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numpy 0.9.8 (USE=-lapack) fails build with: building 'numpy.core._dotblas' extension compiling C sources i686-pc-linux-gnu-gcc options: '-pthread -fno-strict-aliasing -DNDEBUG -O2 -march=pentium-m -pipe -fPIC' creating build/temp.linux-i686-2.4/numpy/core/blasdot compile options: '-DNO_ATLAS_INFO=1 -Inumpy/core/blasdot -Inumpy/core/include -Ibuild/src.linux-i686-2.4/numpy/core -Inumpy/core/src -Inumpy/core/include -I/usr/include/python2.4 -c' i686-pc-linux-gnu-gcc: numpy/core/blasdot/_dotblas.c /usr/bin/gfortran -shared build/temp.linux-i686-2.4/numpy/core/blasdot/_dotblas.o -L/usr/lib -lblas -lgfortran -o build/lib.linux-i686-2.4/numpy/core/_dotblas.so /usr/lib/gcc/i686-pc-linux-gnu/4.1.2/../../../../i686-pc-linux-gnu/bin/ld: cannot find -lblas collect2: ld returned 1 exit status /usr/lib/gcc/i686-pc-linux-gnu/4.1.2/../../../../i686-pc-linux-gnu/bin/ld: cannot find -lblas collect2: ld returned 1 exit status error: Command "/usr/bin/gfortran -shared build/temp.linux-i686-2.4/numpy/core/blasdot/_dotblas.o -L/usr/lib -lblas -lgfortran -o build/lib.linux-i686-2.4/numpy/core/_dotblas.so" failed with exit status 1 !!! ERROR in dev-python/numpy-0.9.8: !!! In distutils_src_compile at line 1060 !!! compilation failed !!! Call stack: !!! * distutils_src_compile (/var/tmp/paludis/dev-python/numpy-0.9.8/temp/loadsaveenv:1060) !!! * src_compile (/var/tmp/paludis/dev-python/numpy-0.9.8/temp/loadsaveenv:3325) !!! * ebuild_f_compile (/usr/libexec/paludis/src_compile.bash:51) !!! * ebuild_main (/usr/libexec/paludis/ebuild.bash:363) !!! * main (/usr/libexec/paludis/ebuild.bash:381) die trap: exiting with error. Install error: * In program paludis -i =dev-python/numpy-0.9.8: * When performing install action from command line: * When executing install task: * When installing 'dev-python/numpy-0.9.8': * Install error: Install failed for 'dev-python/numpy-0.9.8::gentoo' Resume command: paludis --log-level qa --dl-deps-default discard --install '=dev-python/numpy-0.9.8::gentoo' --add-to-world-spec '( =dev-python/numpy-0.9.8 )' numpy 1.0.2 builds fine Reproducible: Always Steps to Reproduce: 1.install numpy 0.9.8 (stable) 2. 3. hifi-laptop hifi # paludis --info paludis 0.24.2 Built by root@hifi-laptop on 2007-05-29T11:58:48+0200 CXX: i686-pc-linux-gnu-g++ 4.1.2 (Gentoo 4.1.2) CXXFLAGS: -O2 -march=pentium-m -pipe LDFLAGS: DATADIR: /usr/share LIBDIR: /usr/lib LIBEXECDIR: /usr/libexec SYSCONFDIR: /etc stdlib: GNU libstdc++ 20070214 libebt: 1.3.0 libwrapiter: 1.0.0 sandbox: enabled Repository virtuals: Configuration information: format: virtuals Repository installed_virtuals: Configuration information: format: installed_virtuals Repository gentoo: Configuration information: buildroot: /var/tmp/paludis cache: /usr/portage/metadata/cache distdir: /usr/portage/distfiles eclassdirs: /usr/portage/eclass format: ebuild location: /usr/portage names_cache: /usr/portage/.cache/names newsdir: /usr/portage/metadata/news pkgdir: /usr/portage/packages profiles: /usr/portage/profiles/default-linux/x86/2006.0 securitydir: /usr/portage/metadata/glsa setsdir: /usr/portage/sets sync: rsync://rsync.gentoo.org/gentoo-portage sync_options: write_cache: /var/empty Package information: app-admin/eselect-compiler: (none) dev-java/java-config: 1.3.7, 2.0.32 dev-lang/python: 2.3.5-r2, 2.4.4-r4 dev-python/pycrypto: 2.0.1-r5 dev-util/ccache: (none) dev-util/confcache: (none) sys-apps/sandbox: 1.2.17 sys-devel/autoconf: 2.13, 2.61 sys-devel/automake: 1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10 sys-devel/binutils: 2.17 sys-devel/gcc-config: 1.3.16 sys-devel/libtool: 1.5.22 virtual/os-headers: 2.6.17-r2 Variable information: ACCEPT_KEYWORDS: AUTOCLEAN: CBUILD: i686-pc-linux-gnu CFLAGS: -O2 -march=pentium-m -pipe CHOST: i686-pc-linux-gnu CONFIG_PROTECT: CONFIG_PROTECT_MASK: CTARGET: CXXFLAGS: -O2 -march=pentium-m -pipe DISTDIR: /usr/portage/distfiles FEATURES: GENTOO_MIRRORS: INSTALL_MASK: LANG: LC_ALL: LDFLAGS: LINGUAS: MAKEOPTS: -j2 PKGDIR: PORTAGE_COMPRESS: PORTAGE_COMPRESS_FLAGS: PORTAGE_RSYNC_EXTRA_OPTS: PORTAGE_RSYNC_OPTS: PORTAGE_TMPDIR: /var/tmp/paludis PORTDIR: /usr/portage PORTDIR_OVERLAY: SYNC: USE: Repository installed: Configuration information: buildroot: /var/tmp/paludis format: vdb location: /var/db/pkg names_cache: /var/db/pkg/.cache/names provides_cache: /var/db/pkg/.cache/provides root: / world: /var/db/pkg/world Repository my_overlay: Configuration information: buildroot: /var/tmp/paludis cache: /var/empty distdir: /usr/portage/distfiles eclassdirs: /usr/portage/eclass format: ebuild location: /usr/local/portage names_cache: /usr/local/portage/.cache/names newsdir: /usr/local/portage/metadata/news pkgdir: /usr/local/portage/packages profiles: /usr/portage/profiles/default-linux/x86/2006.0 securitydir: /usr/local/portage/metadata/glsa setsdir: /usr/local/portage/sets sync: sync_options: write_cache: /var/empty Repository paludis-extras: Configuration information: buildroot: /var/tmp/paludis cache: /var/empty distdir: /usr/portage/distfiles eclassdirs: /usr/portage/eclass /usr/local/paludis-extras/eclass format: ebuild location: /usr/local/paludis-extras master_repository: gentoo names_cache: /usr/local/paludis-extras/.cache/names newsdir: /usr/local/paludis-extras/metadata/news pkgdir: /usr/portage/packages profiles: /usr/portage/profiles/default-linux/x86/2006.0 securitydir: /usr/local/paludis-extras/metadata/glsa setsdir: /usr/local/paludis-extras/sets sync: sync_options: write_cache: /var/empty
spelling mistake in summary
Builds fine here on amd64 with paludis 0.24.2 and portage 2.1.2-r7. Yes, I tested the package with both package managers.
gentoofan: do you have some blas library installed? Blas-config gives me no profiles to choose from, and seems that "lblas" i missing ?
No I have no blas libraries installed. I am actually a bit perplexed at which library it should even depend on. It is obvious it wants to link to blas but it compiles fine on my system. weird.
Hi, If you really need numpy-0.9.8, install blas-atlas. The only reason <numpy-1 is still in the tree is to support pymmlib, but if you don't use this package, I strongly recommend using the numpy-1.0.3, which I will ask for stabling in a week or so, if no new bug is found. Sébastien PS: anyone in the sci is familiar with pymmlib? It seems that this package only works with the old numpy-0.9.8 API. May be an update will be good.
Compile fails for me too. 1.0.3 works. Please stabilise 1.0.3 as soon as possible to fix this bug.
CCing arches..... Hope I did this right.
====amd64==== 1.Merges fine. 2. Passes all Tests. 3. No collisions. Portage 2.1.2.7 (default-linux/amd64/2007.0, gcc-4.1.2, glibc-2.5-r3, 2.6.20-gentoo-r7 x86_64) ================================================================= System uname: 2.6.20-gentoo-r7 x86_64 unknown Gentoo Base System release 1.12.9 Timestamp of tree: Tue, 26 Jun 2007 01:00:10 +0000 ccache version 2.4 [enabled] dev-lang/python: 2.4.4-r4 dev-python/pycrypto: 2.0.1-r5 dev-util/ccache: 2.4-r7 sys-apps/sandbox: 1.2.17 sys-devel/autoconf: 2.13, 2.61 sys-devel/automake: 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10 sys-devel/binutils: 2.16.1-r3 sys-devel/gcc-config: 1.3.16 sys-devel/libtool: 1.5.23b virtual/os-headers: 2.6.17-r2 ACCEPT_KEYWORDS="amd64" AUTOCLEAN="yes" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=athlon64 -O2 -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/shutdown /usr/share/X11/xkb /usr/share/config" CONFIG_PROTECT_MASK="/etc/env.d /etc/gconf /etc/revdep-rebuild /etc/terminfo" CXXFLAGS="-march=athlon64 -O2 -pipe" DISTDIR="/distfiles" FEATURES="ccache collision-protect distlocks metadata-transfer multilib-strict sandbox sfperms strict test userpriv" GENTOO_MIRRORS="http://mirrors.acm.cs.rpi.edu/gentoo/ http://distfiles.gentoo.org/" MAKEOPTS="-j2" PKGDIR="/usr/portage/packages" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --delete-after --stats --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --filter=H_**/files/digest-*" PORTAGE_TMPDIR="/var/tmp" PORTDIR="/usr/portage" SYNC="rsync://192.168.1.206/gentoo-portage" USE="X acl aiglx aim amd64 berkdb bitmap-fonts branding cli cracklib crypt cups dri fortran gdbm gpm gtk iconv imap ipv6 isdnlog libg++ midi mmx mpeg3 mudflap ncurses nls nptl nptlonly nvidia opengl openmp pam pcre perl pppd python qt3 readline reflection session sockets spl sqlite3 sse sse2 ssl tcpd test truetype-fonts type1-fonts unicode vim xcomposite xine xorg zlib" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1x ens1370 ens1371 es1938 es1968 fm801 hda-intel intel8x0 intel8x0m maestro3 trident usb-audio via82xx via82xx-modem ymfpci" ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug file hooks iec958 ioplug ladspa lfloat linear meter mulaw multi null plug rate route share shm softvol" ELIBC="glibc" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" USERLAND="GNU" VIDEO_CARDS="nvidia" Unset: CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LANG, LC_ALL, LDFLAGS, LINGUAS, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, PORTDIR_OVERLAY
Do you mean dev-python/numpy-1.0.3? Sparc has no keyword for -1.0.2, and so will not go stable, but -1.0.3 is marked ~sparc and it runs all its tests and installs correctly. (However, -1.0.3 has been ~sparc for only two weeks; if you want us stable, please wait a couple weeks and ask us again. Leaving sparc on CC for tracking.
Should we stable blas-atlas .11-r1? And the corresponding eselect module?
dev-python/numpy-1.0.3 stable for HPPA.
sparc stable with eselect-blas, eselect-cblas and blas-atlas-3.7.11-r1/3.6.0-r2 (== current but eselect-friendly).
same for ppc64
ia64 stable, can't do alpha until bug 159002 is fixed
amd64 stable
Stable on ppc
x86 stable
alpha stable finally, closing.
