| Summary: | sys-cluster/openmpi-5.0.6 fails with USE=cuda and dev-util/nvidia-cuda-toolkit-12.6.1 | ||
|---|---|---|---|
| Product: | Gentoo Linux | Reporter: | Benjamin Schulz <schulz.benjamin> |
| Component: | Current packages | Assignee: | Gentoo Cluster Team <cluster> |
| Status: | UNCONFIRMED --- | ||
| Severity: | normal | CC: | foufou33, russell.davie, schulz.benjamin, serhiihatcan, yuyuyak |
| Priority: | Normal | Keywords: | PATCH |
| Version: | unspecified | ||
| Hardware: | All | ||
| OS: | Linux | ||
| See Also: |
https://github.com/open-mpi/ompi/issues/12924 https://github.com/open-mpi/ompi/pull/12934 |
||
| Whiteboard: | |||
| Package list: | Runtime testing required: | --- | |
| Attachments: | build.log as tar.gz | ||
Created attachment 913611 [details]
build.log as tar.gz
it compiles with USE=-cuda at least. aliasing -finline-functions -c coll_cuda_module.c -fPIC -DPIC -o .libs/coll_cuda_module.o
coll_cuda_module.c: In function ‘mca_coll_cuda_comm_query’:
coll_cuda_module.c:107:42: error: assignment to ‘mca_coll_base_module_reduce_local_fn_t’ {aka ‘int (*)(const void *, void *, int, struct ompi_datatype_t *, struct ompi_op_t *, struct mca_coll_base_module_2_4_0_t *)’} from incompatible pointer type ‘int (*)(const void *, void *, size_t, struct ompi_datatype_t *, struct ompi_op_t *, mca_coll_base_module_t *)’ {aka ‘int (*)(const void *, void *, long unsigned int, struct ompi_datatype_t *, struct ompi_op_t *, struct mca_coll_base_module_2_4_0_t *)’} [-Wincompatible-pointer-types]
107 | cuda_module->super.coll_reduce_local = mca_coll_cuda_reduce_local;
| ^
make[2]: *** [Makefile:1556: coll_cuda_module.lo] Error 1
make[2]: Leaving directory '/var/tmp/portage/sys-cluster/openmpi-5.0.6/work/openmpi-5.0.6/ompi/mca/coll/cuda'
make[2]: *** Waiting for unfinished jobs....
make[2]: Entering directory '/var/tmp/portage/sys-cluster/openmpi-5.0.6/work/openmpi-5.0.6/ompi/mca/coll/cuda'
/bin/bash ../../../../libtool --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -DHAVE_CONFIG_H -I. -I../../../../opal/include -I../../../../ompi/include -I../../../../oshmem/include -I../../../../ompi/mpiext/cuda/c -I../../../../ompi/mpiext/rocm/c -iquote../../../.. -I/usr/include/pmix -DNDEBUG -march=native -O3 -pipe -fno-strict-aliasing -finline-fu
it looks looks more 5.0.6's faults than 12.6.1. I went back to cuda 12.4.x and still the same probleme. Tried my luck on their bugtracker and found this : https://github.com/open-mpi/ompi/issues/12924 and here's their patch (untested): https://patch-diff.githubusercontent.com/raw/open-mpi/ompi/pull/12934.patch creating the directory /etc/portage/patches/sys-cluster/openmpi/ and putting that patch in there works for me. It compiles with the recent cuda then. So please include it and stabilize I had same problem on AMD zen2 machine, but an Intel laptop worked just fine. Patch worked for me also, thanks Benjamin. This issue is now fixed in next version 5.0.7, reported on Feb 17 2025. https://github.com/open-mpi/ompi/issues/12924#issuecomment-2661628176 Thanks Benjamin, for 5.0.6, patched worked nicely! |
sys-cluster/openmpi-5.0.6 fails with USE=cuda and dev-util/nvidia-cuda-toolkit-12.6.1 Reproducible: Always emerge --info Portage 3.0.66.1 (python 3.12.7-final-0, default/linux/amd64/23.0/desktop/plasma, gcc-14, glibc-2.40-r7, 6.12.3-gentoo-dist x86_64) ================================================================= System uname: Linux-6.12.3-gentoo-dist-x86_64-AMD_Ryzen_9_3900X_12-Core_Processor-with-glibc2.40 KiB Mem: 32774864 total, 22740244 free KiB Swap: 31249404 total, 31249404 free Timestamp of repository gentoo: Mon, 09 Dec 2024 04:30:00 +0000 Head commit of repository gentoo: 502d9fddee36a8591daba07cbcdca75650209a4a Timestamp of repository escpr2: Thu, 31 Oct 2024 18:34:26 +0000 Head commit of repository escpr2: f2c923b8c651f1d14744975f879c2c78f6e5f8f9 sh bash 5.2_p37 ld GNU ld (Gentoo 2.43 p3) 2.43.1 app-misc/pax-utils: 1.3.8::gentoo app-shells/bash: 5.2_p37::gentoo dev-build/autoconf: 2.71-r7::gentoo, 2.72-r1::gentoo dev-build/automake: 1.17-r1::gentoo dev-build/cmake: 3.31.2::gentoo dev-build/libtool: 2.5.4::gentoo dev-build/make: 4.4.1-r100::gentoo dev-build/meson: 1.6.0-r1::gentoo dev-java/java-config: 2.3.4::gentoo dev-lang/perl: 5.40.0-r1::gentoo dev-lang/python: 3.12.7_p1::gentoo, 3.13.0::gentoo dev-lang/rust-bin: 1.83.0::gentoo sys-apps/baselayout: 2.17::gentoo sys-apps/openrc: 0.55.1::gentoo sys-apps/sandbox: 2.40::gentoo sys-devel/binutils: 2.43-r2::gentoo sys-devel/binutils-config: 5.5.2::gentoo sys-devel/clang: 18.1.8-r6::gentoo, 19.1.5::gentoo, 20.0.0.9999::gentoo sys-devel/gcc: 13.3.1_p20241115::gentoo, 14.2.1_p20241116::gentoo sys-devel/gcc-config: 2.12.1::gentoo sys-devel/llvm: 18.1.8-r6::gentoo, 19.1.5::gentoo, 20.0.0.9999::gentoo sys-kernel/linux-headers: 6.12::gentoo (virtual/os-headers) sys-libs/glibc: 2.40-r7::gentoo Repositories: gentoo location: /var/db/repos/gentoo sync-type: rsync sync-uri: rsync://rsync.gentoo.org/gentoo-portage priority: -1000 volatile: False sync-rsync-verify-metamanifest: yes sync-rsync-verify-jobs: 1 sync-rsync-verify-max-age: 3 sync-rsync-extra-opts: crossdev location: /var/db/repos/crossdev masters: gentoo volatile: False escpr2 location: /var/db/repos/escpr2 sync-type: git sync-uri: https://github.com/gentoo-mirror/escpr2.git masters: gentoo volatile: False Binary Repositories: gentoobinhost priority: 9999 sync-uri: https://distfiles.gentoo.org/releases/amd64/binpackages/23.0/x86-64 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="@FREE @BINARY-REDISTRIBUTABLE NVIDIA-CUDA NVIDIA EPSON-EULA NVIDIA-cuDNN google-chrome all-rights-reserved android" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=native -O3 -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt" 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/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c" CXXFLAGS="-march=native -O3 -pipe" DISTDIR="/var/cache/distfiles" 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=native -O3 -pipe" FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance binpkg-request-signature buildpkg-live config-protect-if-modified distlocks ebuild-locks fixlafiles getbinpkg 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=native -O3 -pipe" GENTOO_MIRRORS="http://distfiles.gentoo.org" LANG="de_DE.utf8" LDFLAGS="-Wl,-O1 -Wl,--as-needed 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qt6 raw readline rust screencast sdl seccomp semantic-desktop sound spell ssl startup-notification subversion svg systemtap test-rust threads tiff tpm truetype udev udisks uefi unicode upower usb v4l vorbis vtv vulkan wayland wcs widgets wxwidgets x264 xattr xcb xft xml xv xvid zlib" ABI_X86="64" ADA_TARGET="gcc_12" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_anon authn_dbm authn_file authz_dbm authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir env expires ext_filter file_cache filter headers include info log_config logio mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="karbon sheets words" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="mmx mmxext sse sse2 aes avx avx2 f16c fma3 pclmul popcnt rdrand sha sse3 sse4_1 sse4_2 sse4a ssse3" CURL_QUIC="ngtcp2" CURL_SSL="gnutls" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock greis isync itrax navcom oceanserver oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 tsip tripmate tnt ublox" GUILE_SINGLE_TARGET="3-0" GUILE_TARGETS="3-0" INPUT_DEVICES="libinput" KERNEL="linux" L10N="de" LCD_DEVICES="bayrad cfontz glk hd44780 lb216 lcdm001 mtxorb text" LLVM_TARGETS="X86 NVPTX WEBASSEMBLY" LUA_SINGLE_TARGET="lua5-1" LUA_TARGETS="lua5-1" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php8-2" POSTGRES_TARGETS="postgres16" PYTHON_SINGLE_TARGET="python3_12" PYTHON_TARGETS="python3_12" RUBY_TARGETS="ruby32" VIDEO_CARDS="nvidia" 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, EMERGE_DEFAULT_OPTS, EXTRA_ECONF, F77FLAGS, FC, GCOV, GPROF, INSTALL_MASK, 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