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Gentoo's Bugzilla – Attachment 894699 Details for
Bug 933235
sci-chemistry/pymol-3.0.0 fails to compile: ReadPARM7.h:62:16: error: type struct parm violates the C++ One Definition Rule [-Werror=odr]
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build.log
build.log (text/plain), 465.97 KB, created by
Agostino Sarubbo
on 2024-05-31 06:47:33 UTC
(
hide
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Description:
build.log
Filename:
MIME Type:
Creator:
Agostino Sarubbo
Created:
2024-05-31 06:47:33 UTC
Size:
465.97 KB
patch
obsolete
> * Package: sci-chemistry/pymol-3.0.0:0 > * Repository: gentoo > * Maintainer: sci-chemistry@gentoo.org > * USE: abi_x86_64 amd64 elibc_glibc kernel_linux netcdf python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 > * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox > > >@@@@@ PLEASE PAY ATTENTION HERE!!! @@@@@ >This information may help you to understand if this is a duplicate or if this bug exists after you pushed a fix; >This ebuild was merged at the following commit: >https://github.com/gentoo-mirror/gentoo/commit/477bb5a8b302a228660fd85b9ab19293387ab393 (Fri May 31 00:49:02 UTC 2024) >@@@@@ END @@@@@ > > > >################## ># emerge --info: # >################## > >!!! Your current profile is deprecated and not supported anymore. >!!! Use eselect profile to update your profile. >!!! Please upgrade to the following profile if possible: > > default/linux/amd64/23.0/split-usr > >To upgrade do the following steps: > >A profile upgrade to version 23.0 is available for your architecture. >The new 23.0 profiles enable some toolchain hardening features and >performance enhancements by default, and standardize settings. >You can find the list of changes on the wiki tracking page [1]. > >Upgrade instructions > >Note 1: If you have manually changed your CHOST to a value different from >what the stages and profiles set, you may have to do that in the future too. >In that case you should know what you are doing, hopefully; please read the >instructions with a critical eye then. > >Note 2: In case you are already familiar with binary packages, you should be >able to add "--getbinpkg" to the emerge calls to speed things up. >The use of binary packages is completely optional though, and also not >as much tested as the source-based upgrade path yet. > >1. Ensure your system backups are up to date. Please also update > your system fully and depclean before proceeding. > glibc older than 2.36 and musl older than 1.2.4 is not supported anymore. > >2. If you are still using one of the long-deprecated amd64 17.0 profiles > (other than x32 or musl), then first complete the migration to the > corresponding 17.1 profile. Instructions can be found at [3]. > >3. If you are currently using systemd in a split-usr configuration, then first > complete the migration to the corresponding merged-usr profile of the > same profile version. Details on how to do this can be found in the news > item [4]. > If you are currently using openrc, migrate to 23.0 first, keeping your disk > layout. If you want to move from split-usr to merged-usr, do that afterwards. > >4. Run "emerge --info" and note down the value of the CHOST variable. > >5. Edit /etc/portage/make.conf; if there is a line defining the CHOST variable, > remove it. Also delete all lines defining CHOST_... variables. > >6. Select the 23.0 profile corresponding to your current profile, either using > "eselect profile" or by manually setting the profile symlink. > Note that old profiles are by default split-usr and the 23.0 profiles by > default merged-usr. Do NOT change directory scheme now, since this will > mess up your system! > Instead, make sure that the new profile has the same property: for example, > OLD default/linux/amd64/17.1 > ==> NEW default/linux/amd64/23.0/split-usr > (added "split-usr") > OLD default/linux/amd64/17.1/systemd/merged-usr > ==> NEW default/linux/amd64/23.0/systemd > (removed "merged-usr") > A detailed table of the upgrade paths can be found at [5]. Please consult it. > In some cases (hppa, x86) the table will tell you to pick between two choices. > What you need should be obvious from your *old* CHOST value (from step 4). > >7. Delete the contents of your binary package cache at ${PKGDIR} > rm -r /var/cache/binpkgs/* > >8. In the file or directory /etc/portage/binrepos.conf (if existing), update > the URI in all configuration such that they point to 23.0 profile binhost > directories. The exact paths can be found in the table at [5], too. > >9. Rebuild or reinstall from binary (if available) the following packages in > this order, with the same version as already active: > emerge --ask --oneshot sys-devel/binutils > (you may have to run binutils-config and re-select your binutils now) > emerge --ask --oneshot sys-devel/gcc > (IMPORTANT: If this command wants to rebuild glibc first, do *not* let it do > that; instead, abort and try again with --nodeps added to the command line.) > (you may have to run gcc-config and re-select your gcc now) > and the C library, i.e. for glibc-based systems > emerge --ask --oneshot sys-libs/glibc > or for musl-based systems > emerge --ask --oneshot sys-libs/musl > >10. Re-run "emerge --info" and check if CHOST has changed compared to step 4. > >If the CHOST has NOT changed, skip to step 13 (env-update). Otherwise, > >11. Recheck with binutils-config and gcc-config that valid installed versions > of binutils and gcc are selected. > >12. Check /etc/env.d, /etc/env.d/binutils, and /etc/env.d/gcc for files that > refer to the *OLD* CHOST value, and remove them. > Examples how to do this can be found in the similar procedure at [6]. > >13. Run env-update && source /etc/profile > >14. Re-emerge libtool: > emerge --ask --oneshot libtool > >15. Just for safety, delete the contents of your binary package cache at > ${PKGDIR} again: > rm -r /var/cache/binpkgs/* > >16. Rebuild world: > emerge --ask --emptytree @world > >[1] https://wiki.gentoo.org/wiki/Project:Toolchain/23.0_profile_transition >[2] https://wiki.gentoo.org/wiki/Project:Toolchain/23.0_profile_timeline >[3] https://www.gentoo.org/support/news-items/2019-06-05-amd64-17-1-profiles-are-now-stable.html >[4] https://www.gentoo.org/support/news-items/2022-12-01-systemd-usrmerge.html >[5] https://wiki.gentoo.org/wiki/Project:Toolchain/23.0_update_table >[6] https://wiki.gentoo.org/wiki/Changing_the_CHOST_variable#Verifying_things_work > > >Portage 3.0.64 (python 3.12.3-final-0, default/linux/amd64/17.1, gcc-14, glibc-2.39-r7, 6.1.87-gentoo-dist x86_64) >================================================================= >System uname: Linux-6.1.87-gentoo-dist-x86_64-AMD_EPYC_7513_32-Core_Processor-with-glibc2.39 >KiB Mem: 263449376 total, 50069252 free >KiB Swap: 0 total, 0 free >Timestamp of repository gentoo: Fri, 31 May 2024 00:49:02 +0000 >sh bash 5.2_p26-r3 >ld GNU ld (Gentoo 2.42 p3) 2.42.0 >app-misc/pax-utils: 1.3.7::gentoo >app-shells/bash: 5.2_p26-r3::gentoo >dev-build/autoconf: 2.72-r1::gentoo >dev-build/automake: 1.16.5-r2::gentoo >dev-build/cmake: 3.29.3::gentoo >dev-build/libtool: 2.4.7-r4::gentoo >dev-build/make: 4.4.1-r1::gentoo >dev-build/meson: 1.4.0-r1::gentoo >dev-lang/perl: 5.38.2-r6::gentoo >dev-lang/python: 3.10.14_p1-r1::gentoo, 3.11.9-r1::gentoo, 3.12.3-r1::gentoo >sys-apps/baselayout: 2.15::gentoo >sys-apps/openrc: 0.54::gentoo >sys-apps/sandbox: 2.38::gentoo >sys-devel/binutils: 2.42-r1::gentoo >sys-devel/binutils-config: 5.5::gentoo >sys-devel/clang: 17.0.6::gentoo, 18.1.6::gentoo >sys-devel/gcc: 14.1.1_p20240525::gentoo >sys-devel/gcc-config: 2.11::gentoo >sys-devel/llvm: 17.0.6::gentoo, 18.1.6::gentoo >sys-kernel/linux-headers: 6.9::gentoo (virtual/os-headers) >sys-libs/glibc: 2.39-r7::gentoo >Repositories: > >gentoo > location: /usr/portage > sync-type: rsync > sync-uri: rsync://rsync.gentoo.org/gentoo-portage > priority: -1000 > volatile: True > sync-rsync-verify-jobs: 1 > sync-rsync-verify-max-age: 3 > sync-rsync-extra-opts: > sync-rsync-verify-metamanifest: yes > >ACCEPT_KEYWORDS="amd64 ~amd64" >ACCEPT_LICENSE="* BSD BitstreamVera HPND OFL-1.0 UoI-NCSA freedist public-domain" >CBUILD="x86_64-pc-linux-gnu" >CFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing" >CHOST="x86_64-pc-linux-gnu" >CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt" >CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo" >CXXFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing" >DISTDIR="/var/tmp/portage/sci-chemistry/pymol-3.0.0/distdir" >EMERGE_DEFAULT_OPTS="--complete-graph y --with-bdeps=y -1 -k -b --backtrack=100" >ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY GDK_PIXBUF_MODULE_FILE GOBIN GOPATH PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR XDG_STATE_HOME" >FCFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing" >FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg buildpkg-live config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync merge-wait multilib-strict network-sandbox news parallel-fetch pid-sandbox pkgdir-index-trusted preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms sign split-log strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" >FFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing" >GENTOO_MIRRORS="http://mirror.leaseweb.com/gentoo/ http://ftp.snt.utwente.nl/pub/os/linux/gentoo/ http://ftp.belnet.be/pub/rsync.gentoo.org/gentoo/ http://distfiles.gentoo.org" >LANG="C.UTF8" >LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0" >LEX="flex" >MAKEOPTS="-j32" >PKGDIR="/root/tbci/binpkg" >PORTAGE_CONFIGROOT="/" >PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git" >PORTAGE_TMPDIR="/var/tmp" >SHELL="/bin/bash" >USE="acl amd64 bzip2 cli crypt dri elogind fortran gdbm iconv ipv6 jumbo-build libtirpc lto multilib native-symlinks ncurses netcdf nls openmp pam pcre readline seccomp split-usr ssl test-rust unicode xattr zlib" ABI_X86="64" ELIBC="glibc" KERNEL="linux" PYTHON_TARGETS="python3_10 python3_11 python3_12" >Unset: ADDR2LINE, AR, ARFLAGS, AS, ASFLAGS, CC, CCLD, CONFIG_SHELL, CPP, CPPFLAGS, CTARGET, CXX, CXXFILT, ELFEDIT, EXTRA_ECONF, F77FLAGS, FC, GCOV, GPROF, INSTALL_MASK, LC_ALL, LD, LFLAGS, LIBTOOL, LINGUAS, MAKE, MAKEFLAGS, NM, OBJCOPY, OBJDUMP, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, PYTHONPATH, RANLIB, READELF, RUSTFLAGS, SIZE, STRINGS, STRIP, YACC, YFLAGS > > > > > >############################## ># emerge history (qlop -mv): # >############################## >2024-05-31T03:39:47 >>> sys-devel/llvm-common-18.1.6 >2024-05-31T03:39:49 >>> dev-util/spirv-headers-1.3.283.0 >2024-05-31T03:39:48 >>> sys-apps/hwdata-0.382 >2024-05-31T03:39:50 >>> media-libs/glm-1.0.1 >2024-05-31T03:39:51 >>> x11-misc/xkeyboard-config-2.41 >2024-05-31T03:39:52 >>> sys-libs/zlib-1.3.1-r1 >2024-05-31T03:40:11 >>> dev-libs/libclc-18.1.6 >2024-05-31T03:40:12 >>> sys-devel/clang-common-18.1.6 >2024-05-31T03:40:13 >>> sys-libs/ncurses-6.4_p20240414 >2024-05-31T03:40:30 >>> app-arch/bzip2-1.0.8-r5 >2024-05-31T03:40:35 >>> dev-libs/libffi-3.4.6 >2024-05-31T03:40:40 >>> x11-libs/libICE-1.1.1-r1 >2024-05-31T03:40:45 >>> x11-libs/libXau-1.0.11 >2024-05-31T03:40:50 >>> x11-libs/libXdmcp-1.1.5 >2024-05-31T03:40:56 >>> dev-build/b2-5.0.0 >2024-05-31T03:40:57 >>> x11-libs/libxshmfence-1.3.2 >2024-05-31T03:40:55 >>> sys-libs/mtdev-1.1.7 >2024-05-31T03:40:58 >>> dev-libs/expat-2.6.2 >2024-05-31T03:41:11 >>> x11-libs/libxcb-1.17.0 >2024-05-31T03:41:17 >>> x11-libs/libX11-1.8.9 >2024-05-31T03:41:23 >>> x11-libs/libXext-1.3.6 >2024-05-31T03:41:29 >>> x11-libs/libXrender-0.9.11 >2024-05-31T03:41:34 >>> x11-libs/libXfixes-6.0.1 >2024-05-31T03:41:37 >>> x11-libs/libXxf86vm-1.1.5 >2024-05-31T03:41:35 >>> x11-libs/xcb-util-keysyms-0.4.1 >2024-05-31T03:41:36 >>> x11-libs/libXrandr-1.5.4 >2024-05-31T03:41:38 >>> x11-libs/xcb-util-renderutil-0.3.10 >2024-05-31T03:41:39 >>> x11-libs/xcb-util-wm-0.4.2 >2024-05-31T03:41:40 >>> x11-libs/xcb-util-0.4.1 >2024-05-31T03:41:41 >>> virtual/fortran-0-r1 >2024-05-31T03:41:42 >>> app-arch/zstd-1.5.6 >2024-05-31T03:42:09 >>> x11-libs/libXi-1.8.1 >2024-05-31T03:42:11 >>> x11-libs/xcb-util-image-0.4.1 >2024-05-31T03:42:12 >>> dev-libs/elfutils-0.191 >2024-05-31T03:42:24 >>> virtual/libelf-3-r1 >2024-05-31T03:42:29 >>> media-libs/libjpeg-turbo-3.0.3 >2024-05-31T03:42:30 >>> media-libs/libglvnd-1.7.0 >2024-05-31T03:42:31 >>> dev-libs/icu-74.2 >2024-05-31T03:42:32 >>> dev-util/spirv-tools-1.3.283.0 >2024-05-31T03:42:33 >>> sys-libs/libomp-18.1.6 >2024-05-31T03:42:34 >>> sys-libs/binutils-libs-2.42-r1 >2024-05-31T03:42:35 >>> sci-libs/lapack-3.12.0-r1 >2024-05-31T03:42:36 >>> sci-libs/hdf5-1.14.4_p2 >2024-05-31T03:42:37 >>> dev-util/patchelf-0.18.0 >2024-05-31T03:42:38 >>> dev-libs/libevdev-1.13.1-r1 >2024-05-31T03:42:39 >>> dev-libs/double-conversion-3.3.0 >2024-05-31T03:42:41 >>> x11-libs/libpciaccess-0.18.1 >2024-05-31T03:42:42 >>> x11-libs/libSM-1.2.4 >2024-05-31T03:43:25 >>> virtual/jpeg-100-r1 >2024-05-31T03:43:24 >>> media-libs/tiff-4.6.0-r1 >2024-05-31T03:43:28 >>> virtual/lapack-3.10 >2024-05-31T03:43:27 >>> virtual/cblas-3.8 >2024-05-31T03:43:29 >>> media-libs/libwebp-1.4.0 >2024-05-31T03:43:30 >>> media-libs/glu-9.0.3 >2024-05-31T03:43:31 >>> sys-libs/compiler-rt-17.0.6 >2024-05-31T03:43:32 >>> sys-libs/compiler-rt-sanitizers-17.0.6 >2024-05-31T03:43:33 >>> sys-libs/compiler-rt-18.1.6 >2024-05-31T03:43:35 >>> x11-libs/libXt-1.3.0 >2024-05-31T03:43:34 >>> sys-devel/llvm-18.1.6 >2024-05-31T03:43:26 >>> dev-libs/boost-1.85.0 >2024-05-31T03:44:27 >>> media-video/mpeg-tools-1.5b-r5 >2024-05-31T03:44:28 >>> dev-cpp/msgpack-cxx-6.1.0 >2024-05-31T03:44:29 >>> virtual/glu-9.0-r2 >2024-05-31T03:44:30 >>> sys-devel/clang-runtime-17.0.6 >2024-05-31T03:44:32 >>> x11-libs/libdrm-2.4.120 >2024-05-31T03:44:31 >>> sys-libs/compiler-rt-sanitizers-18.1.6 >2024-05-31T03:44:33 >>> sys-devel/llvmgold-18 >2024-05-31T03:44:34 >>> x11-libs/libXmu-1.2.1 >2024-05-31T03:44:36 >>> dev-libs/libinput-1.25.0 >2024-05-31T03:44:35 >>> dev-qt/qtcore-5.15.14 >2024-05-31T03:44:37 >>> virtual/perl-Time-Local-1.300.0-r2 >2024-05-31T03:44:38 >>> virtual/perl-IO-1.520.0 >2024-05-31T03:44:39 >>> virtual/perl-XSLoader-0.320.0-r1 >2024-05-31T03:44:40 >>> virtual/perl-Compress-Raw-Bzip2-2.204.1_rc >2024-05-31T03:44:42 >>> dev-perl/Socket6-0.290.0 >2024-05-31T03:44:43 >>> dev-perl/TimeDate-2.330.0-r1 >2024-05-31T03:44:44 >>> virtual/perl-IO-Socket-IP-0.410.100_rc >2024-05-31T03:44:45 >>> virtual/perl-Digest-MD5-2.580.100_rc-r1 >2024-05-31T03:44:46 >>> virtual/perl-Module-Load-0.360.0-r4 >2024-05-31T03:44:47 >>> dev-perl/LWP-MediaTypes-6.40.0 >2024-05-31T03:44:48 >>> dev-perl/Clone-0.460.0 >2024-05-31T03:44:49 >>> dev-perl/HTML-Tagset-3.240.0 >2024-05-31T03:44:50 >>> perl-core/Compress-Raw-Zlib-2.212.0 >2024-05-31T03:44:53 >>> dev-perl/IO-HTML-1.4.0 >2024-05-31T03:44:51 >>> dev-perl/Devel-CheckLib-1.160.0-r1 >2024-05-31T03:44:54 >>> dev-perl/WWW-RobotRules-6.20.0-r2 >2024-05-31T03:44:55 >>> app-text/docbook-xml-dtd-4.3-r2 >2024-05-31T03:44:56 >>> dev-lang/nasm-2.16.03 >2024-05-31T03:44:57 >>> dev-lang/tk-8.6.14 >2024-05-31T03:46:20 >>> dev-libs/mmtf-cpp-1.1.0-r1 >2024-05-31T03:46:21 >>> sys-devel/clang-runtime-18.1.6 >2024-05-31T03:46:22 >>> sys-devel/llvm-toolchain-symlinks-18 >2024-05-31T03:46:23 >>> dev-qt/qtnetwork-5.15.14 >2024-05-31T03:46:25 >>> dev-qt/qtxml-5.15.14 >2024-05-31T03:46:26 >>> dev-qt/qttest-5.15.14 >2024-05-31T03:46:27 >>> dev-perl/HTTP-Date-6.60.0 >2024-05-31T03:46:28 >>> dev-perl/Sub-Name-0.270.0 >2024-05-31T03:46:30 >>> dev-perl/IO-Socket-INET6-2.730.0 >2024-05-31T03:46:29 >>> virtual/perl-Compress-Raw-Zlib-2.212.0-r1 >2024-05-31T03:46:31 >>> dev-tcltk/blt-2.5.3-r3 >2024-05-31T03:47:03 >>> dev-perl/File-Listing-6.160.0 >2024-05-31T03:47:04 >>> dev-perl/Try-Tiny-0.310.0 >2024-05-31T03:47:05 >>> virtual/perl-IO-Compress-2.204.0 >2024-05-31T03:47:02 >>> sys-devel/clang-18.1.6 >2024-05-31T03:47:07 >>> dev-tcltk/tix-8.4.3-r4 >2024-05-31T03:47:06 >>> sys-devel/llvm-17.0.6 >2024-05-31T03:47:37 >>> sys-devel/clang-toolchain-symlinks-18 >2024-05-31T03:47:38 >>> dev-perl/HTTP-Message-6.450.0 >2024-05-31T03:47:40 >>> dev-perl/Net-HTTP-6.230.0 >2024-05-31T03:47:41 >>> sys-devel/llvm-toolchain-symlinks-17 >2024-05-31T03:47:42 >>> dev-lang/python-3.12.3-r1 >2024-05-31T03:48:05 >>> dev-perl/HTML-Parser-3.820.0 >2024-05-31T03:48:07 >>> dev-perl/HTTP-Negotiate-6.10.0-r2 >2024-05-31T03:48:06 >>> dev-perl/HTTP-Cookies-6.110.0 >2024-05-31T03:48:08 >>> dev-util/spirv-llvm-translator-17.0.0-r2 >2024-05-31T03:48:09 >>> dev-lang/python-3.11.9-r1 >2024-05-31T03:48:33 >>> media-libs/mesa-24.1.0-r1 >2024-05-31T03:48:34 >>> dev-perl/libwww-perl-6.770.0 >2024-05-31T03:48:35 >>> dev-lang/python-3.10.14_p1-r1 >2024-05-31T03:48:54 >>> virtual/opengl-7.0-r2 >2024-05-31T03:48:55 >>> dev-perl/LWP-Protocol-https-6.140.0 >2024-05-31T03:48:56 >>> sci-libs/netcdf-4.9.2-r1 >2024-05-31T03:48:57 >>> x11-libs/libxkbcommon-1.7.0 >2024-05-31T03:48:58 >>> dev-python/pyproject-metadata-0.8.0 >2024-05-31T03:48:59 >>> dev-python/mako-1.3.5 >2024-05-31T03:49:00 >>> dev-python/pmw-2.1.1 >2024-05-31T03:49:03 >>> dev-python/PyQt5-sip-12.13.0-r1 >2024-05-31T03:49:04 >>> dev-python/olefile-0.47 >2024-05-31T03:49:02 >>> dev-python/pygments-2.18.0 >2024-05-31T03:49:05 >>> dev-python/sip-6.8.3 >2024-05-31T03:49:06 >>> dev-python/ply-3.11-r2 >2024-05-31T03:49:07 >>> sys-devel/clang-17.0.6 >2024-05-31T03:49:52 >>> media-libs/glew-2.2.0-r1 >2024-05-31T03:49:53 >>> media-libs/freeglut-3.4.0 >2024-05-31T03:49:54 >>> dev-perl/XML-Parser-2.470.0 >2024-05-31T03:49:55 >>> dev-python/meson-python-0.16.0-r1 >2024-05-31T03:49:56 >>> x11-libs/gdk-pixbuf-2.42.10-r1 >2024-05-31T03:49:58 >>> dev-python/pillow-10.3.0 >2024-05-31T03:49:59 >>> dev-python/PyQt-builder-1.16.2 >2024-05-31T03:50:00 >>> sys-devel/clang-toolchain-symlinks-17 >2024-05-31T03:50:25 >>> dev-util/intltool-0.51.0-r3 >2024-05-31T03:50:28 >>> dev-util/gtk-update-icon-cache-3.24.42 >2024-05-31T03:50:29 >>> dev-python/docutils-0.21.2 >2024-05-31T03:50:26 >>> dev-python/numpy-2.0.0_rc2-r1 >2024-05-31T03:50:27 >>> dev-python/pyopengl-3.1.7-r1 >2024-05-31T03:51:35 >>> sci-chemistry/chemical-mime-data-0.1.95_pre20171122 >2024-05-31T03:51:36 >>> dev-util/intel_clc-24.1.0 >2024-05-31T03:51:37 >>> dev-qt/qtgui-5.15.14 >2024-05-31T03:51:49 >>> dev-qt/qtwidgets-5.15.14 >2024-05-31T03:51:55 >>> dev-qt/qtdeclarative-5.15.14 >2024-05-31T03:51:57 >>> dev-qt/qtopengl-5.15.14 >2024-05-31T03:52:09 >>> dev-python/PyQt5-5.15.10-r1 > > > > >####################################### ># installed packages (qlist -ICvUSS): # >####################################### >acct-group/audio-0-r3:0 >acct-group/cdrom-0-r3:0 >acct-group/dialout-0-r3:0 >acct-group/disk-0-r3:0 >acct-group/floppy-0-r1:0 >acct-group/input-0-r3:0 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>dev-util/intltool-0.51.0-r3:0 >dev-util/patchelf-0.18.0:0 >dev-util/pkgconf-2.2.0:0/5 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 native-symlinks -test >dev-util/re2c-3.1:0 -debug -test >dev-util/spirv-headers-1.3.283.0:0 >dev-util/spirv-llvm-translator-17.0.0-r2:17 -test >dev-util/spirv-tools-1.3.283.0:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 >dev-vcs/git-2.45.1:0 blksha1 -cgi curl -cvs -doc gpg -highlight iconv -keyring -mediawiki nls pcre -perforce -perl -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 safe-directory -selinux -subversion -test -tk webdav -xinetd >media-fonts/liberation-fonts-2.1.5:0 -X -X -fontforge >media-gfx/graphite2-1.3.14_p20210810-r3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -perl -test >media-libs/fontconfig-2.15.0:1.0 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-abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 cairo -debug -doc -experimental glib graphite -icu introspection -test truetype >media-libs/libglvnd-1.7.0:0 X -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 -test >media-libs/libjpeg-turbo-3.0.3:0/0.2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cpu_flags_arm_neon -java -java -static-libs >media-libs/libpng-1.6.43:0/16 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -apng -cpu_flags_arm_neon cpu_flags_x86_sse -static-libs -test >media-libs/libwebp-1.4.0:0/7 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cpu_flags_arm_neon cpu_flags_x86_sse2 cpu_flags_x86_sse4_1 -gif jpeg -opengl png -static-libs -swap-16bit-csp -tiff >media-libs/mesa-24.1.0-r1:0 X -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 cpu_flags_x86_sse2 -d3d9 -debug llvm -llvm_slot_15 -llvm_slot_16 llvm_slot_17 -lm-sensors -opencl opengl -osmesa proprietary-codecs -selinux -test -unwind -vaapi -valgrind -vdpau -video_cards_d3d12 -video_cards_freedreno video_cards_intel -video_cards_lavapipe -video_cards_lima video_cards_nouveau -video_cards_nvk -video_cards_panfrost -video_cards_r300 -video_cards_r600 video_cards_radeon video_cards_radeonsi -video_cards_v3d -video_cards_vc4 -video_cards_virgl -video_cards_vivante -video_cards_vmware -vulkan -vulkan-overlay -wayland -xa -zink zstd >media-libs/tiff-4.6.0-r1:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 cxx -jbig jpeg -lzma -static-libs -test -verify-sig -webp zlib -zstd >media-video/mpeg-tools-1.5b-r5:0 >net-dns/c-ares-1.29.0:0/2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs -test -verify-sig >net-dns/libidn2-2.3.7:0/2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 nls -static-libs -verify-sig >net-firewall/iptables-1.8.10-r1:0/1.8.3 -conntrack -netlink -nftables -pcap -static-libs -test >net-libs/gnutls-3.8.5-r1:0/30.30 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -brotli cxx -dane -doc -examples idn nls openssl -pkcs11 seccomp -sslv2 -sslv3 -static-libs -test -test-full tls-heartbeat -tools -verify-sig zlib -zstd >net-libs/libmnl-1.0.5:0/0.2.0 -examples -verify-sig >net-libs/libnsl-2.0.1:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs >net-libs/libpsl-0.21.5:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -icu idn -test >net-libs/libtirpc-1.3.4-r2:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -kerberos -static-libs >net-libs/nghttp2-1.62.1:0/1.14 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -hpack-tools -jemalloc -static-libs -systemd -test -utils -xml >net-misc/curl-8.8.0-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 adns alt-svc -brotli -curl_ssl_gnutls -curl_ssl_mbedtls curl_ssl_openssl -curl_ssl_rustls -debug ftp -gnutls -gopher hsts http2 -idn imap -kerberos -ldap -mbedtls -nghttp3 openssl pop3 progress-meter psl -rtmp -rustls -samba smtp -ssh ssl -sslv3 -static-libs -telnet -test tftp -verify-sig -websockets -zstd >net-misc/dhcpcd-10.0.8:0 -debug embedded ipv6 -privsep udev >net-misc/iputils-20240117:0 arping -caps -clockdiff -doc filecaps -idn nls -test -tracepath >net-misc/netifrc-0.7.8:0 dhcp >net-misc/openssh-contrib-9.7_p1-r1:0 -X -X509 -abi_mips_n32 -audit -debug -hpn -kerberos -ldns -libedit -livecd pam -pie -security-key -selinux ssl -static -test -verify-sig -xmss >net-misc/rsync-3.3.0:0 acl -examples iconv -lz4 -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 -rrsync ssl -stunnel -system-zlib -verify-sig xattr -xxhash -zstd >net-misc/wget-1.24.5:0 -cookie-check -debug -gnutls -idn ipv6 -libproxy -metalink nls -ntlm pcre ssl -static -test -uuid -verify-sig zlib >perl-core/Compress-Raw-Zlib-2.212.0:0 -perl_features_debug -perl_features_ithreads -perl_features_quadmath >perl-core/Encode-3.210.0:0 -perl_features_debug -perl_features_ithreads -perl_features_quadmath >perl-core/File-Temp-0.231.100-r1:0 -perl_features_debug -perl_features_ithreads -perl_features_quadmath >perl-core/Getopt-Long-2.570.0:0 -perl_features_debug -perl_features_ithreads -perl_features_quadmath >perl-core/Math-BigInt-1.999.842:0 -examples -perl_features_debug -perl_features_ithreads -perl_features_quadmath -test >sci-chemistry/chemical-mime-data-0.1.95_pre20171122:0 >sci-libs/hdf5-1.14.4_p2:0/1.14.4 -cxx -debug -examples fortran hl -mpi -szip -test -threads -unsupported zlib >sci-libs/lapack-3.12.0-r1:0 -deprecated -doc -eselect-ldso -lapacke -test >sci-libs/netcdf-4.9.2-r1:0/19 -blosc bzip2 dap -doc -examples -hdf hdf5 -mpi -szip -test -zstd >sec-keys/openpgp-keys-gentoo-release-20230329:0 -test >sys-apps/acl-2.3.2-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 nls -static-libs >sys-apps/attr-2.5.2-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug nls -static-libs >sys-apps/baselayout-2.15:0 -build split-usr >sys-apps/coreutils-9.5:0 acl -caps -gmp -hostname -kill -multicall nls openssl -selinux split-usr -static -test -vanilla -verify-sig xattr >sys-apps/dbus-1.15.8:0 -X -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -doc elogind -selinux -static-libs -systemd -test -test -valgrind >sys-apps/diffutils-3.10:0 nls -verify-sig >sys-apps/file-5.45-r4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 bzip2 -lzip -lzma -python python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -seccomp -static-libs -verify-sig zlib -zstd >sys-apps/findutils-4.9.0-r2:0 nls -selinux -static -test -verify-sig >sys-apps/gawk-5.3.0-r1:0 -mpfr nls -pma readline -verify-sig >sys-apps/gentoo-functions-1.6:0 -test >sys-apps/grep-3.11-r1:0 egrep-fgrep nls pcre -static -verify-sig >sys-apps/groff-1.23.0:0 -X -examples -uchardet >sys-apps/help2man-1.49.3:0 nls >sys-apps/hwdata-0.382:0 >sys-apps/install-xattr-0.8-r1:0 >sys-apps/iproute2-6.9.0:0 -atm -berkdb -bpf -caps -elf iptables -minimal -nfs -selinux >sys-apps/kbd-2.6.4:0 nls pam -selinux -test >sys-apps/kmod-32-r1:0 -debug -doc lzma -pkcs7 split-usr -static-libs tools zlib zstd >sys-apps/less-643-r2:0 pcre -test >sys-apps/locale-gen-2.23-r1:0 >sys-apps/man-db-2.12.1:0 manpager nls seccomp -selinux -static-libs zlib >sys-apps/man-pages-6.06:0 l10n_cs l10n_da l10n_de l10n_el l10n_es l10n_fi l10n_fr l10n_hu l10n_id l10n_it l10n_ja l10n_mk l10n_nb l10n_nl l10n_pl l10n_pt-BR l10n_ro l10n_ru l10n_sr l10n_sv l10n_uk l10n_vi l10n_zh-CN -verify-sig >sys-apps/miscfiles-1.5-r4:0 -minimal >sys-apps/net-tools-2.10:0 arp hostname ipv6 -nis nls -plipconfig -selinux -slattach -static >sys-apps/openrc-0.54:0 -audit -bash -debug netifrc -newnet pam -s6 -selinux -sysv-utils sysvinit unicode >sys-apps/portage-3.0.64-r3:0 -apidoc -build -doc -gentoo-dev ipc native-extensions python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 rsync-verify -selinux -test xattr >sys-apps/sandbox-2.38:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 nnp >sys-apps/sed-4.9-r1:0 acl nls -selinux -static -verify-sig >sys-apps/shadow-4.14.7:0/4 acl -audit -cracklib nls pam -selinux -skey split-usr -su -systemd -verify-sig xattr >sys-apps/systemd-utils-254.13:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 acl -boot -kernel-install kmod -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 -secureboot -selinux split-usr -sysusers -test tmpfiles udev -ukify >sys-apps/sysvinit-3.09:0 -ibm nls -selinux -static -verify-sig >sys-apps/texinfo-7.1-r1:0 nls standalone -static >sys-apps/util-linux-2.40.1-r3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -audit -build -caps cramfs -cryptsetup -fdformat hardlink -kill logger -magic ncurses nls pam -python python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 readline -rtas -selinux -slang -static-libs su suid -systemd -test -tty-helpers -udev unicode -uuidd -verify-sig >sys-apps/which-2.21:0 >sys-auth/elogind-252.9:0 acl -audit cgroup-hybrid -debug -doc pam policykit -selinux -test >sys-auth/pambase-20240128:0 -caps -debug elogind -gnome-keyring -homed -minimal -mktemp nullok -pam_krb5 -pam_ssh passwdqc -pwhistory -pwquality -securetty -selinux sha512 -sssd -systemd -yescrypt >sys-auth/passwdqc-2.0.3-r1:0 >sys-auth/polkit-124-r1:0 daemon duktape -examples -gtk introspection -kde pam -selinux -systemd -test >sys-devel/bc-1.07.1-r6:0 -libedit readline -static >sys-devel/binutils-2.42-r1:2.42 -cet -debuginfod -doc -gold -gprofng -hardened -multitarget nls -pgo plugins -static-libs -test -vanilla -zstd >sys-devel/binutils-config-5.5:0 native-symlinks >sys-devel/bison-3.8.2-r2:0 -examples nls -static -test -verify-sig >sys-devel/clang-18.1.6:18/18.1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -doc -doc extra -ieee-long-double llvm_targets_AArch64 llvm_targets_AMDGPU -llvm_targets_ARC llvm_targets_ARM llvm_targets_AVR llvm_targets_BPF -llvm_targets_CSKY -llvm_targets_DirectX llvm_targets_Hexagon llvm_targets_Lanai llvm_targets_LoongArch -llvm_targets_M68k llvm_targets_MSP430 llvm_targets_Mips llvm_targets_NVPTX llvm_targets_PowerPC llvm_targets_RISCV -llvm_targets_SPIRV llvm_targets_Sparc llvm_targets_SystemZ llvm_targets_VE llvm_targets_WebAssembly llvm_targets_X86 llvm_targets_XCore -llvm_targets_Xtensa pie -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 static-analyzer -test -test -verify-sig -xml >sys-devel/clang-17.0.6:17/17 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -doc -doc extra -ieee-long-double llvm_targets_AArch64 llvm_targets_AMDGPU -llvm_targets_ARC llvm_targets_ARM llvm_targets_AVR llvm_targets_BPF -llvm_targets_CSKY -llvm_targets_DirectX llvm_targets_Hexagon llvm_targets_Lanai llvm_targets_LoongArch -llvm_targets_M68k llvm_targets_MSP430 llvm_targets_Mips llvm_targets_NVPTX llvm_targets_PowerPC llvm_targets_RISCV -llvm_targets_SPIRV llvm_targets_Sparc llvm_targets_SystemZ llvm_targets_VE llvm_targets_WebAssembly llvm_targets_X86 llvm_targets_XCore -llvm_targets_Xtensa pie -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 static-analyzer -test -test -verify-sig -xml >sys-devel/clang-common-18.1.6:0 -bootstrap-prefix -cet -default-compiler-rt -default-libcxx -default-lld -hardened -llvm-libunwind -verify-sig >sys-devel/clang-runtime-18.1.6:18 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 compiler-rt -libcxx openmp sanitize >sys-devel/clang-runtime-17.0.6:17 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 compiler-rt -libcxx openmp sanitize >sys-devel/clang-toolchain-symlinks-18:18 -gcc-symlinks -multilib-symlinks native-symlinks >sys-devel/clang-toolchain-symlinks-17:17 -gcc-symlinks -multilib-symlinks native-symlinks >sys-devel/flex-2.6.4-r6:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 nls -static -test >sys-devel/gcc-14.1.1_p20240525:14 -ada -cet -custom-cflags cxx -d -debug -default-stack-clash-protection -default-znow -doc -fixed-point fortran -go graphite -hardened -ieee-long-double -jit -libssp lto -modula2 multilib nls -objc -objc++ -objc-gc openmp -pch -pgo pie -rust sanitize ssp -systemtap -test -valgrind -vanilla -vtv -zstd >sys-devel/gcc-config-2.11:0 cc-wrappers native-symlinks >sys-devel/gettext-0.22.5:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 acl cxx -doc -emacs -git -java -java ncurses nls openmp -static-libs -verify-sig xattr >sys-devel/gnuconfig-20240101:0 >sys-devel/llvm-18.1.6:18/18.1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 binutils-plugin -debug -debuginfod -doc -doc -exegesis -libedit libffi llvm_targets_AArch64 llvm_targets_AMDGPU -llvm_targets_ARC llvm_targets_ARM llvm_targets_AVR llvm_targets_BPF -llvm_targets_CSKY -llvm_targets_DirectX llvm_targets_Hexagon llvm_targets_Lanai llvm_targets_LoongArch -llvm_targets_M68k llvm_targets_MSP430 llvm_targets_Mips llvm_targets_NVPTX llvm_targets_PowerPC llvm_targets_RISCV -llvm_targets_SPIRV llvm_targets_Sparc llvm_targets_SystemZ llvm_targets_VE llvm_targets_WebAssembly llvm_targets_X86 llvm_targets_XCore -llvm_targets_Xtensa ncurses -test -verify-sig -xml -z3 -zstd >sys-devel/llvm-17.0.6:17/17 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 binutils-plugin -debug -debuginfod -doc -doc -exegesis -libedit libffi llvm_targets_AArch64 llvm_targets_AMDGPU -llvm_targets_ARC llvm_targets_ARM llvm_targets_AVR llvm_targets_BPF -llvm_targets_CSKY -llvm_targets_DirectX llvm_targets_Hexagon llvm_targets_Lanai llvm_targets_LoongArch -llvm_targets_M68k llvm_targets_MSP430 llvm_targets_Mips llvm_targets_NVPTX llvm_targets_PowerPC llvm_targets_RISCV -llvm_targets_SPIRV llvm_targets_Sparc llvm_targets_SystemZ llvm_targets_VE llvm_targets_WebAssembly llvm_targets_X86 llvm_targets_XCore -llvm_targets_Xtensa ncurses -test -verify-sig -xar -xml -z3 -zstd >sys-devel/llvm-common-18.1.6:0 -emacs -verify-sig >sys-devel/llvm-toolchain-symlinks-18:18 -multilib-symlinks native-symlinks >sys-devel/llvm-toolchain-symlinks-17:17 -multilib-symlinks native-symlinks >sys-devel/llvmgold-18:0 >sys-devel/m4-1.4.19-r2:0 -examples nls -verify-sig >sys-devel/patch-2.7.6-r5:0 -static -test -verify-sig xattr >sys-fs/e2fsprogs-1.47.0-r3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cron -fuse nls -static-libs -test tools >sys-fs/udev-init-scripts-35:0 >sys-kernel/dracut-101:0 -selinux -test >sys-kernel/gentoo-kernel-bin-6.1.92:6.1.92 initramfs -test >sys-kernel/installkernel-38:0 dracut -efistub -grub -refind -systemd -systemd-boot -uki -ukify >sys-kernel/linux-headers-6.9:0 -headers-only >sys-libs/binutils-libs-2.42-r1:0/2.42.0 -64-bit-bfd -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cet -multitarget nls -static-libs -test >sys-libs/compiler-rt-18.1.6:18 abi_x86_32 abi_x86_64 clang -debug -test -verify-sig >sys-libs/compiler-rt-17.0.6:17 abi_x86_32 abi_x86_64 clang -debug -test -verify-sig >sys-libs/compiler-rt-sanitizers-18.1.6:18 abi_x86_32 abi_x86_64 asan cfi clang -debug dfsan gwp-asan hwasan libfuzzer lsan memprof msan orc profile safestack scudo -shadowcallstack -test -test tsan ubsan -verify-sig xray >sys-libs/compiler-rt-sanitizers-17.0.6:17 abi_x86_32 abi_x86_64 asan cfi clang -debug dfsan gwp-asan hwasan libfuzzer lsan memprof msan orc profile safestack scudo -shadowcallstack -test -test tsan ubsan -verify-sig xray >sys-libs/gdbm-1.23:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 berkdb nls readline -static-libs -test -verify-sig >sys-libs/glibc-2.39-r7:2.2 -audit -caps -cet -compile-locales -custom-cflags -doc -gd -hash-sysv-compat -headers-only multiarch multilib -multilib-bootstrap -nscd -perl -profile -selinux ssp stack-realign static-libs -suid -systemd -systemtap -test -vanilla >sys-libs/libcap-2.70:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 pam -static-libs -tools >sys-libs/libomp-18.1.6:0/18.1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -gdb-plugin -hwloc -llvm_targets_AMDGPU -llvm_targets_NVPTX -offload -ompt -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 -test -verify-sig >sys-libs/libseccomp-2.5.5-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -experimental-loong -python python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -static-libs -test >sys-libs/libxcrypt-4.4.36-r3:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 compat -headers-only -static-libs system -test >sys-libs/mtdev-1.1.7:0 >sys-libs/ncurses-6.4_p20240414:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 -ada cxx -debug -doc -gpm -minimal -profile split-usr -split-usr stack-realign -static-libs -test tinfo -trace -verify-sig >sys-libs/pam-1.6.1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -audit -berkdb -debug -examples filecaps -nis -selinux >sys-libs/readline-8.2_p10:0/8 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs unicode -utils -verify-sig >sys-libs/timezone-data-2024a-r1:0 -leaps-timezone nls -zic-slim >sys-libs/zlib-1.3.1-r1:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 minizip -static-libs -verify-sig >sys-process/procps-4.0.4-r1:0/0-ng -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 elogind kill -modern-top ncurses nls -selinux -static-libs -systemd -test unicode >sys-process/psmisc-23.7:0 -X -apparmor nls -selinux -test >virtual/acl-0-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs >virtual/cblas-3.8:0 -eselect-ldso >virtual/dev-manager-0-r2:0 >virtual/dist-kernel-6.1.92:0/6.1.92 >virtual/editor-0-r7:0 >virtual/fortran-0-r1:0 openmp >virtual/glu-9.0-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 >virtual/jpeg-100-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs >virtual/lapack-3.10:0 -eselect-ldso >virtual/libc-1-r1:0 >virtual/libcrypt-2-r1:0/2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs >virtual/libelf-3-r1:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 >virtual/libiconv-0-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 >virtual/libintl-0-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 >virtual/libudev-251-r2:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -systemd >virtual/man-0-r4:0 >virtual/opengl-7.0-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 >virtual/openssh-0:0 ssl >virtual/os-headers-0-r2:0 >virtual/package-manager-1:0 >virtual/pager-0-r1:0 >virtual/perl-bignum-0.660.0:0 >virtual/perl-Carp-1.540.0-r1:0 >virtual/perl-Compress-Raw-Bzip2-2.204.1_rc:0 >virtual/perl-Compress-Raw-Zlib-2.212.0-r1:0 >virtual/perl-CPAN-2.360.0-r1:0 >virtual/perl-CPAN-Meta-2.150.10-r8:0 >virtual/perl-CPAN-Meta-YAML-0.18.0-r10:0 >virtual/perl-Data-Dumper-2.188.0:0 >virtual/perl-Digest-MD5-2.580.100_rc-r1:0 >virtual/perl-Encode-3.210.0-r1:0 >virtual/perl-Exporter-5.770.0-r1:0 >virtual/perl-ExtUtils-CBuilder-0.280.238:0 >virtual/perl-ExtUtils-Install-2.220.0-r1:0 >virtual/perl-ExtUtils-MakeMaker-7.700.0-r1:0 >virtual/perl-ExtUtils-Manifest-1.730.0-r2:0 >virtual/perl-ExtUtils-ParseXS-3.510.0-r1:0 >virtual/perl-File-Path-2.180.0-r3:0 >virtual/perl-File-Spec-3.880.0:0 >virtual/perl-File-Temp-0.231.100-r1:0 >virtual/perl-Getopt-Long-2.570.0-r1:0 >virtual/perl-IO-1.520.0:0 >virtual/perl-IO-Compress-2.204.0:0 >virtual/perl-IO-Socket-IP-0.410.100_rc:0 >virtual/perl-JSON-PP-4.160.0-r2:0 >virtual/perl-libnet-3.150.0-r1:0 ssl >virtual/perl-Math-BigInt-1.999.842:0 >virtual/perl-Math-BigInt-FastCalc-0.501.300:0 >virtual/perl-Math-BigRat-0.262.400:0 >virtual/perl-Math-Complex-1.620.0-r1:0 >virtual/perl-MIME-Base64-3.160.100_rc-r1:0 >virtual/perl-Module-Load-0.360.0-r4:0 >virtual/perl-Module-Metadata-1.0.37-r3:0 >virtual/perl-parent-0.241.0-r1:0 >virtual/perl-Parse-CPAN-Meta-2.150.10-r8:0 >virtual/perl-Perl-OSType-1.10.0-r8:0 >virtual/perl-podlators-5.10.0:0 >virtual/perl-Scalar-List-Utils-1.630.0-r1:0 >virtual/perl-Test-Harness-3.440.0-r1:0 >virtual/perl-Text-ParseWords-3.310.0-r3:0 >virtual/perl-Time-Local-1.300.0-r2:0 >virtual/perl-Unicode-Collate-1.310.0-r2:0 >virtual/perl-version-0.992.900-r1:0 >virtual/perl-XSLoader-0.320.0-r1:0 >virtual/pkgconfig-3:0 native-symlinks >virtual/service-manager-1-r1:0 >virtual/ssh-0-r2:0 -minimal >virtual/tmpfiles-0-r5:0 -systemd >virtual/ttf-fonts-1-r2:0 >virtual/udev-217-r7:0 -systemd >virtual/w3m-1:0 >www-client/pybugz-0.14:0 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 >www-client/w3m-0.5.3_p20230121:0 -X -fbcon -gdk-pixbuf -gpm -imlib l10n_ja -lynxkeymap nls -nntp ssl unicode -xface >x11-base/xcb-proto-1.17.0:0 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 >x11-base/xorg-proto-2024.1:0 -test >x11-libs/cairo-1.18.0:0 X -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -aqua -debug glib -gtk-doc -test >x11-libs/gdk-pixbuf-2.42.10-r1:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -gtk-doc introspection jpeg -test -tiff >x11-libs/libdrm-2.4.120:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 -test -tools -udev -valgrind video_cards_amdgpu -video_cards_exynos -video_cards_freedreno video_cards_intel video_cards_nouveau -video_cards_omap 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-abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 >x11-libs/xcb-util-keysyms-0.4.1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 >x11-libs/xcb-util-renderutil-0.3.10:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 >x11-libs/xcb-util-wm-0.4.2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 >x11-libs/xtrans-1.5.0:0 -doc >x11-misc/compose-tables-1.8.9:0 >x11-misc/shared-mime-info-2.4-r1:0 -test >x11-misc/xdg-utils-1.2.1-r1:0 -X -dbus -doc -gnome >x11-misc/xkeyboard-config-2.41:0 -test > > >############# ># build.log # >############# > > >>>> Unpacking source... >>>> Unpacking pymol-1.8.4.0.png.xz to /var/tmp/portage/sci-chemistry/pymol-3.0.0/work >>>> Unpacking pymol-3.0.0.tar.gz to /var/tmp/portage/sci-chemistry/pymol-3.0.0/work >>>> Source unpacked in /var/tmp/portage/sci-chemistry/pymol-3.0.0/work >>>> Preparing source in /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0 ... > * Applying pymol-2.5.0-format-security.patch ... > [ ok ] > * Build system packages: > * dev-python/gpep517 : 16 > * dev-python/installer : 0.7.0 > * dev-python/cython : 3.0.10 > * dev-python/setuptools : 70.0.0 > * dev-python/setuptools-rust : > * dev-python/setuptools-scm : 8.1.0 > * dev-python/wheel : 0.43.0 >>>> Source prepared. >>>> Configuring source in /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0 ... > * Using python3.12 in global scope > * python3_12: running distutils-r1_run_phase python_configure_all >>>> Source configured. >>>> Compiling source in /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0 ... > * python3_10: running distutils-r1_run_phase distutils-r1_python_compile > * Building the wheel for pymol-open-source-3.0.0 via setuptools.build_meta:__legacy__ >python3.10 -m gpep517 build-wheel --prefix=/usr --backend setuptools.build_meta:__legacy__ --output-fd 3 --wheel-dir /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/wheel >2024-05-31 03:52:24,717 gpep517 INFO Building wheel via backend setuptools.build_meta:__legacy__ >2024-05-31 03:52:24,736 root INFO creating build >2024-05-31 03:52:24,736 root INFO creating build/generated >fatal: not a git repository (or any parent up to mount point /var/tmp) >Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). >2024-05-31 03:52:24,845 root INFO running bdist_wheel >2024-05-31 03:52:24,870 root INFO running build >2024-05-31 03:52:24,870 root INFO running build_py >2024-05-31 03:52:24,871 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build >2024-05-31 03:52:24,872 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310 >2024-05-31 03:52:24,872 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/pymol2 >2024-05-31 03:52:24,872 root INFO copying modules/pymol2/cmd2.py -> /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/pymol2 >2024-05-31 03:52:24,873 root INFO copying modules/pymol2/__init__.py -> /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/pymol2 >2024-05-31 03:52:24,874 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/pymol >2024-05-31 03:52:24,874 root INFO copying modules/pymol/xwin.py -> /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/pymol >2024-05-31 03:52:24,875 root INFO copying modules/pymol/xray.py -> 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modules/chempy/pdb.py -> /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/chempy >2024-05-31 03:52:24,939 root INFO copying modules/chempy/neighbor.py -> /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/chempy >2024-05-31 03:52:24,940 root INFO copying modules/chempy/mol2.py -> /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/chempy >2024-05-31 03:52:24,940 root INFO copying modules/chempy/mol.py -> /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/chempy >2024-05-31 03:52:24,941 root INFO copying modules/chempy/models.py -> /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/chempy >2024-05-31 03:52:24,941 root INFO copying modules/chempy/mmd.py -> 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INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/build >2024-05-31 03:52:24,983 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib >2024-05-31 03:52:24,983 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/build/generated >2024-05-31 03:52:24,984 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ >2024-05-31 03:52:24,984 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc >2024-05-31 03:52:24,984 root INFO creating 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/var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2 >2024-05-31 03:52:24,989 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3 >2024-05-31 03:52:24,990 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer4 >2024-05-31 03:52:24,991 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer5 >2024-05-31 03:52:24,991 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov >2024-05-31 03:52:24,991 root INFO creating /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src >2024-05-31 03:52:25,016 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -Icontrib/champ -I/usr/include/python3.10 -c -MMD contrib/champ/champ.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/champ.o >2024-05-31 03:52:25,016 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -Icontrib/champ -I/usr/include/python3.10 -c -MMD contrib/champ/champ_module.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/champ_module.o >2024-05-31 03:52:25,017 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -Icontrib/champ -I/usr/include/python3.10 -c -MMD contrib/champ/chiral.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/chiral.o >2024-05-31 03:52:25,017 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -Icontrib/champ -I/usr/include/python3.10 -c -MMD contrib/champ/err2.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/err2.o >2024-05-31 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03:52:25,028 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -Icontrib/champ -I/usr/include/python3.10 -c -MMD contrib/champ/os_memory.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/os_memory.o >2024-05-31 03:52:25,042 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -Icontrib/champ -I/usr/include/python3.10 -c -MMD contrib/champ/sort.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/sort.o >2024-05-31 03:52:25,049 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -Icontrib/champ -I/usr/include/python3.10 -c -MMD contrib/champ/strblock.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/strblock.o >2024-05-31 03:52:25,051 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -Icontrib/champ -I/usr/include/python3.10 -c -MMD contrib/champ/vla.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/vla.o >2024-05-31 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x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -Werror=return-type -Wunused-variable -Wno-switch 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/var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,097 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,098 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,105 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,106 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/champ/os_memory.c: In function âOSMemoryZeroâ: >contrib/champ/os_memory.c:55:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] > 55 | while(count&&(((int)p)&mask)) { > | ^ >contrib/champ/os_memory.c: In function âOSMemoryHashAddâ: >contrib/champ/os_memory.c:137:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] > 137 | hash=(int)rec; > | ^ >contrib/champ/os_memory.c: In function âOSMemoryHashRemoveâ: >contrib/champ/os_memory.c:150:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] > 150 | hash=(int)rec; > | ^ >2024-05-31 03:52:25,106 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,109 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,115 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,116 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,129 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function âabinit_readlineâ: >contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:279:19: warning: comparison of integer expressions of different signedness: âintâ and âsize_tâ {aka âlong unsigned intâ} [-Wsign-compare] > 279 | for (i = 0; i < strlen(line); ++i) { > | ^ >2024-05-31 03:52:25,132 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,141 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,142 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,144 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >In file included from contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:42: >contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function âangular_momentum_exponâ: >contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: âintâ and âsize_tâ {aka âlong unsigned intâ} [-Wsign-compare] > 545 | for (i=0; i<strlen(ang_mom_str); i++) { > | ^ >2024-05-31 03:52:25,145 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,154 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,174 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,175 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,177 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function âint read_bgf_timestep(void*, int, molfile_timestep_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:243:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 243 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:252:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 252 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function âint read_bgf_bonds_aux(void*, int*, int**, int**, float**)â: >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:328:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 328 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:346:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 346 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:355:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 355 | fgets(nextline, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:419:14: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 419 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function âint read_bgf_structure(void*, int*, molfile_atom_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:194:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 194 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:203:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 203 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function âvoid* open_bgf_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:59:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 59 | fgets(line, LINESIZE, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,185 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,185 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,187 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,188 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,195 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51: >contrib/uiuc/plugins/molfile_plugin/src/fastio.h: In function âfio_readvâ: >2024-05-31 03:52:25,196 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/hash.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/hash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/fastio.h:519:14: warning: comparison of integer expressions of different signedness: âfio_size_tâ {aka âlong intâ} and âsize_tâ {aka âlong unsigned intâ} [-Wsign-compare] > 519 | if (rc != iov[i].iov_len) > | ^~ >2024-05-31 03:52:25,196 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/inthash.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/inthash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,198 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,198 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,200 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,207 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: >contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function âangular_momentum_exponâ: >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function âread_dcdheaderâ: >contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: âintâ and âsize_tâ {aka âlong unsigned intâ} [-Wsign-compare] > 545 | for (i=0; i<strlen(ang_mom_str); i++) { > | ^ >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:191:57: warning: comparison of integer expressions of different signedness: âunsigned intâ and âintâ [-Wsign-compare] > 191 | } else if (input_integer[0] == 84 && input_integer[1] == dcdcordmagic) { > | ^~ >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:204:54: warning: comparison of integer expressions of different signedness: âunsigned intâ and âintâ [-Wsign-compare] > 204 | if (input_integer[0] == 84 && input_integer[1] == dcdcordmagic) { > | ^~ >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:222:26: warning: comparison of integer expressions of different signedness: âunsigned intâ and âintâ [-Wsign-compare] > 222 | if (input_integer[0] != dcdcordmagic) { > | ^~ >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:399:45: warning: comparison of integer expressions of different signedness: âunsigned intâ and âintâ [-Wsign-compare] > 399 | if ((input_integer[0]+input_integer[1]) != ((*N)-(*NAMNF))*4) { > | ^~ >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:416:45: warning: comparison of integer expressions of different signedness: âunsigned intâ and âintâ [-Wsign-compare] > 416 | if ((input_integer[0]+input_integer[1]) != ((*N)-(*NAMNF))*4) { > | ^~ >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function âread_dcdstepâ: >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:621:23: warning: comparison of integer expressions of different signedness: âintâ and âlong unsigned intâ [-Wsign-compare] > 621 | if (tmpbuf[i] != sizeof(float)*N) return DCD_BADFORMAT; > | ^~ >contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:625:43: warning: comparison of integer expressions of different signedness: âintâ and âlong unsigned intâ [-Wsign-compare] > 625 | if ((tmpbuf[2*i]+tmpbuf[2*i+1]) != sizeof(float)*N) return DCD_BADFORMAT; > | ^~ >2024-05-31 03:52:25,213 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,215 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,224 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,227 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,234 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,242 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp: In function âvoid* open_grid_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:84:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 84 | fread(&dataBegin, sizeof(int), 1, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,249 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,260 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,262 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:79: >contrib/uiuc/plugins/molfile_plugin/src/fastio.h: In function âfio_readvâ: >contrib/uiuc/plugins/molfile_plugin/src/fastio.h:519:14: warning: comparison of integer expressions of different signedness: âfio_size_tâ {aka âlong intâ} and âsize_tâ {aka âlong unsigned intâ} [-Wsign-compare] > 519 | if (rc != iov[i].iov_len) > | ^~ >2024-05-31 03:52:25,262 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,263 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function âint read_mol2_timestep(void*, int, molfile_timestep_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:275:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 275 | fgets(line, LINESIZE, mol2->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:289:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 289 | fgets(line, LINESIZE, mol2->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function âint read_mol2_bonds_aux(void*, int*, int**, int**, float**)â: >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:199:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 199 | fgets(line, LINESIZE, mol2->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:209:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 209 | fgets(line, LINESIZE, mol2->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,273 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,273 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function âint read_mol2(void*, int*, molfile_atom_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:127:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 127 | fgets(line, LINESIZE, mol2->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:138:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 138 | fgets(line, LINESIZE, mol2->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function âvoid* open_mol2_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:74:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 74 | fgets(line, LINESIZE, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:81:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 81 | fgets(line, LINESIZE, fd); // Read and ignore the mol_name > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:82:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 82 | fgets(line, LINESIZE, fd); // Read the molecule info > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:91:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 91 | fgets(line, LINESIZE, fd); // Read and ignore the mol_type > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:92:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 92 | fgets(line, LINESIZE, fd); // Read the charge_type > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49: >contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function âangular_momentum_exponâ: >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function âint read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)â: >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:278:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 278 | fgets(line, LINESIZE, mdf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:297:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 297 | fgets(line, LINESIZE, mdf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:319:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 319 | fgets(line, LINESIZE, mdf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:357:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 357 | fgets(line, LINESIZE, mdf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: âintâ and âsize_tâ {aka âlong unsigned intâ} [-Wsign-compare] > 545 | for (i=0; i<strlen(ang_mom_str); i++) { > | ^ >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function âint read_mdf_structure(void*, int*, molfile_atom_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:223:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 223 | fgets(line, LINESIZE, mdf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:241:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 241 | fgets(line, LINESIZE, mdf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function âvoid* open_mdf_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:164:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 164 | fgets(line, LINESIZE, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:176:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 176 | fgets(line, LINESIZE, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:183:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 183 | fgets(line, LINESIZE, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,288 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,289 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,296 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,296 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function âwrite_timestepâ: >contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:206:55: warning: comparison of integer expressions of different signedness: âsize_tâ {aka âlong unsigned intâ} and âintâ [-Wsign-compare] > 206 | if (fwrite(tmp, sizeof(double), 3*n, namdbin->fd) != 3*n) { > | ^~ >contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c: In function âread_mmtk_cdf_structureâ: >contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c:730:15: warning: comparison of integer expressions of different signedness: âintâ and âlong unsigned intâ [-Wsign-compare] > 730 | if (len > sizeof(name)) { > | ^ >contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c: In function âread_mmtk_cdf_timestepâ: >contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c:1060:16: warning: comparison of integer expressions of different signedness: âintâ and âsize_tâ {aka âlong unsigned intâ} [-Wsign-compare] > 1060 | for (i=0; i<(3 * mmtk->atom_numberdim); i++) { > | ^ >2024-05-31 03:52:25,297 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,299 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,306 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function âint read_dsn6_data(void*, int, float*, float*)â: >contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:233:14: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 233 | fread(brick, sizeof(char), 512, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function âvoid* open_dsn6_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:91:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 91 | fread(fileHeader, sizeof(short), 19, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,307 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function âint read_brix_data(void*, int, float*, float*)â: >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:247:14: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 247 | fread(brick, sizeof(char), 512, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function âvoid* open_ccp4_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:304:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 304 | fgets(symData, 81, fd); > | ~~~~~^~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function âvoid* open_brix_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:79:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 79 | fscanf(fd, "%3s", keyWord); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:86:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 86 | fscanf(fd, " %s %d %d %d", keyWord, &org_x, &org_y, &org_z); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:93:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 93 | fscanf(fd, " %s %d %d %d", keyWord, &ext_x, &ext_y, &ext_z); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:100:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 100 | fscanf(fd, " %s %f %f %f", keyWord, &grid_x, &grid_y, &grid_z); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:109:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 109 | fscanf(fd, " %s %f %f %f %f %f %f", keyWord, > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 110 | &cell_x, &cell_y, &cell_z, &cell_alpha, &cell_beta, &cell_gamma); > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:123:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 123 | fscanf(fd, " %s %f", keyWord, &prod); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:128:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 128 | fscanf(fd, " %s %f", keyWord, &plus); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:135:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 135 | fscanf(fd, " %s %f", keyWord, &sigma); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function âvoid* open_cube_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:175:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 175 | fgets(readbuf, 1023, cube->fd); // go on to next line > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:181:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 181 | fgets(readbuf, 1023, cube->fd); // skip second header line > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:326:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 326 | fgets(readbuf, 1023, cube->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:337:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 337 | fgets(readbuf, 1023, cube->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:339:11: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 339 | fscanf(cube->fd, "%d", &cube->nsets); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:344:13: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 344 | fscanf(cube->fd, "%d", &orb); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:349:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 349 | fgets(readbuf, 1023, cube->fd); // gobble up rest of line > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,308 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,316 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp: In function âint read_parm7_structure(void*, int*, molfile_atom_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:78:14: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 78 | fgets(buf, 85, file); > | ~~~~~^~~~~~~~~~~~~~~ >In file included from contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:25: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function âint parse_parm7_atoms(const char*, int, molfile_atom_t*, FILE*)â: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:204:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 204 | fgets(buf, 85, file); > | ~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function âint parse_parm7_atype(const char*, int, molfile_atom_t*, FILE*)â: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:257:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 257 | fgets(buf, 85, file); > | ~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function âint parse_parm7_resnames(const char*, int, char*, FILE*)â: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:275:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 275 | fgets(buf, 85, file); > | ~~~~~^~~~~~~~~~~~~~~ >2024-05-31 03:52:25,317 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,325 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function âint parse_parm7_respointers(const char*, int, molfile_atom_t*, int, const char*, FILE*)â: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:289:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 289 | fscanf(file, " %d", &cur); > | ~~~~~~^~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function âparmstruct* read_parm7_header(FILE*)â: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:368:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 368 | fgets(sdum, 512, file); > | ~~~~~^~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:371:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 371 | fscanf(file, "%s\n", sdum); // "%FLAG" > | ~~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:378:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 378 | fscanf(file, "%s\n", sdum); // "TITLE" or "CTITLE" > | ~~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:385:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 385 | fscanf(file, "%s\n", sdum); // "FORMAT (20a4)" > | ~~~~~~^~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:399:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 399 | fgets(prm->title, sizeof(prm->title), file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:427:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 427 | fgets(sdum, sizeof(sdum), file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:439:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 439 | fscanf(file,parm7, > | ~~~~~~^~~~~~~~~~~~ > 440 | &prm->Natom, &prm->Ntypes, &prm->Nbonh, &prm->Nbona, > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 441 | &prm->Ntheth, &prm->Ntheta, &prm->Nphih, &prm->Nphia, > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 442 | &prm->Jparm, &prm->Nparm); > | ~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:443:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 443 | fscanf(file, parm7, > | ~~~~~~^~~~~~~~~~~~~ > 444 | &prm->Nnb, &prm->Nres, &prm->Mbona, &prm->Mtheta, > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 445 | &prm->Mphia, &prm->Numbnd, &prm->Numang, &prm->Mptra, > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 446 | &prm->Natyp, &prm->Nphb); > | ~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:447:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 447 | fscanf(file, parm7, &prm->Ifpert, &prm->Nbper, &prm->Ngper, > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 448 | &prm->Ndper, &prm->Mbper, &prm->Mgper, &prm->Mdper, > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 449 | &prm->IfBox, &prm->Nmxrs, &prm->IfCap); > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:451:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 451 | fscanf(file,"%8d",&prm->Numextra); //BB > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function âint read_parm7_flag(FILE*, const char*, const char*)â: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:79:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 79 | fscanf(file, "%s\n", buf); > | ~~~~~~^~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:87:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 87 | fscanf(file, "%s\n", buf); > | ~~~~~~^~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:97:9: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 97 | fscanf(file, "%s\n", buf); > | ~~~~~~^~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,327 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c: In function âwrite_psf_structureâ: >contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:782:33: warning: comparison of integer expressions of different signedness: âsize_tâ {aka âlong unsigned intâ} and âintâ [-Wsign-compare] > 782 | if (strlen(atoms[i].type) > fw) { > | ^ >In file included from contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:24: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h: In member function âint {anonymous}::ReadPARM::readparm(FILE*)â: >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:435:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 435 | fscanf(file, " " DBLFMT, &prm->Charges[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:444:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 444 | fscanf(file, " " DBLFMT, &prm->Masses[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:510:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 510 | fscanf(file, " " DBLFMT, &prm->Rk[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function âvoid* open_fs4_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:79:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 79 | fread(&dataBegin, sizeof(int), 1, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:517:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 517 | fscanf(file, " " DBLFMT, &prm->Req[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:524:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 524 | fscanf(file, " " DBLFMT, &prm->Tk[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:531:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 531 | fscanf(file, " " DBLFMT, &prm->Teq[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:538:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 538 | fscanf(file, " " DBLFMT, &prm->Pk[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:545:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 545 | fscanf(file, " " DBLFMT, &prm->Pn[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:552:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 552 | fscanf(file, " " DBLFMT, &prm->Phase[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:559:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 559 | fscanf(file, " " DBLFMT, &prm->Solty[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:567:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 567 | fscanf(file, " " DBLFMT, &prm->Cn1[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:575:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 575 | fscanf(file, " " DBLFMT, &prm->Cn2[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:756:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 756 | fscanf(file, " " DBLFMT, &prm->HB12[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:763:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 763 | fscanf(file, " " DBLFMT, &prm->HB6[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:771:17: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 771 | fscanf(file, " " DBLFMT, &H[i]); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:853:23: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 853 | fscanf(file, " " DBLFMT " " DBLFMT " " DBLFMT, > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 854 | &prm->Box[0], &prm->Box[1], &prm->Box[2]); > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:867:23: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 867 | fscanf(file, " %d " DBLFMT " " DBLFMT " " DBLFMT " " DBLFMT, > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 868 | &prm->Natcap, &prm->Cutcap, > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ > 869 | &prm->Xcap, &prm->Ycap, &prm->Zcap); > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function âint getUniqueResID(char*, int)â: >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:443:7: warning: unused variable âiâ [-Wunused-variable] > 443 | int i, uid; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function âint parseStructureFaster(molfile_atom_t*, int*, pdbxParser*)â: >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:484:47: warning: unused variable âjâ [-Wunused-variable] > 484 | int i, count, atomdata, pos, idx, xyzcount, j; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:503:8: warning: unused variable âoldChainâ [-Wunused-variable] > 503 | char oldChain[8]; > | ^~~~~~~~ >2024-05-31 03:52:25,343 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,344 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function âbool readAngleBonds(molfile_atom_t*, pdbxParser*)â: >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:803:7: warning: unused variable âbondTableâ [-Wunused-variable] > 803 | int bondTable[32]; > | ^~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:807:15: warning: unused variable âjâ [-Wunused-variable] > 807 | int i, pos, j, k; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:811:8: warning: unused variable âmodelNumâ [-Wunused-variable] > 811 | char modelNum[8]; > | ^~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:822:20: warning: unused variable âatomâ [-Wunused-variable] > 822 | molfile_atom_t * atom; > | ^~~~ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:884:7: warning: unused variable âtestâ [-Wunused-variable] > 884 | int test = parser->nbonds + bnum; > | ^~~~ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function âbool readRMSDBonds(molfile_atom_t*, pdbxParser*)â: >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:984:7: warning: unused variable âbondTableâ [-Wunused-variable] > 984 | int bondTable[32]; > | ^~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:988:15: warning: unused variable âjâ [-Wunused-variable] > 988 | int i, pos, j, k; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:991:8: warning: unused variable âmodelNumâ [-Wunused-variable] > 991 | char modelNum[8]; > | ^~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1002:20: warning: unused variable âatomâ [-Wunused-variable] > 1002 | molfile_atom_t * atom; > | ^~~~ >2024-05-31 03:52:25,345 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function âvoid* open_file_write(const char*, const char*, int)â: >contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1409:9: warning: unused variable âfdâ [-Wunused-variable] > 1409 | FILE* fd; > | ^~ >2024-05-31 03:52:25,353 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,353 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,363 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,372 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function âint read_edm_data(void*, int, float*, float*)â: >contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:240:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 240 | fgets(readbuf, 13, edm->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function âvoid eatline(FILE*)â: >contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:44:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 44 | fgets(readbuf, 1024, fd); // go on to next line > | ~~~~~^~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,373 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function âvoid line3(FILE*, GRASSP*)â: >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:186:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 186 | fread(line3, 1, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function âint read_rawgraphics(void*, int*, const molfile_graphics_t**)â: >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:284:3: note: in expansion of macro âTRASHâ > 284 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:285:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 285 | fread(line, 1, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:291:3: note: in expansion of macro âTRASHâ > 291 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:305:3: note: in expansion of macro âTRASHâ > 305 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:306:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 306 | fread(line, 1, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:307:3: note: in expansion of macro âTRASHâ > 307 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:311:3: note: in expansion of macro âTRASHâ > 311 | TRASH; > | ^~~~~ >2024-05-31 03:52:25,374 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:313:3: note: in expansion of macro âTRASHâ > 313 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:318:3: note: in expansion of macro âTRASHâ > 318 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:319:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 319 | fread(line, 1, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:320:3: note: in expansion of macro âTRASHâ > 320 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:328:3: note: in expansion of macro âTRASHâ > 328 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:329:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 329 | fread(line, 1, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:330:3: note: in expansion of macro âTRASHâ > 330 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:354:3: note: in expansion of macro âTRASHâ > 354 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:355:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 355 | fread(vertex, 3 * sizeof(float), nvert, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:356:3: note: in expansion of macro âTRASHâ > 356 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:357:3: note: in expansion of macro âTRASHâ > 357 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:358:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 358 | fread(access, 3 * sizeof(float), nvert, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:359:3: note: in expansion of macro âTRASHâ > 359 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:360:3: note: in expansion of macro âTRASHâ > 360 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:361:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 361 | fread(normal, 3 * sizeof(float), nvert, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:362:3: note: in expansion of macro âTRASHâ > 362 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:371:5: note: in expansion of macro âTRASHâ > 371 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:372:10: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 372 | fread(triangle, 3 * sizeof(int), ntriangles, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:373:5: note: in expansion of macro âTRASHâ > 373 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:374:5: note: in expansion of macro âTRASHâ > 374 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:375:10: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 375 | fread(properties, 3 * sizeof(float), nvert, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:394:5: note: in expansion of macro âTRASHâ > 394 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:395:10: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 395 | fread(striangle, sizeof(short), 3 * ntriangles, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:396:5: note: in expansion of macro âTRASHâ > 396 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 280 | #define TRASH fread(trash, 4, 1, infile) > | ~~~~~^~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:397:5: note: in expansion of macro âTRASHâ > 397 | TRASH; > | ^~~~~ >contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:398:10: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 398 | fread(properties, sizeof(float), 3 * nvert, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,388 root INFO x86_64-pc-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,390 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Bezier.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Bezier.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,391 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Block.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Block.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,399 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/CarveHelper.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/CarveHelper.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30: >contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function âint mdio_readline(md_file*, char*, int, int)â: >contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:426:14: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 426 | fgets(buf, n, mf->f); > | ~~~~~^~~~~~~~~~~~~~~ >2024-05-31 03:52:25,400 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/ContourSurf.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/ContourSurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,407 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Crystal.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Crystal.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,408 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Err.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Err.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,418 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Feedback.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Feedback.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,451 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Field.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Field.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,460 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/File.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/File.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp: In function âint read_rawgraphics(void*, int*, const molfile_graphics_t**)â: >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:91:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 91 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:116:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 116 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:132:9: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 132 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:149:11: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 149 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:155:20: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 155 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:161:11: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 161 | fgets(line, 80, infile); //one more read to keep us in sync > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:170:27: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 170 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:217:15: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 217 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:237:23: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 237 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:256:15: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 256 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,471 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/GFXManager.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/GFXManager.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,522 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/GenericBuffer.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/GenericBuffer.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,542 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/GraphicsUtil.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/GraphicsUtil.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,543 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Isosurf.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Isosurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function âint read_xbgf_timestep(void*, int, molfile_timestep_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:288:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 288 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:297:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 297 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function âint read_xbgf_bonds_aux(void*, int*, int**, int**, float**)â: >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:365:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 365 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:387:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 387 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:395:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 395 | fgets(nextline, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:455:14: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 455 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function âint read_xbgf_structure(void*, int*, molfile_atom_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:241:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 241 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:250:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 250 | fgets(line, LINESIZE, bgf->file); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,543 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Map.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Map.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function âvoid* open_xbgf_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:72:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 72 | fgets(line, LINESIZE, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,563 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Match.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Match.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,583 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Matrix.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Matrix.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,603 root INFO x86_64-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -DNDEBUG /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/champ.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/champ_module.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/chiral.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/err2.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/feedback2.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/list.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/os_memory.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/sort.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/strblock.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/contrib/champ/vla.o -L/usr/lib64 -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/chempy/champ/_champ.cpython-310-x86_64-linux-gnu.so >contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function âvoid* open_plt_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:69:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 69 | fread(intHeader, sizeof(int), 5, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:82:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 82 | fread(floatHeader, sizeof(float), 6, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,605 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/MemoryDebug.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/MemoryDebug.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30: >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function âvoid put_element_ply(PlyFile*, void*)â: >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:459:7: warning: unused variable âiâ [-Wunused-variable] > 459 | int i,j,k; > | ^ >2024-05-31 03:52:25,613 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/MemoryUsage.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/MemoryUsage.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function âvoid ascii_get_element(PlyFile*, char*)â: >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1407:7: warning: unused variable âiâ [-Wunused-variable] > 1407 | int i,j,k; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function âvoid binary_get_element(PlyFile*, char*)â: >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1541:7: warning: unused variable âiâ [-Wunused-variable] > 1541 | int i,j,k; > | ^ >2024-05-31 03:52:25,622 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/MyPNG.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/MyPNG.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,650 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Parse.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Parse.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,651 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Pixmap.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Pixmap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,651 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/PostProcess.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/PostProcess.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,653 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/ShaderMgr.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/ShaderMgr.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,664 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/ShaderPreprocessor.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/ShaderPreprocessor.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,665 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/ShaderPrg.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/ShaderPrg.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,674 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Sphere.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Sphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,723 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/TTT.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/TTT.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function âint read_spider_data(void*, int, float*, float*)â: >contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 286 | fread(datablock, total * sizeof(float), 1, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function âint read_rawgraphics(void*, int*, const molfile_graphics_t**)â: >contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:96:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 96 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:104:10: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 104 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:119:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 119 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:131:14: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 131 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:153:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 153 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:162:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 162 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:171:12: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 171 | fgets(line, 80, infile); > | ~~~~~^~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,724 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Tetsurf.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Tetsurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function âvoid* open_uhbd_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:102:8: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 102 | fread(&headersize, sizeof(int), 1, fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1629:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 1629 | fread (&len, sizeof(int), 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1631:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 1631 | fread (str, len, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function âvoid get_binary_item(FILE*, int, int*, unsigned int*, double*)â: >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2057:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 2057 | fread (ptr, 1, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2063:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 2063 | fread (ptr, 1, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2069:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 2069 | fread (ptr, 2, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2075:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 2075 | fread (ptr, 2, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2081:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 2081 | fread (ptr, 4, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2087:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 2087 | fread (ptr, 4, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2093:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 2093 | fread (ptr, 4, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2099:13: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 2099 | fread (ptr, 8, 1, fp); > | ~~~~~~^~~~~~~~~~~~~~~ >2024-05-31 03:52:25,732 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Texture.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Texture.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,743 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Tracker.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Tracker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,745 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Triangle.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Triangle.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,763 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Util.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Util.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,764 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Util2.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Util2.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,764 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Vector.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Vector.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,774 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/Word.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/Word.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,776 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/ccealignmodule.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/ccealignmodule.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,777 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/marching_cubes.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/marching_cubes.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,778 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer0/os_gl.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer0/os_gl.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,795 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Basis.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Basis.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function âvoid eatline(FILE*)â: >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:238:8: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 238 | fgets(readbuf, 1024, fd); // go on to next line > | ~~~~~^~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function âvoid* open_xsf_read(const char*, const char*, int*)â: >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:408:14: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 408 | fgets(readbuf, 256, xsf->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:442:20: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 442 | fgets(readbuf, 256, xsf->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:444:20: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 444 | fgets(readbuf, 256, xsf->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:446:20: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 446 | fgets(readbuf, 256, xsf->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:448:20: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 448 | fgets(readbuf, 256, xsf->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:450:20: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 450 | fgets(readbuf, 256, xsf->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:473:22: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 473 | fgets(readbuf, 256, xsf->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:508:16: warning: ignoring return value of âchar* fgets(char*, int, FILE*)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 508 | fgets(readbuf, 256, xsf->fd); > | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function âint read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:371:15: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 371 | fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function âint read_vtk_data(void*, int, float*, float*)â: >contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:306:15: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 306 | fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); > | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:25,803 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/ButMode.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/ButMode.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,804 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/CGO.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/CGO.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,828 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/CGOGL.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/CGOGL.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,842 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/CGORenderer.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/CGORenderer.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,859 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/COLLADA.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/COLLADA.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,870 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Camera.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Camera.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,871 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Character.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Character.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,872 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Color.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Color.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:25,883 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY 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-I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Picking.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Picking.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,211 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Pop.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Pop.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,311 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/PyMOLObject.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/PyMOLObject.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,419 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Ray.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Ray.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,607 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Rep.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Rep.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,617 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Scene.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Scene.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,639 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/SceneMouse.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/SceneMouse.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >layer0/MemoryUsage.cpp: In function âsize_t pymol::memory_usage()â: >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); > | ^~~~~~~~~ >2024-05-31 03:52:26,699 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/ScenePicking.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/ScenePicking.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In function âint {anonymous}::write_structure(void*, int, const molfile_atom_t*)â: >contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1904:9: warning: unused variable âlast_ctnumberâ [-Wunused-variable] > 1904 | int last_ctnumber = -1; > | ^~~~~~~~~~~~~ >2024-05-31 03:52:26,735 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/SceneRay.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/SceneRay.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,743 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/SceneRender.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/SceneRender.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >layer0/MemoryUsage.cpp:38:16: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â declared with attribute âwarn_unused_resultâ [-Wunused-result] > 38 | std::fscanf(fp, "%*zu%zu", &vmRSS); > | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ >2024-05-31 03:52:26,860 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/SceneView.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/SceneView.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,872 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/ScrollBar.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/ScrollBar.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,991 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Seq.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Seq.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:26,992 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Setting.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Setting.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:27,045 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/Shaker.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/Shaker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:27,070 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/SymOp.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/SymOp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:27,079 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer1/SymOpPConv.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer1/SymOpPConv.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:27,111 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML 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-I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/ObjectMolecule2.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectMolecule2.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:29,618 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/ObjectMolecule3.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectMolecule3.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:29,664 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/ObjectSlice.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectSlice.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:29,800 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/ObjectSurface.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectSurface.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:29,884 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/ObjectVolume.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectVolume.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,246 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepAngle.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepAngle.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,259 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepCartoon.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepCartoon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,308 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepCylBond.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepCylBond.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,325 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepDihedral.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepDihedral.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,328 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepDistDash.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepDistDash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >layer0/Texture.cpp: In function âbool TextureIsCharTextured(PyMOLGlobals*, int, float*)â: >layer0/Texture.cpp:130:9: warning: unused variable âuse_shaderâ [-Wunused-variable] > 130 | short use_shader = (short) SettingGetGlobal_b(G, cSetting_use_shaders); > | ^~~~~~~~~~ >2024-05-31 03:52:30,396 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepDistLabel.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepDistLabel.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,404 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepDot.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepDot.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,429 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepEllipsoid.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepEllipsoid.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,447 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepLabel.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepLabel.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,472 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepMesh.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepMesh.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,556 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepNonbonded.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepNonbonded.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,565 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepNonbondedSphere.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepNonbondedSphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,719 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepRibbon.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepRibbon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,748 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src 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-I/usr/lib/python3.10/site-packages/numpy/_core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.10 -c -MMD layer2/RepSphereGenerate.cpp -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepSphereGenerate.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O3 >2024-05-31 03:52:30,812 root INFO x86_64-pc-linux-gnu-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -flto -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing -std=c++17 -DNDEBUG -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src 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/var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/CifFile.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/CifMoleculeReader.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/CoordSet.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/DistSet.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/GadgetSet.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/HydrogenAdder.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/MmodTyping.o 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/var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectMolecule2.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectMolecule3.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectSlice.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectSurface.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/ObjectVolume.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepAngle.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepCartoon.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepCylBond.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepDihedral.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepDistDash.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepDistLabel.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepDot.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepEllipsoid.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepLabel.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepMesh.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepNonbonded.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepNonbondedSphere.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepRibbon.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepSphere.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepSphereGenerate.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepSphereImmediate.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepSurface.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/RepWireBond.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/Sculpt.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/SculptCache.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/SideChainHelper.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer2/VFont.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/AtomIterators.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/CifDataValueFormatter.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/Editor.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/Executive.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/ExecutivePython.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/Interactions.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/MaeExportHelpers.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/MoleculeExporter.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/MovieScene.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/PlugIOManager.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/RingFinder.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/Seeker.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/Selector.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/SelectorTmp.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/SpecRec.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer3/SpecRecSpecial.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer4/Cmd.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer4/Menu.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer4/PopUp.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer5/PyMOL.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer5/TestPyMOL.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/layer5/main.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src/OVContext.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src/OVHeap.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src/OVHeapArray.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src/OVLexicon.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src/OVOneToAny.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src/OVOneToOne.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src/OVRandom.o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/temp.linux-x86_64-cpython-310/ov/src/ov_utility.o -L/usr/lib64 -L/usr/lib -L/usr/lib64 -lpng -lfreetype -lxml2 -lGL -lGLEW -lnetcdf -o /var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/build/lib.linux-x86_64-cpython-310/pymol/_cmd.cpython-310-x86_64-linux-gnu.so -fopenmp >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:62:16: error: type âstruct parmâ violates the C++ One Definition Rule [-Werror=odr] > 62 | typedef struct parm { > | ^ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:59:16: note: a different type is defined in another translation unit > 59 | typedef struct parm { > | ^ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:63:8: note: the first difference of corresponding definitions is field âtitleâ > 63 | char title[85]; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:60:17: note: a field with different name is defined in another translation unit > 60 | char ititl[81]; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:33:3: error: type âstruct parmdataâ violates the C++ One Definition Rule [-Werror=odr] > 33 | } parmdata; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:32:3: note: a different type is defined in another translation unit > 32 | } parmdata; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:28:15: note: the first difference of corresponding definitions is field âprmâ > 28 | parmstruct *prm; > | ^ >contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:28:13: note: a field with different name is defined in another translation unit > 28 | ReadPARM *rp; > | ^ >layer0/Isosurf.cpp:47:16: error: type âstruct PointTypeâ violates the C++ One Definition Rule [-Werror=odr] > 47 | typedef struct PointType { > | ^ >layer0/Tetsurf.cpp:46:3: note: a different type is defined in another translation unit > 46 | } PointType; > | ^ >layer0/Isosurf.cpp:49:7: note: the first difference of corresponding definitions is field âNLinkâ > 49 | int NLink; > | ^ >layer0/Tetsurf.cpp:43:9: note: a field with different name is defined in another translation unit > 43 | float Normal[3]; > | ^ >ov/src/OVOneToAny.cpp:15:3: error: type âstruct up_elementâ violates the C++ One Definition Rule [-Werror=odr] > 15 | } up_element; > | ^ >ov/src/OVOneToOne.cpp:15:3: note: a different type is defined in another translation unit > 15 | } up_element; > | ^ >ov/src/OVOneToOne.cpp:14:25: note: the first difference of corresponding definitions is field âreverse_nextâ > 14 | ov_size forward_next, reverse_next; > | ^ >ov/src/OVOneToOne.cpp:15:3: note: a type with different number of fields is defined in another translation unit > 15 | } up_element; > | ^ >lto1: some warnings being treated as errors >lto-wrapper: fatal error: /usr/bin/x86_64-pc-linux-gnu-g++ returned 1 exit status >compilation terminated. >/usr/lib/gcc/x86_64-pc-linux-gnu/14/../../../../x86_64-pc-linux-gnu/bin/ld: error: lto-wrapper failed >collect2: error: ld returned 1 exit status >error: command '/usr/bin/x86_64-pc-linux-gnu-g++' failed with exit code 1 > * ERROR: sci-chemistry/pymol-3.0.0::gentoo failed (compile phase): > * Wheel build failed > * > * Call stack: > * ebuild.sh, line 136: Called src_compile > * environment, line 4481: Called distutils-r1_src_compile > * environment, line 1982: Called _distutils-r1_run_foreach_impl 'distutils-r1_python_compile' > * environment, line 769: Called python_foreach_impl 'distutils-r1_run_phase' 'distutils-r1_python_compile' > * environment, line 4073: Called multibuild_foreach_variant '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'distutils-r1_python_compile' > * environment, line 3503: Called _multibuild_run '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'distutils-r1_python_compile' > * environment, line 3501: Called _python_multibuild_wrapper 'distutils-r1_run_phase' 'distutils-r1_python_compile' > * environment, line 1284: Called distutils-r1_run_phase 'distutils-r1_python_compile' > * environment, line 1964: Called distutils-r1_python_compile > * environment, line 1779: Called distutils_pep517_install '/var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0-python3_10/install' > * environment, line 2355: Called die > * The specific snippet of code: > * local wheel=$("${cmd[@]}" 3>&1 1>&2 || die "Wheel build failed"); > * > * If you need support, post the output of `emerge --info '=sci-chemistry/pymol-3.0.0::gentoo'`, > * the complete build log and the output of `emerge -pqv '=sci-chemistry/pymol-3.0.0::gentoo'`. > * The complete build log is located at '/var/log/emerge-log/build/sci-chemistry/pymol-3.0.0:20240531-015218.log'. > * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/pymol-3.0.0/temp/build.log'. > * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/pymol-3.0.0/temp/environment'. > * Working directory: '/var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0' > * S: '/var/tmp/portage/sci-chemistry/pymol-3.0.0/work/pymol-open-source-3.0.0' >
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bug 933235
: 894699