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Bug 933720 - sci-libs/vtk-9.3.0 fails to compile after recent update (dev-util/nvidia-cuda-toolkit-12.5.0?): ThrustPatches.h(213): error: this declaration has no storage class or type specifier
Summary: sci-libs/vtk-9.3.0 fails to compile after recent update (dev-util/nvidia-cuda...
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal
Assignee: Paul Zander
URL:
Whiteboard:
Keywords: STABLE
: 933826 (view as bug list)
Depends on:
Blocks:
 
Reported: 2024-06-07 11:29 UTC by Miroslav Šulc
Modified: 2024-07-04 11:11 UTC (History)
4 users (show)

See Also:
Package list:
Runtime testing required: ---

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Description Miroslav Šulc gentoo-dev 2024-06-07 11:29:15 UTC 
this is the error:

FAILED: ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/cont/CMakeFiles/vtkm_cont.dir/CellLocatorUniformBins.cxx.o 
/opt/cuda/bin/nvcc -forward-unknown-to-host-compiler -ccbin=/usr/x86_64-pc-linux-gnu/gcc-bin/13 -DVTKMDIY_DEBUG -DVTKMDIY_MPI_AS_LIB -DVTKMDIY_NO_THREADS -Dvtkm_cont_EXPORTS -I/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/thirdparty/optionparser -I/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/thirdparty/diy -I/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/thirdparty/lcl/vtkmlcl -I/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/thirdparty/loguru -I/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m -I/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0_build/ThirdParty/vtkm/vtkvtkm/vtk-m/include -isystem /var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/thirdparty/diy/vtkmdiy/include -isystem /var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0_build/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/thirdparty/diy/vtkmdiy/include/vtkmdiy/mpi -O2 -g -DNDEBUG -std=c++14 "--generate-code=arch=compute_89,code=[compute_89,sm_89]" -Xcompiler=-fPIC -Xcompiler=-fvisibility=hidden -Xcompiler=-Wall,-Wcast-align,-Wpointer-arith,-Wformat,-Wformat-security,-Wshadow,-fno-common,-Wunused,-Wno-unknown-pragmas,-Wno-unused-local-typedefs,-Wno-unused-function,-Wchar-subscripts,-Wfloat-conversion,-Wodr -Xcudafe=--display_error_number -Xcompiler=-ffunction-sections --expt-relaxed-constexpr -Xcompiler=-fopenmp -MD -MT ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/cont/CMakeFiles/vtkm_cont.dir/CellLocatorUniformBins.cxx.o -MF ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/cont/CMakeFiles/vtkm_cont.dir/CellLocatorUniformBins.cxx.o.d -x cu -c /var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/cont/CellLocatorUniformBins.cxx -o ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/cont/CMakeFiles/vtkm_cont.dir/CellLocatorUniformBins.cxx.o
nvcc warning : incompatible redefinition for option 'compiler-bindir', the last value of this option was used
/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/exec/cuda/internal/ThrustPatches.h(213): error: this declaration has no storage class or type specifier
    __thrust_exec_check_disable__
    ^

/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/exec/cuda/internal/ThrustPatches.h(214): warning #1835-D: attribute "__host__" does not apply here
      __attribute__((host)) __attribute__((device))
                     ^

Remark: The warnings can be suppressed with "-diag-suppress <warning-number>"

/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/exec/cuda/internal/ThrustPatches.h(214): warning #1835-D: attribute "__device__" does not apply here
      __attribute__((host)) __attribute__((device))
                                           ^

/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/exec/cuda/internal/ThrustPatches.h(215): error: expected a ";"
      stateless_resource_allocator()
      ^

/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/exec/cuda/internal/ThrustPatches.h(236): warning #12-D: parsing restarts here after previous syntax error
  };
  ^

2 errors detected in the compilation of "/var/tmp/portage/sci-libs/vtk-9.3.0/work/VTK-9.3.0/ThirdParty/vtkm/vtkvtkm/vtk-m/vtkm/cont/CellLocatorUniformBins.cxx".



# emerge -pqv '=sci-libs/vtk-9.3.0::gentoo'
[ebuild   R   ] sci-libs/vtk-9.3.0  USE="boost cuda ffmpeg freetype logging mpi openmp python qt6 rendering threads tk views vtkm -all-modules (-debug) -doc -examples -gdal -gles2-only -imaging -java -las -mysql -odbc -opencascade -openvdb -pdal -postgres -qt5 -sdl -tbb -test -web" PYTHON_SINGLE_TARGET="python3_12 -python3_10 -python3_11" VIDEO_CARDS="nvidia"


# emerge --info '=sci-libs/vtk-9.3.0::gentoo'
Portage 3.0.65 (python 3.12.4-final-0, default/linux/amd64/23.0/split-usr/hardened, gcc-13, glibc-2.39-r7, 6.9.3-gentoo x86_64)
=================================================================
                         System Settings
=================================================================
System uname: Linux-6.9.3-gentoo-x86_64-13th_Gen_Intel-R-_Core-TM-_i9-13980HX-with-glibc2.39
KiB Mem:    65451968 total,  21412848 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Fri, 07 Jun 2024 10:33:59 +0000
Head commit of repository gentoo: 7e1821ceeb1c717beb6e0928990aeff804c16afb

Timestamp of repository flavour: Mon, 20 May 2024 17:23:21 +0000
Head commit of repository flavour: 4d545af0f1378a604e926a353d6b4970edfb3f3a

Timestamp of repository fordfrog: Tue, 04 Jun 2024 10:19:00 +0000
Head commit of repository fordfrog: 5659265d3fe11c0e33aef4ae1c81338505affae6

Timestamp of repository gentoo-zh: Fri, 07 Jun 2024 06:03:57 +0000
Head commit of repository gentoo-zh: 429b6a4be21a06fd8ace319c270f4fffa333aef5

Head commit of repository librewolf: 76df85488544fcaa75e7afd7dfe05453c79a557b

Timestamp of repository pf4public: Thu, 06 Jun 2024 20:49:19 +0000
Head commit of repository pf4public: 29e97e64b7959a3d3504b51153464f739c75122b

sh bash 5.2_p26-r3
ld GNU ld (Gentoo 2.42 p3) 2.42.0
ccache version 4.10 [disabled]
app-misc/pax-utils:        1.3.7::gentoo
app-shells/bash:           5.2_p26-r3::gentoo
dev-build/autoconf:        2.13-r8::gentoo, 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:           1.4.1::gentoo
dev-java/java-config:      2.3.3-r1::gentoo
dev-lang/perl:             5.38.2-r6::gentoo
dev-lang/python:           3.10.14_p1-r1::gentoo, 3.11.9-r1::gentoo, 3.12.4::gentoo, 3.13.0_beta1_p3::gentoo
dev-lang/rust-bin:         1.78.0::gentoo
dev-util/ccache:           4.10-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, 19.0.0_pre20240525::gentoo
sys-devel/gcc:             13.3.0::gentoo, 14.1.1_p20240518::gentoo
sys-devel/gcc-config:      2.11::gentoo
sys-devel/lld:             17.0.6::gentoo, 19.0.0_pre20240525::gentoo
sys-devel/llvm:            17.0.6::gentoo, 19.0.0_pre20240525::gentoo
sys-kernel/linux-headers:  6.9::gentoo (virtual/os-headers)
sys-libs/glibc:            2.39-r7::gentoo
Repositories:

gentoo
    location: /var/db/repos/gentoo
    sync-type: git
    sync-uri: https://github.com/gentoo-mirror/gentoo.git
    priority: -1000
    volatile: False

flavour
    location: /var/db/repos/flavour
    sync-type: git
    sync-uri: https://github.com/gentoo-mirror/flavour.git
    masters: gentoo
    volatile: False

fordfrog
    location: /var/db/repos/fordfrog
    sync-type: git
    sync-uri: https://github.com/gentoo-mirror/fordfrog.git
    masters: gentoo
    volatile: False

gentoo-zh
    location: /var/db/repos/gentoo-zh
    sync-type: git
    sync-uri: https://github.com/gentoo-mirror/gentoo-zh.git
    masters: gentoo
    volatile: False

librewolf
    location: /var/db/repos/librewolf
    sync-type: git
    sync-uri: https://codeberg.org/librewolf/gentoo.git
    masters: gentoo
    volatile: False

pf4public
    location: /var/db/repos/pf4public
    sync-type: git
    sync-uri: https://github.com/gentoo-mirror/pf4public.git
    masters: gentoo
    volatile: False

ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="* -@EULA android AnyDesk-TOS NVIDIA-SDK PUEL-11"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=alderlake -mabm -mno-cldemote -mno-kl -mno-pconfig -mno-sgx -mno-widekl -mshstk --param=l1-cache-line-size=64 --param=l1-cache-size=48 --param=l2-cache-size=36864 -O2 -pipe -frecord-gcc-switches"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt /usr/share/maven-bin-3.9/conf"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c"
CXXFLAGS="-march=alderlake -mabm -mno-cldemote -mno-kl -mno-pconfig -mno-sgx -mno-widekl -mshstk --param=l1-cache-line-size=64 --param=l1-cache-size=48 --param=l2-cache-size=36864 -O2 -pipe -frecord-gcc-switches"
DISTDIR="/var/cache/distfiles"
EMERGE_DEFAULT_OPTS="--misspell-suggestions n"
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="-march=alderlake -mabm -mno-cldemote -mno-kl -mno-pconfig -mno-sgx -mno-widekl -mshstk --param=l1-cache-line-size=64 --param=l1-cache-size=48 --param=l2-cache-size=36864 -O2 -pipe -frecord-gcc-switches"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance 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 strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-march=alderlake -mabm -mno-cldemote -mno-kl -mno-pconfig -mno-sgx -mno-widekl -mshstk --param=l1-cache-line-size=64 --param=l1-cache-size=48 --param=l2-cache-size=36864 -O2 -pipe -frecord-gcc-switches"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="cs_CZ.utf8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,-z,pack-relative-relocs"
LEX="flex"
LINGUAS="cs cs_CZ en en_US en_UK"
MAKEOPTS="-j33"
PKGDIR="/var/cache/binpkgs"
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="X a52 aac aacplus acl alsa amd64 aubio bluetooth bzip2 cdda cddb cdr cet color-management colord crypt cuda cups dbus dia dssi dvb dvd elogind exif ffmpeg flac gdbm gegl gif gles gles1 gles2 gles3 gphoto2 gsm gtk gtk3 hardened hddtemp http2 iconv icu id3tag ipv6 jack jack-dbus jacksession javafx jpeg keyring kwallet ladspa lastfm latex lcms libass libnotify libproxy libsamplerate libtirpc lilypond lm-sensors lto lv2 mad modplug mp3 mpeg mpi mtp multilib musepack ncurses nls nvme ocr ogg opencl openexr opengl openmp optix opus osc pam pcre pdf pic pie pipewire png policykit pulseaudio qt5 qt6 raw readline rubberband samba scanner screencast seccomp sf2 sndfile soundio speex spell split-usr ssl ssp startup-notification svg svg2 taglib test-rust theora tiff timidity tk tray truetype udev unicode usb vaapi vamp vdpau verify-sig visio vorbis vpx vst vulkan wavpack wayland webp widevine wmf x264 x265 xattr xfce xinerama xmp xtpax xv xvid zlib" ABI_X86="32 64" ADA_TARGET="gcc_12" APACHE2_MODULES="alias auth_basic authn_core authn_file authz_core authz_host authz_user cgi cgid deflate dir expires filter headers http2 include info log_config mime mime_magic negotiation proxy proxy_ajp rewrite setenvif socache_shmcb status unixd vhost_alias" APACHE2_MPMS="event" CALLIGRA_FEATURES="karbon sheets words" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="aes avx avx2 f16c fma3 mmx mmxext pclmul popcnt rdrand sha sse sse2 sse3 sse4_1 sse4_2 ssse3" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock greis isync itrax mtk3301 ntrip navcom oceanserver oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 tsip tripmate tnt ublox" INPUT_DEVICES="evdev libinput wacom" KERNEL="linux" L10N="cs cs-CZ en en-US en-UK" LCD_DEVICES="bayrad cfontz glk hd44780 lb216 lcdm001 mtxorb text" LLVM_TARGETS="NVPTX" LUA_SINGLE_TARGET="luajit lua5-4" LUA_TARGETS="lua5-1" OFFICE_IMPLEMENTATION="libreoffice" PERL_FEATURES="ithreads" PHP_TARGETS="php8-2" POSTGRES_TARGETS="postgres15" PYTHON_SINGLE_TARGET="python3_12" PYTHON_TARGETS="python3_10 python3_11 python3_12" RUBY_TARGETS="ruby31 ruby32 ruby33" SANE_BACKENDS="genesys" VIDEO_CARDS="fbdev intel nvidia vesa" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipp2p iface geoip fuzzy condition tarpit sysrq proto logmark ipmark dhcpmac delude chaos account"
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, 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

=================================================================
                        Package Settings
=================================================================

sci-libs/vtk-9.3.0::gentoo was built with the following:
USE="boost cuda ffmpeg freetype logging mpi openmp python qt6 rendering threads tk views vtkm -all-modules (-debug) -doc -examples -gdal -gles2-only -imaging -java -las -mysql -odbc -opencascade -openvdb -pdal -postgres -qt5 -sdl -tbb -test -web" ABI_X86="(64)" PYTHON_SINGLE_TARGET="python3_12 -python3_10 -python3_11" VIDEO_CARDS="nvidia"
Comment 1 Paul Zander 2024-06-08 14:25:22 UTC 
*** Bug 933826 has been marked as a duplicate of this bug. ***
Comment 2 Larry the Git Cow gentoo-dev 2024-07-04 11:11:59 UTC 
The bug has been closed via the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c099b293613b51163cf584595a7579a0694970a2

commit c099b293613b51163cf584595a7579a0694970a2
Author:     Miroslav Šulc <fordfrog@gentoo.org>
AuthorDate: 2024-07-04 11:11:28 +0000
Commit:     Miroslav Šulc <fordfrog@gentoo.org>
CommitDate: 2024-07-04 11:11:51 +0000

    sci-libs/vtk: fixed build of 9.3.0 with nvidia-cuda-toolkit-12.5 + scrubbed patches
    
    Closes: https://bugs.gentoo.org/933720
    Signed-off-by: Miroslav Šulc <fordfrog@gentoo.org>

 sci-libs/vtk/files/vtk-9.2.5-pegtl-3.x.patch       | 10 +----
 sci-libs/vtk/files/vtk-9.2.6-Java21.patch          |  2 -
 sci-libs/vtk/files/vtk-9.3.0-ThrustPatches.patch   | 51 ++++++++++++++++++++++
 ...ix-Java-error-with-integer-enum-overloads.patch |  9 ----
 .../vtk/files/vtk-9.3.0-opencascade-7.8.0.patch    |  2 -
 sci-libs/vtk/files/vtk-9.3.0-opencascade.patch     |  2 -
 sci-libs/vtk/files/vtk-9.3.0-pdal-2.6.0.patch      | 12 -----
 .../vtk-9.3.0-too-many-initializer-values.patch    |  4 +-
 sci-libs/vtk/vtk-9.3.0.ebuild                      |  1 +
 9 files changed, 55 insertions(+), 38 deletions(-)