWindow.py -> build/lib.linux-x86_64-cpython-313/pmg_tk/skins/normal
  copying modules/pmg_tk/skins/normal/__init__.py -> build/lib.linux-x86_64-cpython-313/pmg_tk/skins/normal
  copying modules/pmg_tk/skins/normal/builder.py -> build/lib.linux-x86_64-cpython-313/pmg_tk/skins/normal
  creating build/lib.linux-x86_64-cpython-313/pymol/Qt
  copying modules/pymol/Qt/__init__.py -> build/lib.linux-x86_64-cpython-313/pymol/Qt
  copying modules/pymol/Qt/utils.py -> build/lib.linux-x86_64-cpython-313/pymol/Qt
  creating build/lib.linux-x86_64-cpython-313/pymol/plugins
  copying modules/pymol/plugins/__init__.py -> build/lib.linux-x86_64-cpython-313/pymol/plugins
  copying modules/pymol/plugins/installation.py -> build/lib.linux-x86_64-cpython-313/pymol/plugins
  copying modules/pymol/plugins/legacysupport.py -> build/lib.linux-x86_64-cpython-313/pymol/plugins
  copying modules/pymol/plugins/managergui.py -> build/lib.linux-x86_64-cpython-313/pymol/plugins
  copying modules/pymol/plugins/managergui_qt.py -> build/lib.linux-x86_64-cpython-313/pymol/plugins
  copying modules/pymol/plugins/repository.py -> build/lib.linux-x86_64-cpython-313/pymol/plugins
  creating build/lib.linux-x86_64-cpython-313/pymol/stereochemistry
  copying modules/pymol/stereochemistry/__init__.py -> build/lib.linux-x86_64-cpython-313/pymol/stereochemistry
  creating build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/__init__.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/annotation.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/appearance.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/benchmark.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/box.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/charge.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/cleanup.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/command.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/demo.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/density.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/distance.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/dragging.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/filter.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/label.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/measurement.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/message.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/mutagenesis.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/nucmutagenesis.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/openvr.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/pair_fit.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/pseudoatom.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/renaming.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/sculpting.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/security.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/stereodemo.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  copying modules/pymol/wizard/toggle.py -> build/lib.linux-x86_64-cpython-313/pymol/wizard
  creating build/lib.linux-x86_64-cpython-313/web
  creating build/lib.linux-x86_64-cpython-313/web/examples
  copying modules/web/examples/__init__.py -> build/lib.linux-x86_64-cpython-313/web/examples
  copying modules/web/examples/justhttpd.py -> build/lib.linux-x86_64-cpython-313/web/examples
  creating build/lib.linux-x86_64-cpython-313/pymol_web
  creating build/lib.linux-x86_64-cpython-313/pymol_web/examples
  copying modules/pymol_web/examples/__init__.py -> build/lib.linux-x86_64-cpython-313/pymol_web/examples
  copying modules/pymol_web/examples/justhttpd.py -> build/lib.linux-x86_64-cpython-313/pymol_web/examples
  running egg_info
  creating modules/pymol.egg-info
  writing modules/pymol.egg-info/PKG-INFO
  /usr/lib/python3.13/site-packages/setuptools/_core_metadata.py:161: SetuptoolsDeprecationWarning: Invalid config.
  !!
          ********************************************************************************
          newlines are not allowed in `summary` and will break in the future
          ********************************************************************************
  !!
    write_field('Summary', single_line(summary))
  writing dependency_links to modules/pymol.egg-info/dependency_links.txt
  writing entry points to modules/pymol.egg-info/entry_points.txt
  writing requirements to modules/pymol.egg-info/requires.txt
  writing top-level names to modules/pymol.egg-info/top_level.txt
  writing manifest file 'modules/pymol.egg-info/SOURCES.txt'
  reading manifest file 'modules/pymol.egg-info/SOURCES.txt'
  adding license file 'LICENSE'
  adding license file 'AUTHORS'
  writing manifest file 'modules/pymol.egg-info/SOURCES.txt'
  copying modules/pmg_qt/forms/askpartial.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/change_confirm.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/colors.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/create_shortcut.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/fetch.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/help_shortcut.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_aln.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_mae.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_map.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_mtz.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/load_traj.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/movieexport.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/pluginitem.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/pluginmanager.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/png.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/props.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/render.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/save_molecule.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/save_object.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  copying modules/pmg_qt/forms/shortcut_menu.ui -> build/lib.linux-x86_64-cpython-313/pmg_qt/forms
  running build_ext
  cmake /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 -DTARGET_NAME=_cmd -DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/lib.linux-x86_64-cpython-313/pymol -DCMAKE_BUILD_TYPE=Release -DALL_INC_DIR=include;contrib/uiuc/plugins/include;ov/src;layer0;layer1;layer2;layer3;layer4;layer5;build/generated;contrib/uiuc/plugins/molfile_plugin/src;contrib/mmtf-c;layerCTest;/usr/lib64/python3.13/site-packages/numpy/_core/include;/usr/include;/usr/include/freetype2;/usr/include/libxml2;/usr/include/python3.13;/usr/include/python3.13; -DALL_SRC=build/generated/ShaderText.cpp;contrib/mmtf-c/mmtf_parser.cpp;contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c;contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c;contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c;contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c;contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/carplugin.c;contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/corplugin.c;contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c;contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c;contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c;contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c;contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/hash.c;contrib/uiuc/plugins/molfile_plugin/src/inthash.c;contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c;contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c;contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c;contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c;contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c;contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c;contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c;contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c;contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp;contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c;layer0/Bezier.cpp;layer0/Block.cpp;layer0/CarveHelper.cpp;layer0/ContourSurf.cpp;layer0/Crystal.cpp;layer0/Err.cpp;layer0/Feedback.cpp;layer0/Field.cpp;layer0/File.cpp;layer0/GFXManager.cpp;layer0/GenericBuffer.cpp;layer0/GraphicsUtil.cpp;layer0/Isosurf.cpp;layer0/Map.cpp;layer0/Match.cpp;layer0/Matrix.cpp;layer0/MemoryDebug.cpp;layer0/MemoryUsage.cpp;layer0/MyPNG.cpp;layer0/Parse.cpp;layer0/Pixmap.cpp;layer0/PostProcess.cpp;layer0/PrintUtils.cpp;layer0/ShaderMgr.cpp;layer0/ShaderPreprocessor.cpp;layer0/ShaderPrg.cpp;layer0/Sphere.cpp;layer0/TTT.cpp;layer0/Tetsurf.cpp;layer0/Texture.cpp;layer0/Tracker.cpp;layer0/Triangle.cpp;layer0/Util.cpp;layer0/Util2.cpp;layer0/Vector.cpp;layer0/Word.cpp;layer0/ccealignmodule.cpp;layer0/marching_cubes.cpp;layer0/os_gl.cpp;layer1/Basis.cpp;layer1/ButMode.cpp;layer1/CGO.cpp;layer1/CGOGL.cpp;layer1/CGORenderer.cpp;layer1/COLLADA.cpp;layer1/Camera.cpp;layer1/Character.cpp;layer1/Color.cpp;layer1/Control.cpp;layer1/Extrude.cpp;layer1/Font.cpp;layer1/FontGLUT.cpp;layer1/FontGLUT8x13.cpp;layer1/FontGLUT9x15.cpp;layer1/FontGLUTHel10.cpp;layer1/FontGLUTHel12.cpp;layer1/FontGLUTHel18.cpp;layer1/FontType.cpp;layer1/ImageUtils.cpp;layer1/Movie.cpp;layer1/Ortho.cpp;layer1/P.cpp;layer1/PConv.cpp;layer1/Pick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-DALL_DEF=_PYMOL_LIBPNG;_PYMOL_FREETYPE;PYMOL_OPENMP;_PYMOL_VMD_PLUGINS;_HAVE_LIBXML;MMTF_MSGPACK_USE_CPP11;MSGPACK_NO_BOOST;_PYMOL_NO_MAIN;_PYMOL_CTEST;_PYMOL_NUMPY; -DALL_LIB_DIR=/usr/lib64;/usr/lib; -DALL_LIB=png;freetype;xml2;GL;GLEW;netcdf; -DALL_COMP_ARGS=-Werror=return-type;-Wunused-variable;-Wno-switch;-Wno-narrowing;-Wno-char-subscripts;-O3;-fopenmp; -DALL_EXT_LINK=-fopenmp -DSHARED_SUFFIX=.cpython-313-x86_64-linux-gnu.so
  -- Configuring done (0.0s)
  -- Generating done (0.0s)
  -- Build files have been written to: /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd
  cmake --build . --config Release -j6
  /usr/bin/cmake -S/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 -B/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd --check-build-system CMakeFiles/Makefile.cmake 0
  /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd/CMakeFiles /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd//CMakeFiles/progress.marks
  /usr/bin/gmake  -f CMakeFiles/Makefile2 all
  gmake[1]: Entering directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd'
  /usr/bin/gmake  -f CMakeFiles/_cmd.dir/build.make CMakeFiles/_cmd.dir/depend
  gmake[2]: Entering directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd'
  cd /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd/CMakeFiles/_cmd.dir/DependInfo.cmake "--color="
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  /usr/bin/gmake  -f CMakeFiles/_cmd.dir/build.make CMakeFiles/_cmd.dir/build
  gmake[2]: Entering directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd'
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  /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_cmd/CMakeFiles 0
  cmake /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 -DTARGET_NAME=_champ -DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/lib.linux-x86_64-cpython-313/chempy/champ -DCMAKE_BUILD_TYPE=Release -DALL_INC_DIR=contrib/champ;/usr/include/python3.13;/usr/include/python3.13; -DALL_SRC=contrib/champ/champ.c;contrib/champ/champ_module.c;contrib/champ/chiral.c;contrib/champ/err2.c;contrib/champ/feedback2.c;contrib/champ/list.c;contrib/champ/os_memory.c;contrib/champ/sort.c;contrib/champ/strblock.c;contrib/champ/vla.c; -DALL_DEF= -DALL_LIB_DIR=/usr/lib64;/usr/lib; -DALL_LIB= -DALL_COMP_ARGS= -DALL_EXT_LINK= -DSHARED_SUFFIX=.cpython-313-x86_64-linux-gnu.so
  -- Configuring done (0.0s)
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  -- Build files have been written to: /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ
  cmake --build . --config Release -j6
  /usr/bin/cmake -S/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 -B/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ --check-build-system CMakeFiles/Makefile.cmake 0
  /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ/CMakeFiles /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ//CMakeFiles/progress.marks
  /usr/bin/gmake  -f CMakeFiles/Makefile2 all
  gmake[1]: Entering directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ'
  /usr/bin/gmake  -f CMakeFiles/_champ.dir/build.make CMakeFiles/_champ.dir/depend
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  cd /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0 /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ/CMakeFiles/_champ.dir/DependInfo.cmake "--color="
  gmake[2]: Leaving directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ'
  /usr/bin/gmake  -f CMakeFiles/_champ.dir/build.make CMakeFiles/_champ.dir/build
  gmake[2]: Entering directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ'
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  [100%] Built target _champ
  gmake[1]: Leaving directory '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ'
  /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/build/temp.linux-x86_64-cpython-313/_champ/CMakeFiles 0
  installing to build/bdist.linux-x86_64/wheel
  running install
  running install_lib
  creating build/bdist.linux-x86_64
  creating build/bdist.linux-x86_64/wheel
  creating build/bdist.linux-x86_64/wheel/pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/_cmd.cpython-313-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/__init__.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/__main__.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/_gui.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/api.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/callback.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/cgo.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/cgobuilder.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/checking.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/cmd.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/colorprinting.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/colorramping.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/commanding.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/completing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/computing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/constants.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/constants_palette.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/controlling.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/creating.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/diagnosing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/editing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/editor.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/experimenting.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/exporting.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/externing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/feedingback.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/fitting.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/gui.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/headering.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/helping.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/importing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/internal.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/invocation.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/keyboard.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/keywords.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/lazyio.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/locking.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/menu.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/monitoring.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/morphing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/movie.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/moving.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/mpeg_encode.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/parser.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/parsing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/povray.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/preset.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/pymolhttpd.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/querying.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/rpc.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/save_shortcut.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/selecting.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/selector.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/seqalign.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/setting.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/shortcut.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/shortcut_dict.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/shortcut_manager.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/util.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/vfont.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/viewing.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/wizarding.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/xray.py -> build/bdist.linux-x86_64/wheel/./pymol
  copying build/lib.linux-x86_64-cpython-313/pymol/xwin.py -> build/bdist.linux-x86_64/wheel/./pymol
  creating build/bdist.linux-x86_64/wheel/pymol/Qt
  copying build/lib.linux-x86_64-cpython-313/pymol/Qt/__init__.py -> build/bdist.linux-x86_64/wheel/./pymol/Qt
  copying build/lib.linux-x86_64-cpython-313/pymol/Qt/utils.py -> build/bdist.linux-x86_64/wheel/./pymol/Qt
  creating build/bdist.linux-x86_64/wheel/pymol/plugins
  copying build/lib.linux-x86_64-cpython-313/pymol/plugins/__init__.py -> build/bdist.linux-x86_64/wheel/./pymol/plugins
  copying build/lib.linux-x86_64-cpython-313/pymol/plugins/installation.py -> build/bdist.linux-x86_64/wheel/./pymol/plugins
  copying build/lib.linux-x86_64-cpython-313/pymol/plugins/legacysupport.py -> build/bdist.linux-x86_64/wheel/./pymol/plugins
  copying build/lib.linux-x86_64-cpython-313/pymol/plugins/managergui.py -> build/bdist.linux-x86_64/wheel/./pymol/plugins
  copying build/lib.linux-x86_64-cpython-313/pymol/plugins/managergui_qt.py -> build/bdist.linux-x86_64/wheel/./pymol/plugins
  copying build/lib.linux-x86_64-cpython-313/pymol/plugins/repository.py -> build/bdist.linux-x86_64/wheel/./pymol/plugins
  creating build/bdist.linux-x86_64/wheel/pymol/stereochemistry
  copying build/lib.linux-x86_64-cpython-313/pymol/stereochemistry/__init__.py -> build/bdist.linux-x86_64/wheel/./pymol/stereochemistry
  creating build/bdist.linux-x86_64/wheel/pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/__init__.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/annotation.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/appearance.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/benchmark.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/box.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/charge.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/cleanup.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/command.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/demo.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/density.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/distance.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/dragging.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/filter.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/label.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/measurement.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/message.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/mutagenesis.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/nucmutagenesis.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/openvr.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/pair_fit.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/pseudoatom.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/renaming.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/sculpting.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/security.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/stereodemo.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  copying build/lib.linux-x86_64-cpython-313/pymol/wizard/toggle.py -> build/bdist.linux-x86_64/wheel/./pymol/wizard
  creating build/bdist.linux-x86_64/wheel/chempy
  creating build/bdist.linux-x86_64/wheel/chempy/champ
  copying build/lib.linux-x86_64-cpython-313/chempy/champ/_champ.cpython-313-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/wheel/./chempy/champ
  copying build/lib.linux-x86_64-cpython-313/chempy/champ/__init__.py -> build/bdist.linux-x86_64/wheel/./chempy/champ
  copying build/lib.linux-x86_64-cpython-313/chempy/champ/amber99.py -> build/bdist.linux-x86_64/wheel/./chempy/champ
  copying build/lib.linux-x86_64-cpython-313/chempy/champ/assign.py -> build/bdist.linux-x86_64/wheel/./chempy/champ
  copying build/lib.linux-x86_64-cpython-313/chempy/champ/formal_charges.py -> build/bdist.linux-x86_64/wheel/./chempy/champ
  copying build/lib.linux-x86_64-cpython-313/chempy/__init__.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/arc.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/bond_amber.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/bond_mmff.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/bonds.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/brick.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/cc1.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/charge.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/cif.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/cpv.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/dictdb.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/gamess1.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/gms.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/hetatm.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/io.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/lst.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/mae.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/map.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/mass.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/mmd.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/models.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/mol.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/mol2.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/neighbor.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/pdb.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/pkl.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/place.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/protein.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/protein_amber.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/protein_amber99.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/protein_mmff.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/protein_residues.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/sdf.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/solvate.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/water_amber.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/water_residues.py -> build/bdist.linux-x86_64/wheel/./chempy
  copying build/lib.linux-x86_64-cpython-313/chempy/xyz.py -> build/bdist.linux-x86_64/wheel/./chempy
  creating build/bdist.linux-x86_64/wheel/chempy/bmin
  copying build/lib.linux-x86_64-cpython-313/chempy/bmin/__init__.py -> build/bdist.linux-x86_64/wheel/./chempy/bmin
  copying build/lib.linux-x86_64-cpython-313/chempy/bmin/commands.py -> build/bdist.linux-x86_64/wheel/./chempy/bmin
  copying build/lib.linux-x86_64-cpython-313/chempy/bmin/realtime.py -> build/bdist.linux-x86_64/wheel/./chempy/bmin
  copying build/lib.linux-x86_64-cpython-313/chempy/bmin/state.py -> build/bdist.linux-x86_64/wheel/./chempy/bmin
  copying build/lib.linux-x86_64-cpython-313/chempy/bmin/util.py -> build/bdist.linux-x86_64/wheel/./chempy/bmin
  creating build/bdist.linux-x86_64/wheel/chempy/fast
  copying build/lib.linux-x86_64-cpython-313/chempy/fast/__init__.py -> build/bdist.linux-x86_64/wheel/./chempy/fast
  creating build/bdist.linux-x86_64/wheel/chempy/fragments
  copying build/lib.linux-x86_64-cpython-313/chempy/fragments/__init__.py -> build/bdist.linux-x86_64/wheel/./chempy/fragments
  creating build/bdist.linux-x86_64/wheel/chempy/mmtf
  copying build/lib.linux-x86_64-cpython-313/chempy/mmtf/__init__.py -> build/bdist.linux-x86_64/wheel/./chempy/mmtf
  copying build/lib.linux-x86_64-cpython-313/chempy/mmtf/io.py -> build/bdist.linux-x86_64/wheel/./chempy/mmtf
  creating build/bdist.linux-x86_64/wheel/chempy/tinker
  copying build/lib.linux-x86_64-cpython-313/chempy/tinker/__init__.py -> build/bdist.linux-x86_64/wheel/./chempy/tinker
  copying build/lib.linux-x86_64-cpython-313/chempy/tinker/amber.py -> build/bdist.linux-x86_64/wheel/./chempy/tinker
  copying build/lib.linux-x86_64-cpython-313/chempy/tinker/keyword.py -> build/bdist.linux-x86_64/wheel/./chempy/tinker
  copying build/lib.linux-x86_64-cpython-313/chempy/tinker/realtime.py -> build/bdist.linux-x86_64/wheel/./chempy/tinker
  copying build/lib.linux-x86_64-cpython-313/chempy/tinker/state.py -> build/bdist.linux-x86_64/wheel/./chempy/tinker
  creating build/bdist.linux-x86_64/wheel/pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/TextEditor.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/__init__.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/advanced_settings_gui.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/builder.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/file_dialogs.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/keymapping.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/mimic_pmg_tk.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/mimic_tk.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/properties_dialog.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/pymol_gl_widget.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/pymol_qt_gui.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/scene_bin_gui.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/shortcut_menu_gui.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/volume.py -> build/bdist.linux-x86_64/wheel/./pmg_qt
  creating build/bdist.linux-x86_64/wheel/pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/__init__.py -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/askpartial.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/change_confirm.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/colors.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/create_shortcut.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/fetch.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/help_shortcut.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/load_aln.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/load_mae.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/load_map.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/load_mtz.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/load_traj.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/movieexport.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/pluginitem.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/pluginmanager.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/png.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/props.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/render.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/save_molecule.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/save_object.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/forms/shortcut_menu.ui -> build/bdist.linux-x86_64/wheel/./pmg_qt/forms
  creating build/bdist.linux-x86_64/wheel/pmg_qt/syntax
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/syntax/__init__.py -> build/bdist.linux-x86_64/wheel/./pmg_qt/syntax
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/syntax/pml.py -> build/bdist.linux-x86_64/wheel/./pmg_qt/syntax
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/syntax/pmlparser.py -> build/bdist.linux-x86_64/wheel/./pmg_qt/syntax
  copying build/lib.linux-x86_64-cpython-313/pmg_qt/syntax/python.py -> build/bdist.linux-x86_64/wheel/./pmg_qt/syntax
  creating build/bdist.linux-x86_64/wheel/pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/ColorEditor.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/Demo.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/PyMOLMapLoad.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/SetEditor.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/Setting.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/TextEditor.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/__init__.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/volume.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/PMGApp.py -> build/bdist.linux-x86_64/wheel/./pmg_tk
  creating build/bdist.linux-x86_64/wheel/pmg_tk/skins
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/skins/__init__.py -> build/bdist.linux-x86_64/wheel/./pmg_tk/skins
  creating build/bdist.linux-x86_64/wheel/pmg_tk/skins/demo
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/skins/demo/__init__.py -> build/bdist.linux-x86_64/wheel/./pmg_tk/skins/demo
  creating build/bdist.linux-x86_64/wheel/pmg_tk/skins/normal
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/skins/normal/ModalWindow.py -> build/bdist.linux-x86_64/wheel/./pmg_tk/skins/normal
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/skins/normal/__init__.py -> build/bdist.linux-x86_64/wheel/./pmg_tk/skins/normal
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/skins/normal/builder.py -> build/bdist.linux-x86_64/wheel/./pmg_tk/skins/normal
  creating build/bdist.linux-x86_64/wheel/pmg_tk/startup
  copying build/lib.linux-x86_64-cpython-313/pmg_tk/startup/__init__.py -> build/bdist.linux-x86_64/wheel/./pmg_tk/startup
  creating build/bdist.linux-x86_64/wheel/pymol2
  copying build/lib.linux-x86_64-cpython-313/pymol2/__init__.py -> build/bdist.linux-x86_64/wheel/./pymol2
  copying build/lib.linux-x86_64-cpython-313/pymol2/cmd2.py -> build/bdist.linux-x86_64/wheel/./pymol2
  creating build/bdist.linux-x86_64/wheel/web
  creating build/bdist.linux-x86_64/wheel/web/examples
  copying build/lib.linux-x86_64-cpython-313/web/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./web/examples
  copying build/lib.linux-x86_64-cpython-313/web/examples/justhttpd.py -> build/bdist.linux-x86_64/wheel/./web/examples
  creating build/bdist.linux-x86_64/wheel/pymol_web
  creating build/bdist.linux-x86_64/wheel/pymol_web/examples
  copying build/lib.linux-x86_64-cpython-313/pymol_web/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./pymol_web/examples
  copying build/lib.linux-x86_64-cpython-313/pymol_web/examples/justhttpd.py -> build/bdist.linux-x86_64/wheel/./pymol_web/examples
  running install_egg_info
  Copying modules/pymol.egg-info to build/bdist.linux-x86_64/wheel/./pymol-3.1.0-py3.13.egg-info
  running install_scripts
  creating build/bdist.linux-x86_64/wheel/pymol/pymol_path
  copying LICENSE -> build/bdist.linux-x86_64/wheel/./pymol/pymol_path
  copying data -> build/bdist.linux-x86_64/wheel/./pymol/pymol_path/data
  copying test -> build/bdist.linux-x86_64/wheel/./pymol/pymol_path/test
  copying examples -> build/bdist.linux-x86_64/wheel/./pymol/pymol_path/examples
  creating build/bdist.linux-x86_64/wheel/pymol-3.1.0.data
  creating build/bdist.linux-x86_64/wheel/pymol-3.1.0.data/scripts
  creating build/bdist.linux-x86_64/wheel/pymol-3.1.0.dist-info/WHEEL
  creating '/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir/pip-modern-metadata-f1gfz91h/.tmp-nyhzsbjp/pymol-3.1.0-cp313-cp313-linux_x86_64.whl' and adding 'build/bdist.linux-x86_64/wheel' to it
  adding 'chempy/__init__.py'
  adding 'chempy/arc.py'
  adding 'chempy/bond_amber.py'
  adding 'chempy/bond_mmff.py'
  adding 'chempy/bonds.py'
  adding 'chempy/brick.py'
  adding 'chempy/cc1.py'
  adding 'chempy/charge.py'
  adding 'chempy/cif.py'
  adding 'chempy/cpv.py'
  adding 'chempy/dictdb.py'
  adding 'chempy/gamess1.py'
  adding 'chempy/gms.py'
  adding 'chempy/hetatm.py'
  adding 'chempy/io.py'
  adding 'chempy/lst.py'
  adding 'chempy/mae.py'
  adding 'chempy/map.py'
  adding 'chempy/mass.py'
  adding 'chempy/mmd.py'
  adding 'chempy/models.py'
  adding 'chempy/mol.py'
  adding 'chempy/mol2.py'
  adding 'chempy/neighbor.py'
  adding 'chempy/pdb.py'
  adding 'chempy/pkl.py'
  adding 'chempy/place.py'
  adding 'chempy/protein.py'
  adding 'chempy/protein_amber.py'
  adding 'chempy/protein_amber99.py'
  adding 'chempy/protein_mmff.py'
  adding 'chempy/protein_residues.py'
  adding 'chempy/sdf.py'
  adding 'chempy/solvate.py'
  adding 'chempy/water_amber.py'
  adding 'chempy/water_residues.py'
  adding 'chempy/xyz.py'
  adding 'chempy/bmin/__init__.py'
  adding 'chempy/bmin/commands.py'
  adding 'chempy/bmin/realtime.py'
  adding 'chempy/bmin/state.py'
  adding 'chempy/bmin/util.py'
  adding 'chempy/champ/__init__.py'
  adding 'chempy/champ/_champ.cpython-313-x86_64-linux-gnu.so'
  adding 'chempy/champ/amber99.py'
  adding 'chempy/champ/assign.py'
  adding 'chempy/champ/formal_charges.py'
  adding 'chempy/fast/__init__.py'
  adding 'chempy/fragments/__init__.py'
  adding 'chempy/mmtf/__init__.py'
  adding 'chempy/mmtf/io.py'
  adding 'chempy/tinker/__init__.py'
  adding 'chempy/tinker/amber.py'
  adding 'chempy/tinker/keyword.py'
  adding 'chempy/tinker/realtime.py'
  adding 'chempy/tinker/state.py'
  adding 'pmg_qt/TextEditor.py'
  adding 'pmg_qt/__init__.py'
  adding 'pmg_qt/advanced_settings_gui.py'
  adding 'pmg_qt/builder.py'
  adding 'pmg_qt/file_dialogs.py'
  adding 'pmg_qt/keymapping.py'
  adding 'pmg_qt/mimic_pmg_tk.py'
  adding 'pmg_qt/mimic_tk.py'
  adding 'pmg_qt/properties_dialog.py'
  adding 'pmg_qt/pymol_gl_widget.py'
  adding 'pmg_qt/pymol_qt_gui.py'
  adding 'pmg_qt/scene_bin_gui.py'
  adding 'pmg_qt/shortcut_menu_gui.py'
  adding 'pmg_qt/volume.py'
  adding 'pmg_qt/forms/__init__.py'
  adding 'pmg_qt/forms/askpartial.ui'
  adding 'pmg_qt/forms/change_confirm.ui'
  adding 'pmg_qt/forms/colors.ui'
  adding 'pmg_qt/forms/create_shortcut.ui'
  adding 'pmg_qt/forms/fetch.ui'
  adding 'pmg_qt/forms/help_shortcut.ui'
  adding 'pmg_qt/forms/load_aln.ui'
  adding 'pmg_qt/forms/load_mae.ui'
  adding 'pmg_qt/forms/load_map.ui'
  adding 'pmg_qt/forms/load_mtz.ui'
  adding 'pmg_qt/forms/load_traj.ui'
  adding 'pmg_qt/forms/movieexport.ui'
  adding 'pmg_qt/forms/pluginitem.ui'
  adding 'pmg_qt/forms/pluginmanager.ui'
  adding 'pmg_qt/forms/png.ui'
  adding 'pmg_qt/forms/props.ui'
  adding 'pmg_qt/forms/render.ui'
  adding 'pmg_qt/forms/save_molecule.ui'
  adding 'pmg_qt/forms/save_object.ui'
  adding 'pmg_qt/forms/shortcut_menu.ui'
  adding 'pmg_qt/syntax/__init__.py'
  adding 'pmg_qt/syntax/pml.py'
  adding 'pmg_qt/syntax/pmlparser.py'
  adding 'pmg_qt/syntax/python.py'
  adding 'pmg_tk/ColorEditor.py'
  adding 'pmg_tk/Demo.py'
  adding 'pmg_tk/PMGApp.py'
  adding 'pmg_tk/PyMOLMapLoad.py'
  adding 'pmg_tk/SetEditor.py'
  adding 'pmg_tk/Setting.py'
  adding 'pmg_tk/TextEditor.py'
  adding 'pmg_tk/__init__.py'
  adding 'pmg_tk/volume.py'
  adding 'pmg_tk/skins/__init__.py'
  adding 'pmg_tk/skins/demo/__init__.py'
  adding 'pmg_tk/skins/normal/ModalWindow.py'
  adding 'pmg_tk/skins/normal/__init__.py'
  adding 'pmg_tk/skins/normal/builder.py'
  adding 'pmg_tk/startup/__init__.py'
  adding 'pymol/__init__.py'
  adding 'pymol/__main__.py'
  adding 'pymol/_cmd.cpython-313-x86_64-linux-gnu.so'
  adding 'pymol/_gui.py'
  adding 'pymol/api.py'
  adding 'pymol/callback.py'
  adding 'pymol/cgo.py'
  adding 'pymol/cgobuilder.py'
  adding 'pymol/checking.py'
  adding 'pymol/cmd.py'
  adding 'pymol/colorprinting.py'
  adding 'pymol/colorramping.py'
  adding 'pymol/commanding.py'
  adding 'pymol/completing.py'
  adding 'pymol/computing.py'
  adding 'pymol/constants.py'
  adding 'pymol/constants_palette.py'
  adding 'pymol/controlling.py'
  adding 'pymol/creating.py'
  adding 'pymol/diagnosing.py'
  adding 'pymol/editing.py'
  adding 'pymol/editor.py'
  adding 'pymol/experimenting.py'
  adding 'pymol/exporting.py'
  adding 'pymol/externing.py'
  adding 'pymol/feedingback.py'
  adding 'pymol/fitting.py'
  adding 'pymol/gui.py'
  adding 'pymol/headering.py'
  adding 'pymol/helping.py'
  adding 'pymol/importing.py'
  adding 'pymol/internal.py'
  adding 'pymol/invocation.py'
  adding 'pymol/keyboard.py'
  adding 'pymol/keywords.py'
  adding 'pymol/lazyio.py'
  adding 'pymol/locking.py'
  adding 'pymol/menu.py'
  adding 'pymol/monitoring.py'
  adding 'pymol/morphing.py'
  adding 'pymol/movie.py'
  adding 'pymol/moving.py'
  adding 'pymol/mpeg_encode.py'
  adding 'pymol/parser.py'
  adding 'pymol/parsing.py'
  adding 'pymol/povray.py'
  adding 'pymol/preset.py'
  adding 'pymol/pymolhttpd.py'
  adding 'pymol/querying.py'
  adding 'pymol/rpc.py'
  adding 'pymol/save_shortcut.py'
  adding 'pymol/selecting.py'
  adding 'pymol/selector.py'
  adding 'pymol/seqalign.py'
  adding 'pymol/setting.py'
  adding 'pymol/shortcut.py'
  adding 'pymol/shortcut_dict.py'
  adding 'pymol/shortcut_manager.py'
  adding 'pymol/util.py'
  adding 'pymol/vfont.py'
  adding 'pymol/viewing.py'
  adding 'pymol/wizarding.py'
  adding 'pymol/xray.py'
  adding 'pymol/xwin.py'
  adding 'pymol/Qt/__init__.py'
  adding 'pymol/Qt/utils.py'
  adding 'pymol/plugins/__init__.py'
  adding 'pymol/plugins/installation.py'
  adding 'pymol/plugins/legacysupport.py'
  adding 'pymol/plugins/managergui.py'
  adding 'pymol/plugins/managergui_qt.py'
  adding 'pymol/plugins/repository.py'
  adding 'pymol/pymol_path/LICENSE'
  adding 'pymol/pymol_path/data/chem_comp_bond-top100.cif'
  adding 'pymol/pymol_path/data/setting_help.csv'
  adding 'pymol/pymol_path/data/chempy/water.pdb'
  adding 'pymol/pymol_path/data/chempy/fragments/ace.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/acetylene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ala.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/arg.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/argn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/asn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/asp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/asph.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atp_ttpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/atp_ttpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/benzene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/benzocycloheptane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/butane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_ala.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_arg.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_argn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_asn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_asp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_asph.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_cys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_gln.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_glu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_gluh.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_gly.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_hid.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_hie.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_hip.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_his.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_ile.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_leu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_lys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_lysn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_met.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_phe.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_pro.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_ser.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_thr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_trp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_tyr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ct_val.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctp_gtpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ctp_gtpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyanide.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclobutane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cycloheptane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclohexane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclopentadiene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclopentane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cyclopropane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/cys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ethylene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/formaldehyde.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/formamide.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/formic.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gln.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/glu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gluh.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gly.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtp_ctpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/gtp_ctpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/hid.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/hie.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/hip.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/his.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ile.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/indane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/leu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/lys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/lysn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/met.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/methane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/methanol.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/napthylene.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nhh.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nitro.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nme.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_ala.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_arg.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_argn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_asn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_asp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_asph.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_cys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_gln.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_glu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_gluh.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_gly.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_hid.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_hie.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_hip.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_his.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_ile.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_leu.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_lys.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_lysn.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_met.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_phe.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_pro.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_ser.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_thr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_trp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_tyr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/nt_val.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/peptide.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/phe.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/phosphite.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/pro.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/realtime.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ser.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/sulfone.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/thr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/trifluoromethane.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/trp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttp_atpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/ttp_atpB.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/tyr.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/utp.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/utpA.pkl'
  adding 'pymol/pymol_path/data/chempy/fragments/val.pkl'
  adding 'pymol/pymol_path/data/chempy/sidechains/generate1.py'
  adding 'pymol/pymol_path/data/chempy/sidechains/generate2.py'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_bb_dep.pkl'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_bb_dep.py'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_bb_ind.pkl'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_bb_ind.py'
  adding 'pymol/pymol_path/data/chempy/sidechains/sc_library.pkl'
  adding 'pymol/pymol_path/data/chempy/tinker/Makefile.delsci'
  adding 'pymol/pymol_path/data/chempy/tinker/chempy.prm'
  adding 'pymol/pymol_path/data/chempy/tinker/make99_simple.py'
  adding 'pymol/pymol_path/data/chempy/tinker/make_simple.py'
  adding 'pymol/pymol_path/data/chempy/tinker/parm94.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm94_rsm.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm96.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm96_rsm.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm99.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm99_simple.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm99_wld.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm_simple.dat'
  adding 'pymol/pymol_path/data/chempy/tinker/parm_simple.inp'
  adding 'pymol/pymol_path/data/demo/1hpv.r3d'
  adding 'pymol/pymol_path/data/demo/1tii.pdb'
  adding 'pymol/pymol_path/data/demo/cgo03.py'
  adding 'pymol/pymol_path/data/demo/il2.pdb'
  adding 'pymol/pymol_path/data/demo/pept.pdb'
  adding 'pymol/pymol_path/data/demo/pept.pkl'
  adding 'pymol/pymol_path/data/openvr/actions.json'
  adding 'pymol/pymol_path/data/openvr/bindings_vive_controller.json'
  adding 'pymol/pymol_path/data/openvr/hints_vive_controller.png'
  adding 'pymol/pymol_path/data/openvr/hints_vive_controller.svg'
  adding 'pymol/pymol_path/data/openvr/menu_splash.png'
  adding 'pymol/pymol_path/data/openvr/menu_splash.svg'
  adding 'pymol/pymol_path/data/pmg_qt/icons/refresh.svg'
  adding 'pymol/pymol_path/data/pmg_qt/styles/pymol.sty'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro5.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro5.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro6.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro6.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro65.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro65.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro66.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro66.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro67.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro67.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc3.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc3.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc4.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc4.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc5.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc5.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc6.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc6.xbm'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc7.gif'
  adding 'pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc7.xbm'
  adding 'pymol/pymol_path/data/pymol/cmyk.png'
  adding 'pymol/pymol_path/data/pymol/hsv.ppm'
  adding 'pymol/pymol_path/data/pymol/splash.png'
  adding 'pymol/pymol_path/data/pymol/icons/icon2.svg'
  adding 'pymol/pymol_path/data/pymol/matrices/BLOSUM62'
  adding 'pymol/pymol_path/data/shaders/anaglyph_header.fs'
  adding 'pymol/pymol_path/data/shaders/bezier.fs'
  adding 'pymol/pymol_path/data/shaders/bezier.tsc'
  adding 'pymol/pymol_path/data/shaders/bezier.tse'
  adding 'pymol/pymol_path/data/shaders/bezier.vs'
  adding 'pymol/pymol_path/data/shaders/bg.fs'
  adding 'pymol/pymol_path/data/shaders/bg.vs'
  adding 'pymol/pymol_path/data/shaders/call_compute_color_for_light.fs'
  adding 'pymol/pymol_path/data/shaders/compute_color_for_light.fs'
  adding 'pymol/pymol_path/data/shaders/compute_fog_color.fs'
  adding 'pymol/pymol_path/data/shaders/connector.fs'
  adding 'pymol/pymol_path/data/shaders/connector.gs'
  adding 'pymol/pymol_path/data/shaders/connector.shared'
  adding 'pymol/pymol_path/data/shaders/connector.vs'
  adding 'pymol/pymol_path/data/shaders/copy.fs'
  adding 'pymol/pymol_path/data/shaders/copy.vs'
  adding 'pymol/pymol_path/data/shaders/cylinder.fs'
  adding 'pymol/pymol_path/data/shaders/cylinder.vs'
  adding 'pymol/pymol_path/data/shaders/default.fs'
  adding 'pymol/pymol_path/data/shaders/default.vs'
  adding 'pymol/pymol_path/data/shaders/indicator.fs'
  adding 'pymol/pymol_path/data/shaders/indicator.vs'
  adding 'pymol/pymol_path/data/shaders/label.fs'
  adding 'pymol/pymol_path/data/shaders/label.vs'
  adding 'pymol/pymol_path/data/shaders/line.fs'
  adding 'pymol/pymol_path/data/shaders/line.vs'
  adding 'pymol/pymol_path/data/shaders/oit.fs'
  adding 'pymol/pymol_path/data/shaders/oit.vs'
  adding 'pymol/pymol_path/data/shaders/ramp.fs'
  adding 'pymol/pymol_path/data/shaders/ramp.vs'
  adding 'pymol/pymol_path/data/shaders/screen.fs'
  adding 'pymol/pymol_path/data/shaders/screen.vs'
  adding 'pymol/pymol_path/data/shaders/sphere.fs'
  adding 'pymol/pymol_path/data/shaders/sphere.vs'
  adding 'pymol/pymol_path/data/shaders/surface.fs'
  adding 'pymol/pymol_path/data/shaders/surface.vs'
  adding 'pymol/pymol_path/data/shaders/trilines.fs'
  adding 'pymol/pymol_path/data/shaders/trilines.vs'
  adding 'pymol/pymol_path/data/shaders/volume.fs'
  adding 'pymol/pymol_path/data/shaders/volume.vs'
  adding 'pymol/pymol_path/data/shaders/vrcontroller.fs'
  adding 'pymol/pymol_path/data/shaders/vrcontroller.vs'
  adding 'pymol/pymol_path/data/shaders/webgl_header.fs'
  adding 'pymol/pymol_path/data/shaders/webgl_header.vs'
  adding 'pymol/pymol_path/data/startup/README.txt'
  adding 'pymol/pymol_path/data/startup/apbs_gui/__init__.py'
  adding 'pymol/pymol_path/data/startup/apbs_gui/apbs.ui'
  adding 'pymol/pymol_path/data/startup/apbs_gui/creating.py'
  adding 'pymol/pymol_path/data/startup/apbs_gui/electrostatics.py'
  adding 'pymol/pymol_path/data/startup/apbs_gui/qtwidgets.py'
  adding 'pymol/pymol_path/data/startup/lightingsettings_gui/__init__.py'
  adding 'pymol/pymol_path/data/startup/lightingsettings_gui/main.py'
  adding 'pymol/pymol_path/data/test/double.png'
  adding 'pymol/pymol_path/data/test/single-right.png'
  adding 'pymol/pymol_path/data/test/single.png'
  adding 'pymol/pymol_path/data/tut/1hpv.pdb'
  adding 'pymol/pymol_path/examples/chempy/generate_amber.py'
  adding 'pymol/pymol_path/examples/chempy/generate_mmff.py'
  adding 'pymol/pymol_path/examples/cookbook/area_diff.pml'
  adding 'pymol/pymol_path/examples/cookbook/build_peptide.py'
  adding 'pymol/pymol_path/examples/cookbook/contact.pml'
  adding 'pymol/pymol_path/examples/cookbook/dali.py'
  adding 'pymol/pymol_path/examples/cookbook/density.pml'
  adding 'pymol/pymol_path/examples/cookbook/groel_es.pml'
  adding 'pymol/pymol_path/examples/cookbook/multiclip_ray.pml'
  adding 'pymol/pymol_path/examples/cookbook/packing.pml'
  adding 'pymol/pymol_path/examples/cookbook/packsurf.pml'
  adding 'pymol/pymol_path/examples/cookbook/ref_frame.pml'
  adding 'pymol/pymol_path/examples/cookbook/ribosome.pml'
  adding 'pymol/pymol_path/examples/cookbook/scenes2movie.pml'
  adding 'pymol/pymol_path/examples/cookbook/seq_match_sele.pml'
  adding 'pymol/pymol_path/examples/cookbook/ss_xfer.pml'
  adding 'pymol/pymol_path/examples/cookbook/symsph.py'
  adding 'pymol/pymol_path/examples/devel/brick01.py'
  adding 'pymol/pymol_path/examples/devel/cam2crd.pym'
  adding 'pymol/pymol_path/examples/devel/cgo01.py'
  adding 'pymol/pymol_path/examples/devel/cgo02.py'
  adding 'pymol/pymol_path/examples/devel/cgo03.py'
  adding 'pymol/pymol_path/examples/devel/cgo04.py'
  adding 'pymol/pymol_path/examples/devel/cgo05.py'
  adding 'pymol/pymol_path/examples/devel/cgo06.py'
  adding 'pymol/pymol_path/examples/devel/cgo07.py'
  adding 'pymol/pymol_path/examples/devel/cgo08.py'
  adding 'pymol/pymol_path/examples/devel/cgo_3Dtext01.py'
  adding 'pymol/pymol_path/examples/devel/cgo_axes.py'
  adding 'pymol/pymol_path/examples/devel/cgo_label_hack.py'
  adding 'pymol/pymol_path/examples/devel/cgo_plane.py'
  adding 'pymol/pymol_path/examples/devel/chempy_model01.py'
  adding 'pymol/pymol_path/examples/devel/chempy_model02.py'
  adding 'pymol/pymol_path/examples/devel/chempy_model03.py'
  adding 'pymol/pymol_path/examples/devel/click_ordered_list.py'
  adding 'pymol/pymol_path/examples/devel/count_molecules.py'
  adding 'pymol/pymol_path/examples/devel/demo.sdf'
  adding 'pymol/pymol_path/examples/devel/extend_demo01.py'
  adding 'pymol/pymol_path/examples/devel/gl01.py'
  adding 'pymol/pymol_path/examples/devel/gl02.py'
  adding 'pymol/pymol_path/examples/devel/gl03.py'
  adding 'pymol/pymol_path/examples/devel/hole_vmd_tri.pym'
  adding 'pymol/pymol_path/examples/devel/importing.py'
  adding 'pymol/pymol_path/examples/devel/link_demo.py'
  adding 'pymol/pymol_path/examples/devel/membrane.py'
  adding 'pymol/pymol_path/examples/devel/mutate01.pml'
  adding 'pymol/pymol_path/examples/devel/mutate02.py'
  adding 'pymol/pymol_path/examples/devel/my_ext_gui.py'
  adding 'pymol/pymol_path/examples/devel/particle01.py'
  adding 'pymol/pymol_path/examples/devel/particle02.py'
  adding 'pymol/pymol_path/examples/devel/pick_wiz.py'
  adding 'pymol/pymol_path/examples/devel/povray01.py'
  adding 'pymol/pymol_path/examples/devel/scenes_to_movie01.pml'
  adding 'pymol/pymol_path/examples/devel/sd_annotate.pml'
  adding 'pymol/pymol_path/examples/devel/sele_wiz.py'
  adding 'pymol/pymol_path/examples/devel/start_pymol.py'
  adding 'pymol/pymol_path/examples/devel/syncmol.py'
  adding 'pymol/pymol_path/examples/devel/tkwindow.py'
  adding 'pymol/pymol_path/examples/devel/webgui01.py'
  adding 'pymol/pymol_path/examples/devel/webgui02.py'
  adding 'pymol/pymol_path/examples/devel/xmlrpc01.py'
  adding 'pymol/pymol_path/examples/devel/xmlrpc02.py'
  adding 'pymol/pymol_path/examples/launching/README'
  adding 'pymol/pymol_path/examples/launching/launch_demo.py'
  adding 'pymol/pymol_path/examples/launching/launch_viewer1.py'
  adding 'pymol/pymol_path/examples/launching/launch_viewer2.py'
  adding 'pymol/pymol_path/test/dat/1tii.pdb'
  adding 'pymol/pymol_path/test/dat/3al1.pdb'
  adding 'pymol/pymol_path/test/dat/3al1.r3d'
  adding 'pymol/pymol_path/test/dat/embed01.p1m'
  adding 'pymol/pymol_path/test/dat/embed02.p1m'
  adding 'pymol/pymol_path/test/dat/embed03.p1m'
  adding 'pymol/pymol_path/test/dat/embed04.p1m'
  adding 'pymol/pymol_path/test/dat/embed05.p1m'
  adding 'pymol/pymol_path/test/dat/embed06.p1m'
  adding 'pymol/pymol_path/test/dat/helix_amber.pdb'
  adding 'pymol/pymol_path/test/dat/il2.pdb'
  adding 'pymol/pymol_path/test/dat/ligs3d.sdf'
  adding 'pymol/pymol_path/test/dat/names.pdb'
  adding 'pymol/pymol_path/test/dat/odd01.pdb'
  adding 'pymol/pymol_path/test/dat/odd02.pdb'
  adding 'pymol/pymol_path/test/dat/pept.pdb'
  adding 'pymol/pymol_path/test/dat/pept.pkl'
  adding 'pymol/pymol_path/test/dat/pept.r3d'
  adding 'pymol/pymol_path/test/dat/small01.mol'
  adding 'pymol/pymol_path/test/dat/small02.pdb'
  adding 'pymol/pymol_path/test/dat/small03.mol2'
  adding 'pymol/pymol_path/test/dat/tiny.pdb'
  adding 'pymol/pymol_path/test/dat/water.pdb'
  adding 'pymol/stereochemistry/__init__.py'
  adding 'pymol/wizard/__init__.py'
  adding 'pymol/wizard/annotation.py'
  adding 'pymol/wizard/appearance.py'
  adding 'pymol/wizard/benchmark.py'
  adding 'pymol/wizard/box.py'
  adding 'pymol/wizard/charge.py'
  adding 'pymol/wizard/cleanup.py'
  adding 'pymol/wizard/command.py'
  adding 'pymol/wizard/demo.py'
  adding 'pymol/wizard/density.py'
  adding 'pymol/wizard/distance.py'
  adding 'pymol/wizard/dragging.py'
  adding 'pymol/wizard/filter.py'
  adding 'pymol/wizard/label.py'
  adding 'pymol/wizard/measurement.py'
  adding 'pymol/wizard/message.py'
  adding 'pymol/wizard/mutagenesis.py'
  adding 'pymol/wizard/nucmutagenesis.py'
  adding 'pymol/wizard/openvr.py'
  adding 'pymol/wizard/pair_fit.py'
  adding 'pymol/wizard/pseudoatom.py'
  adding 'pymol/wizard/renaming.py'
  adding 'pymol/wizard/sculpting.py'
  adding 'pymol/wizard/security.py'
  adding 'pymol/wizard/stereodemo.py'
  adding 'pymol/wizard/toggle.py'
  adding 'pymol-3.1.0.data/scripts/pymol'
  adding 'pymol2/__init__.py'
  adding 'pymol2/cmd2.py'
  adding 'pymol_web/examples/__init__.py'
  adding 'pymol_web/examples/justhttpd.py'
  adding 'web/examples/__init__.py'
  adding 'web/examples/justhttpd.py'
  adding 'pymol-3.1.0.dist-info/AUTHORS'
  adding 'pymol-3.1.0.dist-info/LICENSE'
  adding 'pymol-3.1.0.dist-info/METADATA'
  adding 'pymol-3.1.0.dist-info/WHEEL'
  adding 'pymol-3.1.0.dist-info/entry_points.txt'
  adding 'pymol-3.1.0.dist-info/top_level.txt'
  adding 'pymol-3.1.0.dist-info/RECORD'
  removing build/bdist.linux-x86_64/wheel
  Preparing metadata (pyproject.toml): finished with status 'done'
Building wheels for collected packages: pymol
  Building wheel for pymol (pyproject.toml): started
  Running command Building wheel for pymol (pyproject.toml)
  Building wheel for pymol (pyproject.toml): finished with status 'done'
  Created wheel for pymol: filename=pymol-3.1.0-cp313-cp313-linux_x86_64.whl size=44571262 sha256=c4d2d04989dbfd41a1f7542112bc2ea1de7732e29ca1345b2a9e9b3a6a7713f6
  Stored in directory: /builddir/.cache/pip/wheels/76/31/1e/6f5cd56105c073bb26575f1dca286d4ddf8f22443b89981604
Successfully built pymol
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.XI6Nve
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ '[' /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT '!=' / ']'
+ rm -rf /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
++ dirname /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build
+ mkdir /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd pymol-open-source-3.1.0
++ ls /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir/pymol-3.1.0-cp313-cp313-linux_x86_64.whl
++ xargs basename --multiple
++ sed -E 's/([^-]+)-([^-]+)-.+\.whl/\1==\2/'
+ specifier=pymol==3.1.0
+ '[' -z pymol==3.1.0 ']'
+ TMPDIR=/builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/.pyproject-builddir
+ /usr/bin/python3 -m pip install --root /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT --prefix /usr --no-deps --disable-pip-version-check --progress-bar off --verbose --ignore-installed --no-warn-script-location --no-index --no-cache-dir --find-links /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir pymol==3.1.0
Using pip 24.3.1 from /usr/lib/python3.13/site-packages/pip (python 3.13)
Looking in links: /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/pyproject-wheeldir
Processing ./pyproject-wheeldir/pymol-3.1.0-cp313-cp313-linux_x86_64.whl
Installing collected packages: pymol
  Creating /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin
  changing mode of /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/pymol to 755
Successfully installed pymol-3.1.0
+ '[' -d /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin ']'
+ '[' -z sP ']'
+ shebang_flags=-kasP
+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pathfix.py -pni /usr/bin/python3 -kasP /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/pymol
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/pymol: updating
+ rm -rfv /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/__pycache__
+ rm -f /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-ghost-distinfo
+ site_dirs=()
+ '[' -d /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/python3.13/site-packages ']'
+ '[' /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages '!=' /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/python3.13/site-packages ']'
+ '[' -d /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages ']'
+ site_dirs+=("/usr/lib64/python3.13/site-packages")
+ for site_dir in ${site_dirs[@]}
+ for distinfo in /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT$site_dir/*.dist-info
+ echo '%ghost /usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info'
+ sed -i s/pip/rpm/ /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/INSTALLER
+ PYTHONPATH=/usr/lib/rpm/redhat
+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pyproject_preprocess_record.py --buildroot /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT --record /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/RECORD --output /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-record
+ rm -fv /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/RECORD
removed '/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/RECORD'
+ rm -fv /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/REQUESTED
removed '/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol-3.1.0.dist-info/REQUESTED'
++ wc -l /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-ghost-distinfo
++ cut -f1 '-d '
+ lines=1
+ '[' 1 -ne 1 ']'
+ RPM_FILES_ESCAPE=4.19
+ /usr/bin/python3 /usr/lib/rpm/redhat/pyproject_save_files.py --output-files /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-files --output-modules /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-modules --buildroot /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT --sitelib /usr/lib/python3.13/site-packages --sitearch /usr/lib64/python3.13/site-packages --python-version 3.13 --pyproject-record /builddir/build/BUILD/pymol-3.1.0-build/pymol-3.1.0-2.fc42.x86_64-pyproject-record --prefix /usr pymol chempy web pymol2 pymol_web pmg_tk pmg_qt
+ cp -a testing /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/
+ '[' -z sP ']'
+ shebang_flags=-kasP
+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pathfix.py -pni /usr/bin/python3 -kasP /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/modules/xmlrunner/tests/testsuite.py
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/modules/xmlrunner/tests/testsuite.py: updating
+ echo '#!/bin/sh'
+ echo 'export PYMOL_PATH=/usr/lib64/python3.13/site-packages/pymol'
+ echo 'exec /usr/bin/python3 /usr/lib64/python3.13/site-packages/pymol/__init__.py "$@"'
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/data/pymol/icons
+ touch /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/data/pymol/icons/icon2.svg
+ ln -sfr /usr/lib64/python3.13/site-packages/pymol/pymol_path/data/pymol/icons/icon2.svg /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/data/pymol/icons/icon2.svg
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin
+ install -p -m 755 pymol /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin/
+ desktop-file-install --vendor= --dir=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/applications /builddir/build/SOURCES/pymol.desktop
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/pixmaps
+ install -p -m 644 /builddir/build/SOURCES/pymol.png /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/pixmaps/
+ mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/metainfo
+ install -p -m 644 /builddir/build/SOURCES/pymol.appdata.xml /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/metainfo/
+ appstream-util validate-relax --nonet /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT//usr/share/metainfo/pymol.appdata.xml
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT//usr/share/metainfo/pymol.appdata.xml: OK
+ /usr/bin/find-debuginfo -j6 --strict-build-id -m -i --build-id-seed 3.1.0-2.fc42 --unique-debug-suffix -3.1.0-2.fc42.x86_64 --unique-debug-src-base pymol-3.1.0-2.fc42.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0
find-debuginfo: starting
Extracting debug info from 2 files
DWARF-compressing 2 files
sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match.
Creating .debug symlinks for symlinks to ELF files
Copying sources found by 'debugedit -l' to /usr/src/debug/pymol-3.1.0-2.fc42.x86_64
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
mangling shebang in /usr/bin/pymol from /bin/sh to #!/usr/bin/sh
*** WARNING: ./usr/src/debug/pymol-3.1.0-2.fc42.x86_64/layer0/GraphicsUtil.cpp is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-3.1.0-2.fc42.x86_64/layer0/GraphicsUtil.h is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-3.1.0-2.fc42.x86_64/layer3/MaeExportHelpers.cpp is executable but has no shebang, removing executable bit
*** WARNING: ./usr/src/debug/pymol-3.1.0-2.fc42.x86_64/layer3/MaeExportHelpers.h is executable but has no shebang, removing executable bit
+ /usr/lib/rpm/brp-remove-la-files
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j6
Bytecompiling .py files below /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13 using python3.13
/usr/lib64/python3.13/site-packages/pymol/pymol_path/data/chempy/tinker/make_simple.py:147: SyntaxWarning: invalid escape sequence '\*'
/usr/lib64/python3.13/site-packages/pymol/pymol_path/data/chempy/tinker/make_simple.py:151: SyntaxWarning: invalid escape sequence '\*'
/usr/lib64/python3.13/site-packages/pymol/pymol_path/data/chempy/tinker/make_simple.py:147: SyntaxWarning: invalid escape sequence '\*'
/usr/lib64/python3.13/site-packages/pymol/pymol_path/data/chempy/tinker/make_simple.py:151: SyntaxWarning: invalid escape sequence '\*'
/usr/lib64/python3.13/site-packages/pymol/pymol_path/examples/devel/webgui02.py:156: SyntaxWarning: invalid escape sequence '\='
/usr/lib64/python3.13/site-packages/pymol/pymol_path/examples/devel/webgui02.py:156: SyntaxWarning: invalid escape sequence '\='
Bytecompiling .py files below /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/debug/usr/lib64/python3.13 using python3.13
+ /usr/lib/rpm/redhat/brp-python-hardlink
+ /usr/bin/add-determinism --brp -j6 /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/util.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/commands.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/state.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/champ/__pycache__/formal_charges.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/champ/__pycache__/assign.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/bmin/__pycache__/realtime.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/fragments/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/fast/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/mmtf/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/tinker/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
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/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/tinker/__pycache__/keyword.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/tinker/__pycache__/state.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/tinker/__pycache__/realtime.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/bond_mmff.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/mmtf/__pycache__/io.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/charge.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/tinker/__pycache__/amber.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/bond_amber.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/arc.cpython-313.pyc: rewriting with normalized contents
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/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/lst.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/bonds.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/brick.cpython-313.pyc: replacing with normalized version
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/champ/__pycache__/amber99.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/brick.cpython-313.opt-1.pyc: replacing with normalized version
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/cc1.cpython-313.pyc: rewriting with normalized contents
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/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/chempy/__pycache__/mol2.cpython-313.pyc: rewriting with normalized contents
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/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/tests/undo/__pycache__/conftest.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/__pycache__/conftest.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/tests/undo/api/__pycache__/test_undo_selecting.cpython-313.pyc: replacing with normalized version
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/__pycache__/make_test_stubs.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/tests/wizard/__pycache__/nucmutagenesis.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/__pycache__/plot_timings.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/tests/undo/api/__pycache__/test_undo_selecting.cpython-313.opt-1.pyc: replacing with normalized version
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol_web/examples/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol2/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/web/examples/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents
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/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol_web/examples/__pycache__/justhttpd.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/web/examples/__pycache__/justhttpd.cpython-313.pyc: rewriting with normalized contents
/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages/pymol/testing/__pycache__/testing.cpython-313.pyc: rewriting with normalized contents
Scanned 193 directories and 2222 files,
               processed 465 inodes,
               443 modified (54 replaced + 389 rewritten),
               0 unsupported format, 0 errors
Reading /builddir/build/BUILD/pymol-3.1.0-build/SPECPARTS/rpm-debuginfo.specpart
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.WAkmU5
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd pymol-open-source-3.1.0
+ PATH=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin
+ PYTHONPATH=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages:/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/python3.13/site-packages
+ _PYTHONSITE=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib64/python3.13/site-packages:/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/lib/python3.13/site-packages
+ PYTHONDONTWRITEBYTECODE=1
+ /usr/bin/python3 -sP /usr/lib/rpm/redhat/import_all_modules.py -t pymol chempy web pymol2 pymol_web pmg_tk pmg_qt
Check import: pymol
Check import: chempy
Check import: web
Check import: pymol2
Check import: pymol_web
Check import: pmg_tk
Check import: pmg_qt
+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: pymol-3.1.0-2.fc42.x86_64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.JA6Xld
+ umask 022
+ cd /builddir/build/BUILD/pymol-3.1.0-build
+ cd pymol-open-source-3.1.0
+ DOCDIR=/builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ cp -pr /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/AUTHORS /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ cp -pr /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/DEVELOPERS /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ cp -pr /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/README.md /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ cp -pr /builddir/build/BUILD/pymol-3.1.0-build/pymol-open-source-3.1.0/ChangeLog /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT/usr/share/doc/pymol
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: PyMOL = 3.1.0-2.fc42 application() application(pymol.desktop) metainfo() metainfo(pymol.appdata.xml) pymol = 3.1.0-2.fc42 pymol(x86-64) = 3.1.0-2.fc42 python-pymol = 3.1.0-2.fc42 python3-pymol = 3.1.0-2.fc42 python3.13-pymol = 3.1.0-2.fc42 python3.13dist(pymol) = 3.1 python3dist(pymol) = 3.1
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: (python3.13dist(numpy) < 3~~ with python3.13dist(numpy) >= 1.26.4) /usr/bin/sh libGL.so.1()(64bit) libGLEW.so.2.2()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libfreetype.so.6()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(OMP_1.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.27)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.35)(64bit) libm.so.6(GLIBC_2.38)(64bit) libnetcdf.so.19()(64bit) libpng16.so.16()(64bit) libpng16.so.16(PNG16_0)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.13)(64bit) libstdc++.so.6(CXXABI_1.3.15)(64bit) libstdc++.so.6(CXXABI_1.3.3)(64bit) libstdc++.so.6(CXXABI_1.3.5)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.14)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.19)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.22)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) libxml2.so.2()(64bit) libxml2.so.2(LIBXML2_2.4.30)(64bit) libxml2.so.2(LIBXML2_2.6.0)(64bit) libxml2.so.2(LIBXML2_2.6.3)(64bit) python(abi) = 3.13 rtld(GNU_HASH)
Processing files: pymol+tests-3.1.0-2.fc42.x86_64
Provides: pymol+tests = 3.1.0-2.fc42 pymol+tests(x86-64) = 3.1.0-2.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/python3 python(abi) = 3.13
Processing files: pymol-debugsource-3.1.0-2.fc42.x86_64
Provides: pymol-debugsource = 3.1.0-2.fc42 pymol-debugsource(x86-64) = 3.1.0-2.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: pymol-debuginfo-3.1.0-2.fc42.x86_64
Provides: debuginfo(build-id) = 4a207a3777878d9e6f6ed7513c631e3ce79a13cd debuginfo(build-id) = 9931fe14a6de5440769f6a9d6049745db794599a pymol-debuginfo = 3.1.0-2.fc42 pymol-debuginfo(x86-64) = 3.1.0-2.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: pymol-debugsource(x86-64) = 3.1.0-2.fc42
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/pymol-3.1.0-build/BUILDROOT
Wrote: /builddir/build/SRPMS/pymol-3.1.0-2.fc42.src.rpm
Wrote: /builddir/build/RPMS/pymol-3.1.0-2.fc42.x86_64.rpm
Wrote: /builddir/build/RPMS/pymol+tests-3.1.0-2.fc42.x86_64.rpm
Wrote: /builddir/build/RPMS/pymol-debugsource-3.1.0-2.fc42.x86_64.rpm
Wrote: /builddir/build/RPMS/pymol-debuginfo-3.1.0-2.fc42.x86_64.rpm
Child return code was: 0