| Summary: | dev-python/numpy-1.6.1 fails to compile | ||
|---|---|---|---|
| Product: | Gentoo Linux | Reporter: | Cédric Jeanneret <contact> |
| Component: | [OLD] Development | Assignee: | Gentoo Linux bug wranglers <bug-wranglers> |
| Status: | RESOLVED DUPLICATE | ||
| Severity: | normal | ||
| Priority: | Normal | ||
| Version: | unspecified | ||
| Hardware: | AMD64 | ||
| OS: | Linux | ||
| Whiteboard: | |||
| Package list: | Runtime testing required: | --- | |
| Attachments: |
build.log for numpy
environment for numpy sandbox log for numpy |
||
|
Description
Cédric Jeanneret
2011-08-04 06:32:48 UTC
Created attachment 282017 [details]
build.log for numpy
Created attachment 282019 [details]
environment for numpy
my emerge --info: Portage 2.1.10.10 (default/linux/amd64/10.0, gcc-4.5.2, glibc-2.13-r4, 2.6.35-gentoo-r10-by-tengu x86_64) ================================================================= System uname: Linux-2.6.35-gentoo-r10-by-tengu-x86_64-Intel-R-_Core-TM-_i7_CPU_920_@_2.67GHz-with-gentoo-2.0.3 Timestamp of tree: Wed, 03 Aug 2011 21:15:01 +0000 app-shells/bash: 4.2_p10 dev-lang/python: 2.7.2-r2, 3.2-r2 dev-util/cmake: 2.8.4-r1 dev-util/pkgconfig: 0.26 sys-apps/baselayout: 2.0.3 sys-apps/openrc: 0.8.3-r1 sys-apps/sandbox: 2.5 sys-devel/autoconf: 2.68 sys-devel/automake: 1.10.3, 1.11.1-r1 sys-devel/binutils: 2.21.1 sys-devel/gcc: 4.5.2 sys-devel/gcc-config: 1.4.1-r1 sys-devel/libtool: 2.4-r1 sys-devel/make: 3.82-r1 sys-kernel/linux-headers: 2.6.38 (virtual/os-headers) sys-libs/glibc: 2.13-r4 Repositories: gentoo location: /usr/portage sync: rsync://rsync.de.gentoo.org/gentoo-portage priority: -1000 zugaina location: /var/lib/layman/zugaina masters: gentoo priority: 0 x-portage location: /usr/local/portage masters: gentoo priority: 1 ABI="amd64" ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="*" ACCEPT_PROPERTIES="*" ALSA_CARDS="" ALSA_PCM_PLUGINS="" APACHE2_MODULES="" ARCH="amd64" ASFLAGS_x86="--32" AUTOCLEAN="yes" CALLIGRA_FEATURES="" CAMERAS="" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-O2 -pipe" CFLAGS_x86="-m32" CHOST="x86_64-pc-linux-gnu" CHOST_amd64="x86_64-pc-linux-gnu" CHOST_x86="i686-pc-linux-gnu" CLEAN_DELAY="5" COLLECTD_PLUGINS="bind conntrack cpu cpufreq df disk dns entropy fscache interface iptables load logfile memcachec memcached memory netlink network nginx ntpd openvpn perl postgresql processes protocols python rrdcached rrdtool swap syslog tcpconns unixsock uptime users write_http" COLLISION_IGNORE="/usr/bin/zipinfo" CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt /usr/share/openvpn/easy-rsa /var/bind hostname hosts keymaps" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.3/ext-active/ /etc/php/cgi-php5.3/ext-active/ /etc/php/cli-php5.3/ext-active/ /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo" CPU="fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx rdtscp lm constant_tsc arch_perfmon pebs bts rep_good xtopology tsc_reliable nonstop_tsc pni dtes64 monitor ds_cpl vmx est tm2 ssse3 cx16 xtpr pdcm sse4_1 sse4_2 lahf_lm ida tpr_shadow vnmi flexpriority ept vpid " CVS_RSH="ssh" CXXFLAGS="-O2 -pipe" DEFAULT_ABI="amd64" DISTDIR="/usr/portage/distfiles" EDITOR="/usr/bin/vim" ELIBC="glibc" EMERGE_DEFAULT_OPTS="-qv" EMERGE_WARNING_DELAY="10" EPREFIX="" EROOT="/" FCFLAGS="" FEATURES="assume-digests binpkg-logs distlocks ebuild-locks fixlafiles fixpackages news nodoc noinfo parallel-fetch protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch" FETCHCOMMAND="/usr/bin/wget -t 3 -T 60 --passive-ftp -O "${DISTDIR}/${FILE}" "${URI}"" FETCHCOMMAND_RSYNC="rsync -avP "${URI}" "${DISTDIR}/${FILE}"" FETCHCOMMAND_SFTP="bash -c "x=\${2#sftp://} ; host=\${x%%/*} ; port=\${host##*:} ; host=\${host%:*} ; [[ \${host} = \${port} ]] && port=22 ; exec sftp -P \${port} \"\${host}:/\${x#*/}\" \"\$1\"" sftp "${DISTDIR}/${FILE}" "${URI}"" FETCHCOMMAND_SSH="bash -c "x=\${2#ssh://} ; host=\${x%%/*} ; port=\${host##*:} ; host=\${host%:*} ; [[ \${host} = \${port} ]] && port=22 ; exec rsync --rsh=\"ssh -p\${port}\" -avP \"\${host}:/\${x#*/}\" \"\$1\"" rsync "${DISTDIR}/${FILE}" "${URI}"" FFLAGS="" GCC_SPECS="" GENTOO_MIRRORS="http://distfiles.gentoo.org" GPSD_PROTOCOLS="" HG="/usr/bin/hg" HOME="/root" INFOPATH="/usr/share/info:/usr/share/binutils-data/x86_64-pc-linux-gnu/2.21.1/info:/usr/share/gcc-data/x86_64-pc-linux-gnu/4.5.2/info" INPUT_DEVICES="" KERNEL="linux" LANG="en_US.UTF-8" LCD_DEVICES="" LC_ALL="en_US.UTF-8" LDFLAGS="-Wl,-O1 -Wl,--as-needed" LDFLAGS_x86="-m elf_i386" LESS="-R -M --shift 5" LESSOPEN="|lesspipe %s" LIBDIR_amd64="lib64" LIBDIR_amd64_fbsd="lib64" LIBDIR_ppc="lib32" LIBDIR_ppc64="lib64" LIBDIR_s390="lib32" LIBDIR_s390x="lib64" LIBDIR_sparc32="lib32" LIBDIR_sparc64="lib64" LIBDIR_x86="lib32" LIBDIR_x86_fbsd="lib32" LIBRARY_PATH="/opt/intel/Compiler/11.1/072/lib/intel64:/opt/intel/Compiler/11.1/072/idb/lib/intel64" LOGNAME="root" LS_COLORS="rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=01;05;37;41:mi=01;05;37;41:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arj=01;31:*.taz=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lz=01;31:*.xz=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.jpg=01;35:*.jpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.axv=01;35:*.anx=01;35:*.ogv=01;35:*.ogx=01;35:*.pdf=00;32:*.ps=00;32:*.txt=00;32:*.patch=00;32:*.diff=00;32:*.log=00;32:*.tex=00;32:*.doc=00;32:*.aac=00;36:*.au=00;36:*.flac=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.axa=00;36:*.oga=00;36:*.spx=00;36:*.xspf=00;36:" MAKEOPTS="-j8" MANPATH="/usr/local/share/man:/usr/share/man:/usr/share/binutils-data/x86_64-pc-linux-gnu/2.21.1/man:/usr/share/gcc-data/x86_64-pc-linux-gnu/4.5.2/man:/opt/intel/Compiler/11.1/072/man/en_US:/usr/lib64/php5.3/man/:/usr/share/postgresql/man/:/usr/share/postgresql-8.4/man/" MULTILIB_ABIS="amd64 x86" MULTILIB_STRICT_DENY="64-bit.*shared object" MULTILIB_STRICT_DIRS="/lib32 /lib /usr/lib32 /usr/lib /usr/kde/*/lib32 /usr/kde/*/lib /usr/qt/*/lib32 /usr/qt/*/lib /usr/X11R6/lib32 /usr/X11R6/lib" MULTILIB_STRICT_EXEMPT="(perl5|gcc|gcc-lib|binutils|eclipse-3|debug|portage|udev)" NETBEANS="apisupport cnd groovy gsf harness ide identity j2ee java mobility nb php profiler soa visualweb webcommon websvccommon xml" NGINX_MODULES_HTTP="access addition auth_basic autoindex browser cache charset degradation empty_gif fastcgi geo geoip gzip gzip_static limit_req limit_zone map memcached perl proxy realip referer rewrite sub upstream_ip_hash headers_more image_filter uwsgi stub_status dav" NLSPATH="/opt/intel/Compiler/11.1/072/lib/locale/en_US/%N" PAGER="/usr/bin/less" PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/usr/lib64/postgresql-8.4/bin" PHP_TARGETS="" PKGDIR="/usr/portage/packages" PORTAGE_ARCHLIST="ppc sparc64-freebsd ppc-openbsd x86-openbsd ppc64 x86-winnt x86-fbsd ppc-aix alpha arm x86-freebsd s390 amd64 arm-linux x86-macos x64-openbsd ia64-hpux hppa x86-netbsd x86-cygwin amd64-linux ia64-linux x86 sparc-solaris x64-freebsd sparc64-solaris x86-linux x64-macos sparc m68k-mint ia64 mips ppc-macos x86-interix hppa-hpux amd64-fbsd x64-solaris mips-irix m68k sh x86-solaris sparc-fbsd" PORTAGE_BINHOST_CHUNKSIZE="3000" PORTAGE_BIN_PATH="/usr/lib64/portage/bin" PORTAGE_COMPRESS_EXCLUDE_SUFFIXES="css gif htm[l]? jp[e]?g js pdf png" PORTAGE_CONFIGROOT="/" PORTAGE_DEBUG="0" PORTAGE_DEPCACHEDIR="/var/cache/edb/dep" PORTAGE_ELOG_CLASSES="log warn error" PORTAGE_ELOG_MAILFROM="portage@localhost" PORTAGE_ELOG_MAILSUBJECT="[portage] ebuild log for ${PACKAGE} on ${HOST}" PORTAGE_ELOG_MAILURI="root" PORTAGE_ELOG_SYSTEM="save_summary echo" PORTAGE_FETCH_CHECKSUM_TRY_MIRRORS="5" PORTAGE_FETCH_RESUME_MIN_SIZE="350K" PORTAGE_GID="250" PORTAGE_GPG_SIGNING_COMMAND="gpg --sign --clearsign --yes --default-key "${PORTAGE_GPG_KEY}" --homedir "${PORTAGE_GPG_DIR}" "${FILE}"" PORTAGE_INST_GID="0" PORTAGE_INST_UID="0" PORTAGE_PYM_PATH="/usr/lib64/portage/pym" PORTAGE_QUIET="1" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --stats --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages" PORTAGE_RSYNC_RETRIES="-1" PORTAGE_SANDBOX_COMPAT_LEVEL="16" PORTAGE_SYNC_STALE="30" PORTAGE_TMPDIR="/var/tmp" PORTAGE_VERBOSE="1" PORTAGE_WORKDIR_MODE="0700" PORTDIR="/usr/portage" PORTDIR_OVERLAY="/var/lib/layman/zugaina /usr/local/portage" PROFILE_ONLY_VARIABLES="ARCH ELIBC KERNEL USERLAND" PWD="/root" PYTHONDONTWRITEBYTECODE="1" RESUMECOMMAND="/usr/bin/wget -c -t 3 -T 60 --passive-ftp -O "${DISTDIR}/${FILE}" "${URI}"" RESUMECOMMAND_RSYNC="rsync -avP "${URI}" "${DISTDIR}/${FILE}"" RESUMECOMMAND_SSH="bash -c "x=\${2#ssh://} ; host=\${x%%/*} ; port=\${host##*:} ; host=\${host%:*} ; [[ \${host} = \${port} ]] && port=22 ; exec rsync --rsh=\"ssh -p\${port}\" -avP \"\${host}:/\${x#*/}\" \"\$1\"" rsync "${DISTDIR}/${FILE}" "${URI}"" ROOT="/" ROOTPATH="/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin" RPMDIR="/usr/portage/rpm" RUBYOPT="-rauto_gem" RUBY_TARGETS="ruby18" SHELL="/bin/bash" SHLVL="1" STAGE1_USE="multilib nptl nptlonly unicode" SYMLINK_LIB="yes" SYNC="rsync://rsync.de.gentoo.org/gentoo-portage" TERM="screen-256color-bce" USE="acpi amd64 apic arch_perfmon bash-completion bts bzip2 clflush cmov constant_tsc cracklib crypt cx16 cx8 de ds_cpl dtes64 dts ept est flexpriority fpu fxsr ht ida ipv6 jpeg lahf_lm lm mca mce mmx monitor msr mtrr multilib ncurses nls nonstop_tsc nx pae pam pat pbe pcre pdcm pebs pge png pni pse pse36 python rdtscp readline rep_good sep ss sse sse2 sse4_1 sse4_2 ssl ssse3 syscall threads tiff tm tm2 tpr_shadow tsc tsc_reliable unicode vim-syntax vme vmx vnmi vpid xml xtopology xtpr zlib" COLLECTD_PLUGINS="bind conntrack cpu cpufreq df disk dns entropy fscache interface iptables load logfile memcachec memcached memory netlink network nginx ntpd openvpn perl postgresql processes protocols python rrdcached rrdtool swap syslog tcpconns unixsock uptime users write_http" ELIBC="glibc" KERNEL="linux" NGINX_MODULES_HTTP="access addition auth_basic autoindex browser cache charset degradation empty_gif fastcgi geo geoip gzip gzip_static limit_req limit_zone map memcached perl proxy realip referer rewrite sub upstream_ip_hash headers_more image_filter uwsgi stub_status dav" RUBY_TARGETS="ruby18" USERLAND="GNU" USER="root" USERLAND="GNU" USE_EXPAND="ALSA_CARDS ALSA_PCM_PLUGINS APACHE2_MODULES APACHE2_MPMS CALLIGRA_FEATURES CAMERAS COLLECTD_PLUGINS CROSSCOMPILE_OPTS DRACUT_MODULES DVB_CARDS ELIBC FCDSL_CARDS FOO2ZJS_DEVICES FRITZCAPI_CARDS GPSD_PROTOCOLS INPUT_DEVICES KERNEL LCD_DEVICES LINGUAS LIRC_DEVICES MISDN_CARDS NETBEANS_MODULES NGINX_MODULES_HTTP NGINX_MODULES_MAIL OFED_DRIVERS PHP_TARGETS QEMU_SOFTMMU_TARGETS QEMU_USER_TARGETS RUBY_TARGETS SANE_BACKENDS USERLAND VIDEO_CARDS XFCE_PLUGINS XTABLES_ADDONS" USE_EXPAND_HIDDEN="CROSSCOMPILE_OPTS ELIBC KERNEL USERLAND" USE_ORDER="env:pkg:conf:defaults:pkginternal:repo:env.d" VIDEO_CARDS="" XDG_CONFIG_DIRS="/etc/xdg" XDG_DATA_DIRS="/usr/local/share:/usr/share" XTABLES_ADDONS="" _="/usr/bin/emerge" Hm, seems to be a sandbox problem: --------------------------- ACCESS VIOLATION SUMMARY --------------------------- LOG FILE "/var/log/sandbox/sandbox-16284.log" Logfile will be attached right after. Created attachment 282021 [details]
sandbox log for numpy
I think this is the problem LIBRARY_PATH="/opt/intel/Compiler/11.1/072/lib/intel64:/opt/intel/Compiler/11.1/072/idb/lib/intel64" Looks like the Intel Fortran compiler is violating the sandbox rules F: mkdir S: deny P: /usr/local/share/macrovision A: /usr/local/share/macrovision R: /usr/local/share/macrovision C: /opt/intel/Compiler/11.1/072/bin/intel64/ifort -FI -V -c /var/tmp/portage/dev-python/numpy-1.6.1/temp/tmp88o9ml/czrhrg.f -o /var/tmp/portage/dev-python/numpy-1.6.1/temp/tmp88o9ml/czrhrg.o Could you try using gfortran to compile numpy instead? I bet that will work. "gfortran" ? I don't have that :(
eix -I fortran
[I] virtual/fortran
Available versions: 0 {openmp}
Installed versions: 0(12:08:54 PM 07/08/2011)(-openmp)
Description: Virtual for Fortran Compiler
Does the package have another name ?
eix fortran
* app-xemacs/fortran-modes
Available versions: 1.05
Homepage: http://xemacs.org/
Description: Fortran support.
* dev-lang/cfortran
Available versions: 4.4-r2 {examples}
Homepage: http://www-zeus.desy.de/~burow/cfortran/
Description: Header file allowing to call Fortran routines from C and C++
[I] virtual/fortran
Available versions: 0 {openmp}
Installed versions: 0(12:08:54 PM 07/08/2011)(-openmp)
Description: Virtual for Fortran Compiler
(better view)
when trying to change the use openmp, it affects gcc, nothing else... And I don't see any "gfortran" use for gcc:
[ebuild R ] sys-devel/gcc-4.5.2 USE="fortran (multilib) nls (-altivec) -bootstrap -build -doc (-fixed-point) -gcj -graphite -gtk (-hardened) (-libffi) -lto -mudflap -multislot -nocxx -nopie -nossp -nptl -objc -objc++ -objc-gc -openmp -test -vanilla"
*** This bug has been marked as a duplicate of bug 332657 *** |
