sci-libs/cholmod failed to configure. Error message: checking for cheev_... no checking for cheev_ in -llapack... no checking for cheev_ in -llapack_rs6k... no configure: error: Cannot find lapack libraries Reproducible: Always Steps to Reproduce: 1. Emerge sci-libs/cholmod Actual Results: configure: error: Cannot find lapack libraries Expected Results: sci-libs/cholmod configured Portage 2.2.0_alpha51 (default/linux/amd64/10.0, gcc-4.5.3, glibc-2.14.1-r2, 2.6.38-gentoo-r7 x86_64) ================================================================= System uname: Linux-2.6.38-gentoo-r7-x86_64-Intel-R-_Core-TM-_i5_CPU_760_@_2.80GHz-with-gentoo-2.1 Timestamp of tree: Sun, 22 Jan 2012 12:30:01 +0000 app-shells/bash: 4.2_p20 dev-java/java-config: 2.1.11-r3 dev-lang/python: 2.7.2-r3, 3.2.2 dev-util/cmake: 2.8.6-r4 dev-util/pkgconfig: 0.26 sys-apps/baselayout: 2.1 sys-apps/openrc: 0.9.8.1 sys-apps/sandbox: 2.5 sys-devel/autoconf: 2.13, 2.68 sys-devel/automake: 1.9.6-r3, 1.10.3, 1.11.2-r1 sys-devel/binutils: 2.22-r1 sys-devel/gcc: 4.4.6-r1, 4.5.3-r2 sys-devel/gcc-config: 1.5-r2 sys-devel/libtool: 2.4.2 sys-devel/make: 3.82-r3 sys-kernel/linux-headers: 3.2 (virtual/os-headers) sys-libs/glibc: 2.14.1-r2 Repositories: gentoo location: /usr/portage sync: rsync://rsync.gentoo.org/gentoo-portage priority: -1000 mozilla location: /var/lib/layman/mozilla masters: gentoo priority: 0 science location: /var/lib/layman/science masters: gentoo priority: 1 mexmat location: /var/lib/layman/mexmat masters: gentoo priority: 2 local location: /usr/local/portage masters: gentoo priority: 3 Installed sets: ABI="amd64" ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="*" ACCEPT_PROPERTIES="*" 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 mmap_emul mulaw multi null plug rate route share shm softvol" ANT_HOME="/usr/share/ant" APACHE2_MODULES="alias auth_basic auth_digest authn_anon authn_default authn_file authz_default authz_groupfile authz_host authz_user autoindex cache dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif so speling status unique_id vhost_alias" APACHE2_MPMS="worker" ARCH="amd64" AUTOCLEAN="yes" BOOTSTRAP_USE="cxx unicode multilib" CALLIGRA_FEATURES="kexi words flow plan stage tables krita karbon braindump" CAMERAS="ptp2" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-O3 -march=nocona -pipe -fomit-frame-pointer -pipe" CFLAGS_amd64="-m64" CFLAGS_x32="-mx32" CFLAGS_x86="-m32" CHOST="x86_64-pc-linux-gnu" CHOST_amd64="x86_64-pc-linux-gnu" CHOST_x32="x86_64-pc-linux-gnu" CHOST_x86="i686-pc-linux-gnu" CLEAN_DELAY="5" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" COLLISION_IGNORE="/lib/modules" CONFIG_PROTECT="/etc /usr/share/config /usr/share/gnupg/qualified.txt /var/bind /var/lib/hsqldb" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.3/ext-active/ /etc/php/apache2-php5.4/ext-active/ /etc/php/cgi-php5.3/ext-active/ /etc/php/cgi-php5.4/ext-active/ /etc/php/cli-php5.3/ext-active/ /etc/php/cli-php5.4/ext-active/ /etc/revdep-rebuild /etc/sandbox.d /etc/splash /etc/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c" CXXFLAGS="-O3 -march=nocona -pipe -fomit-frame-pointer -pipe" DEFAULT_ABI="amd64" DISTDIR="/mnt/distfiles/" EDITOR="/bin/nano" ELIBC="glibc" EMERGE_DEFAULT_OPTS="-v" EMERGE_WARNING_DELAY="10" EPREFIX="" EROOT="/" FCFLAGS="" FEATURES="assume-digests binpkg-logs buildpkg distlocks ebuild-locks fixlafiles fixpackages metadata-transfer news parallel-fetch preserve-libs 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="" FLTK_DOCDIR="/usr/share/doc/fltk-1.3.0/html" GCC_SPECS="" GDK_USE_XFT="1" GENTOO_MIRRORS="ftp://ftp.corbina.net/pub/Linux/gentoo/" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ubx" GRUB_PLATFORMS="" GSETTINGS_BACKEND="dconf" HG="/usr/bin/hg" HOME="/root" INFOPATH="/usr/share/info:/usr/share/binutils-data/x86_64-pc-linux-gnu/2.22/info:/usr/share/gcc-data/x86_64-pc-linux-gnu/4.5.3/info" INPUT_DEVICES="keyboard mouse vmmouse evdev synaptics" JAVAC="/etc/java-config-2/current-system-vm/bin/javac" JAVACC_HOME="/usr/share/javacc/" JAVA_HOME="/etc/java-config-2/current-system-vm" JDK_HOME="/etc/java-config-2/current-system-vm" KERNEL="linux" LANG="ru_RU.utf8" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LDFLAGS="-Wl,-O1 -Wl,--as-needed" LDFLAGS_amd64="-m elf_x86_64" LDFLAGS_x32="-m elf32_x86_64" LDFLAGS_x86="-m elf_i386" LESS="-R -M --shift 5" LESSOPEN="|lesspipe %s" LIBDIR_amd64="lib64" LIBDIR_amd64_fbsd="lib64" LIBDIR_n32="lib32" LIBDIR_n64="lib64" LIBDIR_o32="lib" LIBDIR_ppc="lib32" LIBDIR_ppc64="lib64" LIBDIR_s390="lib32" LIBDIR_s390x="lib64" LIBDIR_sparc32="lib32" LIBDIR_sparc64="lib64" LIBDIR_x32="libx32" LIBDIR_x86="lib32" LIBDIR_x86_fbsd="lib32" LINGUAS="ru en" 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:*.webm=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:" MAIL="/var/mail/root" MAKEOPTS="-j5" MANPATH="/etc/java-config-2/current-system-vm/man:/usr/local/share/man:/usr/share/man:/usr/share/binutils-data/x86_64-pc-linux-gnu/2.22/man:/usr/share/gcc-data/x86_64-pc-linux-gnu/4.5.3/man:/etc/java-config/system-vm/man/:/usr/lib64/php5.3/man/:/usr/lib64/php5.4/man/:/usr/share/postgresql/man/:/usr/share/postgresql-9.1/man/:/usr/share/postgresql-9.0/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" OPENGL_PROFILE="nvidia" 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/4.5.3" PHP_TARGETS="php5-3" PKGDIR="/mnt/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 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_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="22" PORTAGE_SYNC_STALE="30" PORTAGE_TMPDIR="/var/tmp" PORTAGE_VERBOSE="1" PORTAGE_WORKDIR_MODE="0700" PORTDIR="/usr/portage" PORTDIR_OVERLAY="/var/lib/layman/mozilla /var/lib/layman/science /var/lib/layman/mexmat /usr/local/portage" PORT_LOGDIR="/var/log/portage" PRELINK_PATH_MASK="/usr/lib64/klibc:/usr/lib64/libfreebl3.so:/usr/lib64/libnssdbm3.so:/usr/lib64/libsoftokn3.so" PROFILE_ONLY_VARIABLES="ARCH ELIBC KERNEL USERLAND" PWD="/root" PYTHONDONTWRITEBYTECODE="1" QT_PLUGIN_PATH="/usr/lib64/kde4/plugins" 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/4.5.3" RPMDIR="/usr/portage/rpm" RUBYOPT="-rauto_gem" RUBY_TARGETS="ruby18" R_HOME="/usr/lib64/R" SBCL_HOME="/usr/lib64/sbcl" SBCL_SOURCE_ROOT="/usr/lib64/sbcl/src" SHELL="/bin/bash" SHLVL="1" SUDO_COMMAND="/bin/bash" SUDO_GID="1001" SUDO_UID="1001" SUDO_USER="faktor" SYMLINK_LIB="yes" SYNC="rsync://rsync.gentoo.org/gentoo-portage" TERM="screen" USE="X acl acpi alsa amd64 apache2 bash-completion berkdb blas boost branding bzip2 cairo chm cli consolekit cpudetection cracklib crypt cups curl cxx dbus directfb djvu dri dvi exif fbcon flac fortran gd gdbm gif gimp gmp gpm gtk iconv imap ipv6 java java6 jpeg jpeg2k kde kerberos lame laptop ldap maildir mbox metis mmx modules mp3 mudflap multilib mysql ncurses nls nocardbus nptl nptlonly opengl openmp pam pcre pdf perl png policykit pppd private-headers python qt3support qt4 raw readline samba session spell sql sse sse2 ssl subversion svg synaptics sysfs syslog tcpd tetgen threads tiff truetype udev unicode usb utf8 v4l v4l2 vhosts vim-syntax webkit xinerama 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 mmap_emul mulaw multi null plug rate route share shm softvol" APACHE2_MODULES="alias auth_basic auth_digest authn_anon authn_default authn_file authz_default authz_groupfile authz_host authz_user autoindex cache dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif so speling status unique_id vhost_alias" APACHE2_MPMS="worker" CALLIGRA_FEATURES="kexi words flow plan stage tables krita karbon braindump" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ubx" INPUT_DEVICES="keyboard mouse vmmouse evdev synaptics" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="ru en" PHP_TARGETS="php5-3" RUBY_TARGETS="ruby18" USERLAND="GNU" VIDEO_CARDS="vesa nvidia" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account" USER="root" USERLAND="GNU" USERNAME="root" 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 GRUB_PLATFORMS 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="vesa nvidia" XDG_CONFIG_DIRS="/etc/xdg" XDG_DATA_DIRS="/usr/local/share:/usr/share:/usr/share/gdm" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account" _="/usr/bin/emerge"
This seems not to be trivial. I am not the maintainer, but I suppose config.log and build.log would be helpful for investigating the problem.
Created attachment 299565 [details] config.log Portage 2.2.0_alpha51 (default/linux/amd64/10.0, gcc-4.5.3, glibc-2.14.1-r2, 2.6.38-gentoo-r7 x86_64) ================================================================= System Settings ================================================================= System uname: Linux-2.6.38-gentoo-r7-x86_64-Intel-R-_Core-TM-_i5_CPU_760_@_2.80GHz-with-gentoo-2.1 Timestamp of tree: Sun, 22 Jan 2012 12:30:01 +0000 app-shells/bash: 4.2_p20 dev-java/java-config: 2.1.11-r3 dev-lang/python: 2.7.2-r3, 3.2.2 dev-util/cmake: 2.8.6-r4 dev-util/pkgconfig: 0.26 sys-apps/baselayout: 2.1 sys-apps/openrc: 0.9.8.1 sys-apps/sandbox: 2.5 sys-devel/autoconf: 2.13, 2.68 sys-devel/automake: 1.9.6-r3, 1.10.3, 1.11.2-r1 sys-devel/binutils: 2.22-r1 sys-devel/gcc: 4.4.6-r1, 4.5.3-r2 sys-devel/gcc-config: 1.5-r2 sys-devel/libtool: 2.4.2 sys-devel/make: 3.82-r3 sys-kernel/linux-headers: 3.2 (virtual/os-headers) sys-libs/glibc: 2.14.1-r2 Repositories: gentoo location: /usr/portage sync: rsync://rsync.gentoo.org/gentoo-portage priority: -1000 mozilla location: /var/lib/layman/mozilla masters: gentoo priority: 0 science location: /var/lib/layman/science masters: gentoo priority: 1 mexmat location: /var/lib/layman/mexmat masters: gentoo priority: 2 local location: /usr/local/portage masters: gentoo priority: 3 Installed sets: ABI="amd64" ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="*" ACCEPT_PROPERTIES="*" 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 mmap_emul mulaw multi null plug rate route share shm softvol" ANT_HOME="/usr/share/ant" APACHE2_MODULES="alias auth_basic auth_digest authn_anon authn_default authn_file authz_default authz_groupfile authz_host authz_user autoindex cache dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif so speling status unique_id vhost_alias" APACHE2_MPMS="worker" ARCH="amd64" AUTOCLEAN="yes" BOOTSTRAP_USE="cxx unicode multilib" CALLIGRA_FEATURES="kexi words flow plan stage tables krita karbon braindump" CAMERAS="ptp2" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-O3 -march=nocona -pipe -fomit-frame-pointer -pipe" CFLAGS_amd64="-m64" CFLAGS_x32="-mx32" CFLAGS_x86="-m32" CHOST="x86_64-pc-linux-gnu" CHOST_amd64="x86_64-pc-linux-gnu" CHOST_x32="x86_64-pc-linux-gnu" CHOST_x86="i686-pc-linux-gnu" CLEAN_DELAY="5" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" COLLISION_IGNORE="/lib/modules" CONFIG_PROTECT="/etc /usr/share/config /usr/share/gnupg/qualified.txt /var/bind /var/lib/hsqldb" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.4/ext-active/ /etc/php/cgi-php5.4/ext-active/ /etc/php/cli-php5.4/ext-active/ /etc/revdep-rebuild /etc/sandbox.d /etc/splash /etc/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c" CXXFLAGS="-O3 -march=nocona -pipe -fomit-frame-pointer -pipe" DEFAULT_ABI="amd64" DISTDIR="/mnt/distfiles/" EDITOR="/bin/nano" ELIBC="glibc" EMERGE_DEFAULT_OPTS="-v" EMERGE_WARNING_DELAY="10" EPREFIX="" EROOT="/" FCFLAGS="" FEATURES="assume-digests binpkg-logs buildpkg distlocks ebuild-locks fixlafiles fixpackages metadata-transfer news parallel-fetch preserve-libs 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="" FLTK_DOCDIR="/usr/share/doc/fltk-1.3.0/html" GCC_SPECS="" GDK_USE_XFT="1" GENTOO_MIRRORS="http://mirrors.sgu.ru/gentoo/" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ubx" GRUB_PLATFORMS="" GSETTINGS_BACKEND="dconf" HG="/usr/bin/hg" HOME="/root" INFOPATH="/usr/share/info:/usr/share/binutils-data/x86_64-pc-linux-gnu/2.22/info:/usr/share/gcc-data/x86_64-pc-linux-gnu/4.5.3/info" INPUT_DEVICES="keyboard mouse vmmouse evdev synaptics" JAVAC="/etc/java-config-2/current-system-vm/bin/javac" JAVACC_HOME="/usr/share/javacc/" JAVA_HOME="/etc/java-config-2/current-system-vm" JDK_HOME="/etc/java-config-2/current-system-vm" KERNEL="linux" LANG="ru_RU.utf8" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LDFLAGS="-Wl,-O1 -Wl,--as-needed" LDFLAGS_amd64="-m elf_x86_64" LDFLAGS_x32="-m elf32_x86_64" LDFLAGS_x86="-m elf_i386" LESS="-R -M --shift 5" LESSOPEN="|lesspipe %s" LIBDIR_amd64="lib64" LIBDIR_amd64_fbsd="lib64" LIBDIR_n32="lib32" LIBDIR_n64="lib64" LIBDIR_o32="lib" LIBDIR_ppc="lib32" LIBDIR_ppc64="lib64" LIBDIR_s390="lib32" LIBDIR_s390x="lib64" LIBDIR_sparc32="lib32" LIBDIR_sparc64="lib64" LIBDIR_x32="libx32" LIBDIR_x86="lib32" LIBDIR_x86_fbsd="lib32" LINGUAS="ru en" 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:*.webm=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:" MAIL="/var/mail/root" MAKEOPTS="-j5" MANPATH="/etc/java-config-2/current-system-vm/man:/usr/local/share/man:/usr/share/man:/usr/share/binutils-data/x86_64-pc-linux-gnu/2.22/man:/usr/share/gcc-data/x86_64-pc-linux-gnu/4.5.3/man:/etc/java-config/system-vm/man/:/usr/lib64/php5.4/man/:/usr/share/postgresql/man/:/usr/share/postgresql-9.1/man/:/usr/share/postgresql-9.0/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" NOCOLOR="true" OPENGL_PROFILE="nvidia" 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/4.5.3" PHP_TARGETS="php5-3" PKGDIR="/mnt/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 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_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="22" PORTAGE_SYNC_STALE="30" PORTAGE_TMPDIR="/var/tmp" PORTAGE_VERBOSE="1" PORTAGE_WORKDIR_MODE="0700" PORTDIR="/usr/portage" PORTDIR_OVERLAY="/var/lib/layman/mozilla /var/lib/layman/science /var/lib/layman/mexmat /usr/local/portage" PORT_LOGDIR="/var/log/portage" PRELINK_PATH_MASK="/usr/lib64/klibc:/usr/lib64/libfreebl3.so:/usr/lib64/libnssdbm3.so:/usr/lib64/libsoftokn3.so" PROFILE_ONLY_VARIABLES="ARCH ELIBC KERNEL USERLAND" PWD="/root" PYTHONDONTWRITEBYTECODE="1" QT_PLUGIN_PATH="/usr/lib64/kde4/plugins" 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/4.5.3" RPMDIR="/usr/portage/rpm" RUBYOPT="-rauto_gem" RUBY_TARGETS="ruby18" R_HOME="/usr/lib64/R" SBCL_HOME="/usr/lib64/sbcl" SBCL_SOURCE_ROOT="/usr/lib64/sbcl/src" SHELL="/bin/bash" SHLVL="1" SUDO_COMMAND="/bin/bash" SUDO_GID="1001" SUDO_UID="1001" SUDO_USER="faktor" SYMLINK_LIB="yes" SYNC="rsync://rsync.gentoo.org/gentoo-portage" TERM="screen" USE="X acl acpi alsa amd64 apache2 bash-completion berkdb blas boost branding bzip2 cairo chm cli consolekit cpudetection cracklib crypt cups curl cxx dbus directfb djvu dri dvi exif fbcon flac fortran gd gdbm gif gimp gmp gpm gtk iconv imap ipv6 java java6 jpeg jpeg2k kde kerberos lame laptop ldap maildir mbox metis mmx modules mp3 mudflap multilib mysql ncurses nls nocardbus nptl nptlonly opengl openmp pam pcre pdf perl png policykit pppd private-headers python qt3sup port qt4 raw readline samba session spell sql sse sse2 ssl subversion svg synaptics sysfs syslog tcpd tetgen threads tiff truetype udev unicode usb utf8 v4l v4l2 vhosts vim-syntax webkit xinerama 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 mmap_emul mulaw multi null plug rate route share shm softvol" APACHE2_MODULES="alias auth_basic auth_digest authn_anon authn_default authn_file authz_default authz_groupfile authz_host authz_user autoindex cache dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif so speling status unique_id vhost_alias" APACHE2_MPMS="worker" CALLIGRA_FEATURES="kexi words flow plan stage tables krita karbon braindump" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ubx" INPUT_DEVICES="keyboard mouse vmmouse evdev synaptics" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="ru en" PHP_TARGETS="php5-3" RUBY_TARGETS="ruby18" USERLAND="GNU" VIDEO_CARDS="vesa nvidia" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account" USER="root" USERLAND="GNU" USERNAME="root" 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 GRUB_PLATFORMS 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="vesa nvidia" XDG_CONFIG_DIRS="/etc/xdg" XDG_DATA_DIRS="/usr/local/share:/usr/share:/usr/share/gdm" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account" _="/usr/bin/emerge" ================================================================= Package Settings ================================================================= USE="metis (multilib) supernodal -doc -minimal -static-libs" sci-libs/cholmod-1.7.4 was built with the following: CFLAGS="-O0 -march=nocona -pipe -fomit-frame-pointer -pipe" CXXFLAGS="-O0 -march=nocona -pipe -fomit-frame-pointer -pipe"
i think this trivial bug... >>configure: error: Cannot find lapack libraries >>lapack libraries tried install this?
Libraries are installed eix -I lapack | grep [I] [I] sci-libs/lapack-reference Installed versions: 3.3.1-r1{tbz2}[1](22:12:25 23.01.2012)(-static-libs -test -xblas) [I] virtual/lapack Installed versions: 3.3{tbz2}[1](22:12:38 23.01.2012)(-doc) Attempts to rebuild attempts to rebuild give the same result
Please attach full build.log
Created attachment 300051 [details] sci-libs:cholmod-1.7.4 build.log
could you give your "eselect lapack show", and pkg-config --libs lapack? a re-install of lapack-reference might do the trick.
(In reply to comment #7) > could you give your "eselect lapack show" No i can't use this trick [blocks B ] app-admin/eselect-lapack (app-admin/eselect-lapack is blocking sci-libs/lapack-reference-3.3.1-r1, sci-libs/atlas-3.9.49) > and pkg-config --libs lapack? # pkg-config --libs lapack Package blas was not found in the pkg-config search path. Perhaps you should add the directory containing `blas.pc' to the PKG_CONFIG_PATH environment variable Package 'blas', required by 'lapack', not found # equery b blas.pc * Searching for blas.pc ... sci-libs/atlas-3.9.49 (/etc/env.d/alternatives/blas/atlas-threads/usr/lib64/pkgconfig/blas.pc -> ../../../../../../../../usr/lib64/pkgconfig/atlas-blas-threads.pc) sci-libs/atlas-3.9.49 (/etc/env.d/alternatives/blas/atlas/usr/lib64/pkgconfig/blas.pc -> ../../../../../../../../usr/lib64/pkgconfig/atlas-blas.pc) > a re-install of lapack-reference might do the trick. # emerge sci-libs/lapack-reference eventually got the same result emerge sci-libs/atlas virtual/blas didn't help
strange solution... # emerge -C sci-libs/atlas sci-libs/lapack-reference sci-libs/gsl solve the conflict dependency # emerge sci-libs/blas-reference [ebuild N ] app-admin/eselect-blas-0.1 [ebuild N ] sci-libs/blas-reference-20070226-r2 USE="-doc" sci-libs/blas-reference sets were not available before the library and links emerge cholmod [ebuild N ] sci-libs/atlas-3.9.49 USE="fortran threads -doc -lapack -static-libs" [ebuild N ] sci-libs/lapack-reference-3.3.1-r1 USE="-static-libs -test -xblas" [ebuild N ] sci-libs/cholmod-1.7.4 USE="metis supernodal -debug -doc -minimal -static-libs" cholmod successfully configured and installed # revdep-rebuild && emerge @preserved-rebuild make install something that you forgot
