| Summary: | dev-python/pycuda-2024.1 - numpy/arrayobject.h: No such file or directory | ||
|---|---|---|---|
| Product: | Gentoo Linux | Reporter: | Leonid Kopylov <leonchik1976> |
| Component: | Current packages | Assignee: | Gentoo Science Related Packages <sci> |
| Status: | UNCONFIRMED --- | ||
| Severity: | normal | CC: | 2sks05fxw, harrisl, jstein, parona, richard.yao |
| Priority: | Normal | ||
| Version: | unspecified | ||
| Hardware: | All | ||
| OS: | Linux | ||
| See Also: |
https://github.com/inducer/pycuda/issues/450 https://github.com/inducer/pycuda/pull/451 |
||
| Whiteboard: | |||
| Package list: | Runtime testing required: | --- | |
| Bug Depends on: | |||
| Bug Blocks: | 930951 | ||
| Attachments: |
build.log
Another build log |
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Created attachment 894324 [details]
build.log
*** Bug 936401 has been marked as a duplicate of this bug. *** Created attachment 898117 [details]
Another build log
I have the same problem.
The issue is that numpy installs the headers to: /usr/lib/python3.11/site-packages/numpy/_core/include/numpy/arrayobject.h /usr/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h However, pycuda is passing -I/usr/lib/python3.11/site-packages/numpy/core/include to gcc. Someone changed core to _core and pycuda was not informed. Disregard that last message. The real issue is that numpy 2 is not supported and the dependencies for this package do not disallow numpy 2. You can workaround this by doing `emerge -av numpy:0/0`. Then pycuda will build. However, updates will still want to install numpy 2. Yeah, the issue is well-understood already (hence blocking the tracker + see also'd upstream bug). (In reply to Sam James from comment #6) > Yeah, the issue is well-understood already (hence blocking the tracker + see > also'd upstream bug). Perhaps someone should update RDEPEND in dev-python/pycuda/pycuda-2024.1.ebuild to `<dev-python/numpy-2.0.0[${PYTHON_USEDEP}]`. Otherwise, `emerge --jobs --keep-going --with-bdeps=y -avDuN @world` will want to rebuild pycuda when updating older systems that have it and it will break. (In reply to Richard Yao from comment #7) > (In reply to Sam James from comment #6) > > Yeah, the issue is well-understood already (hence blocking the tracker + see > > also'd upstream bug). > > Perhaps someone should update RDEPEND in > dev-python/pycuda/pycuda-2024.1.ebuild to > `<dev-python/numpy-2.0.0[${PYTHON_USEDEP}]`. Otherwise, `emerge --jobs > --keep-going --with-bdeps=y -avDuN @world` will want to rebuild pycuda when > updating older systems that have it and it will break. Actually, it is not that it wants to rebuild it, but that it wants to update it, but it will have already updated numpy. In any case, I spent far too much time on this issue when updating an older machine this morning. :/ This bug is fixed in pycuda-2024.1.2 I cp pycuda-2024.1.ebuild to pycuda-2024.1.2.ebuild and it built to completion. I have not check functionality yet. |
# emerge -pqv '=dev-python/pycuda-2024.1::gentoo' [ebuild N ] dev-python/pycuda-2024.1 USE="examples -test" PYTHON_TARGETS="python3_11 python3_12 -python3_10" # emerge --info '=dev-python/pycuda-2024.1::gentoo' Portage 3.0.64 (python 3.12.3-final-0, default/linux/amd64/23.0/desktop/gnome/systemd, gcc-14, glibc-2.39-r6, 6.9.1-gentoo-amd64 x86_64) ================================================================= System Settings ================================================================= System uname: Linux-6.9.1-gentoo-amd64-x86_64-13th_Gen_Intel-R-_Core-TM-_i7-1360P-with-glibc2.39 KiB Mem: 63328580 total, 33609960 free KiB Swap: 8388604 total, 8388604 free Timestamp of repository gentoo: Fri, 24 May 2024 06:30:00 +0000 Head commit of repository gentoo: 9aa2b1a14f8c5d41f02b5112c31e9a2f47e928b1 sh bash 5.2_p26-r3 ld GNU ld (Gentoo 2.42 p3) 2.42.0 ccache version 4.9.1 [enabled] app-misc/pax-utils: 1.3.7::gentoo app-shells/bash: 5.2_p26-r3::gentoo dev-build/autoconf: 2.71-r7::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: 1.4.0-r1::gentoo dev-java/java-config: 2.3.3-r1::gentoo dev-lang/perl: 5.38.2-r5::gentoo dev-lang/python: 3.11.9-r1::gentoo, 3.12.3-r1::gentoo, 3.13.0_beta1_p2::gentoo dev-lang/rust: 1.77.1::gentoo dev-lang/rust-bin: 1.77.1::gentoo dev-util/ccache: 4.9.1-r1::gentoo sys-apps/baselayout: 2.15::gentoo sys-apps/sandbox: 2.38::gentoo sys-apps/systemd: 255.6::gentoo sys-devel/binutils: 2.42-r1::gentoo sys-devel/binutils-config: 5.5::gentoo sys-devel/clang: 15.0.7-r3::gentoo, 16.0.6::gentoo, 17.0.6::gentoo, 18.1.6::gentoo sys-devel/gcc: 12.3.1_p20240502::gentoo, 13.3.0::gentoo, 14.1.1_p20240518::gentoo sys-devel/gcc-config: 2.11::gentoo sys-devel/llvm: 15.0.7-r3::gentoo, 16.0.6::gentoo, 17.0.6::gentoo, 18.1.6::gentoo sys-kernel/linux-headers: 6.9::gentoo (virtual/os-headers) sys-libs/glibc: 2.39-r6::gentoo Repositories: gentoo location: /var/db/repos/gentoo sync-type: rsync sync-uri: rsync://gentoo.kopylovs.net/gentoo-portage priority: -1000 volatile: False sync-rsync-verify-metamanifest: yes sync-rsync-verify-jobs: 1 sync-rsync-extra-opts: sync-rsync-verify-max-age: 3 Binary Repositories: gentoobinhost priority: 1 sync-uri: https://distfiles.gentoo.org/releases/amd64/binpackages/23.0/x86-64 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="* -@EULA android AnyDesk-TOS geekbench google-chrome Intel-SDP microsoft-edge Microsoft-vscode NVIDIA-CUDA NVIDIA-SDK OPERA-2018 PUEL-11 RAR TeamViewer Vivaldi" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=native -O2 -pipe -fomit-frame-pointer" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /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" 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idn introspection iodbc ios ipv6 jack java jemalloc joystick jpeg json kde kerberos keyring lcms ldap libnotify libtirpc lm-sensors lua lvm lz4 lzma lzo mad man mbedtls mng mongodb mp3 mp4 mpeg mpi multilib multimedia mysql nas nautilus ncurses netlink network networkmanager nfs nls nss nvenc odbc offensive ogg opencl opengl openmp openssl pam pango pcap pcre pdf perl pkcs11 plasma plugins png policykit postgres ppds pulseaudio python qml qt5 qt6 readline redis samba sasl screencast sdl seccomp semantic-desktop snmp sound source speech spell sqlite ssl startup-notification svg symlink sysprof systemd tcl telemetry test-rust threads tiff tk tools tpm tracker truetype udev udisks unicode upower usb utils v4l vaapi vala vdpau vim-syntax vnc vorbis vulkan wayland webengine webkit webp wifi wxwidgets x264 xattr xcb xen xft xinerama xml xv xvid yaml zeroconf zip zlib zsh-completion zstd" ABI_X86="64 32" ADA_TARGET="gcc_12" APACHE2_MODULES="actions alias auth_basic auth_digest authn_anon 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PHP_TARGETS="php8-1" POSTGRES_TARGETS="postgres15" PYTHON_SINGLE_TARGET="python3_12" PYTHON_TARGETS="python3_11 python3_12 python3_13" RUBY_TARGETS="ruby31 ruby32 ruby33" UWSGI_PLUGINS="alarm_curl cache carbon cheaper_busyness clock_monotonic clock_realtime corerouter curl_cron dumbloop echo emperor_amqp emperor_pg emperor_zeromq fastrouter forkptyrouter geoip graylog2 http ldap legion_cache_fetch logcrypto logfile logpipe logsocket mongodblog nagios notfound pam ping rados rawrouter redislog router_access router_basicauth router_cache router_expires router_hash router_http router_memcached router_metrics router_redirect router_redis router_rewrite router_spnego router_static router_uwsgi router_xmldir rpc rrdtool rsyslog signal spooler sqlite ssi sslrouter stats_pusher_statsd symcall syslog systemd_logger transformation_chunked transformation_gzip transformation_offload transformation_tofile transformation_toupper tuntap ugreen webdav xattr xslt zabbix zergpool" VIDEO_CARDS="intel fbdev vesa 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, 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