| Summary: | sci-biology/plink-1.90_pre140514 : plink_cluster.c:(.text+<snip>): undefined reference to `dsyevr_' | ||
|---|---|---|---|
| Product: | Gentoo Linux | Reporter: | Toralf Förster <toralf> |
| Component: | Current packages | Assignee: | Gentoo Science Biology related packages <sci-biology> |
| Status: | CONFIRMED --- | ||
| Severity: | normal | ||
| Priority: | Normal | ||
| Version: | unspecified | ||
| Hardware: | All | ||
| OS: | Linux | ||
| Whiteboard: | |||
| Package list: | Runtime testing required: | --- | |
| Attachments: |
emerge-history.txt
environment sci-biology:plink-1.90_pre140514:20161002-193917.log |
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Created attachment 448892 [details]
emerge-history.txt
Created attachment 448894 [details]
environment
Created attachment 448896 [details]
sci-biology:plink-1.90_pre140514:20161002-193917.log
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^~~~~~~~~~~ /var/tmp/portage/sci-biology/plink-1.90_pre140514/temp/cc35VU39.o: In function `mds_plot(char*, char*, unsigned long*, unsigned long, unsigned int*, char*, unsigned int, unsigned int, unsigned long, unsigned int, unsigned int, unsigned int*, unsigned int*, unsigned int, unsigned int, unsigned int, double*)': plink_cluster.c:(.text+0x65b0): undefined reference to `dsyevr_' $ cat emerge-info.txt ----------------------------------------------------------------- This is an unstable amd64 chroot image (named amd64-13.0-no-multilib-unstable_20160928-214001) at a hardened host acting as a tinderbox. ----------------------------------------------------------------- USE flags ... ... in make.conf: USE=" pax_kernel xtpax -cdinstall -oci8 -bindist ssp alisp alsa apache2 bzip2 cgi -corefonts -csc -drmkms ecc exif fitz fpm graphtft gtk gtk2 gtkstyle imap introspection jadetex ldap lzma mad mikmod minimal mpg123 mta multitarget nls ogg openexr pam pdo printsupport pwquality rendering scrypt semantic-desktop smime ssh ssl ssp system-harfbuzz system-jpeg system-libevent -system-llvm tcl tls v4l2 video vlc xml xslt -xvfb xvmc zenmap -zip" ... in /etc/portage/package.use/*: mail-mta/ssmtp ssl mta net-misc/wget ssl app-crypt/pinentry -qt4 app-editors/emacs -dbus -svg -ssl -gtk -gtk3 app-text/xmlto -latex dev-libs/boehm-gc threads dev-libs/libpcre pcre16 dev-lang/python threads dev-qt/qtgui egl eglfs net-nds/openldap -sasl dev-util/cmake -qt4 -qt5 dev-vcs/git -perl media-libs/mesa -vaapi sys-apps/kmod tools net-misc/iputils -caps -filecaps entries in /etc/portage/package.unmask/*: ~dev-libs/boost-1.62.0 ~dev-util/boost-build-1.62.0 ~sys-apps/sandbox-2.11 media-video/ffmpeg sys-devel/gcc:6.2.0 ----------------------------------------------------------------- gcc-config -l: [1] x86_64-pc-linux-gnu-4.9.3 [2] x86_64-pc-linux-gnu-6.2.0 * llvm-config --version: 3.8.1 Available Python interpreters, in order of preference: [1] python3.4 [2] python2.7 (fallback) [3] pypy (fallback) ----------------------------------------------------------------- Portage 2.3.1 (python 3.4.5-final-0, default/linux/amd64/13.0/no-multilib, gcc-6.2.0, glibc-2.23-r2, 4.7.6-hardened x86_64) ================================================================= System Settings ================================================================= System uname: Linux-4.7.6-hardened-x86_64-Intel-R-_Core-TM-_i7-3930K_CPU_@_3.20GHz-with-gentoo-2.3 KiB Mem: 65285480 total, 1156192 free KiB Swap: 67108860 total, 67107272 free Timestamp of repository gentoo: Sun, 02 Oct 2016 18:30:16 +0000 sh bash 4.4 ld GNU ld (Gentoo 2.25.1 p1.1) 2.25.1 ccache version 3.2.7 [disabled] app-shells/bash: 4.4::gentoo dev-lang/perl: 5.24.0-r1::gentoo dev-lang/python: 2.7.12::gentoo, 3.4.5::gentoo dev-util/ccache: 3.2.7::gentoo dev-util/cmake: 3.6.2::gentoo dev-util/pkgconfig: 0.29.1::gentoo sys-apps/baselayout: 2.3::gentoo sys-apps/openrc: 0.22.1::gentoo sys-apps/sandbox: 2.11-r2::gentoo sys-devel/autoconf: 2.13::gentoo, 2.69-r2::gentoo sys-devel/automake: 1.11.6-r2::gentoo, 1.13.4-r1::gentoo, 1.14.1-r1::gentoo, 1.15-r2::gentoo sys-devel/binutils: 2.25.1-r1::gentoo, 2.26.1::gentoo sys-devel/gcc: 4.9.3::gentoo, 6.2.0-r1::gentoo sys-devel/gcc-config: 1.8-r1::gentoo sys-devel/libtool: 2.4.6-r2::gentoo sys-devel/make: 4.2.1::gentoo sys-kernel/linux-headers: 4.7::gentoo (virtual/os-headers) sys-libs/glibc: 2.23-r2::gentoo Repositories: gentoo location: /usr/portage sync-type: rsync sync-uri: rsync://rsync.gentoo.org/gentoo-portage priority: 1 local location: /usr/local/portage masters: gentoo priority: 2 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="*" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=native -O2 -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /etc/omega.conf /etc/stunnel/stunnel.conf /usr/share/config" 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/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c" CXXFLAGS="-march=native -O2 -pipe" DISTDIR="/var/tmp/distfiles" EMERGE_DEFAULT_OPTS="--verbose --verbose-conflicts --color=n --nospinner --tree --quiet-build" FCFLAGS="-O2 -pipe" FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync network-sandbox parallel-fetch preserve-libs protect-owned sandbox sfperms strict test-fail-continue unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="http://ftp.uni-erlangen.de/pub/mirrors/gentoo rsync://mirror.netcologne.de/gentoo/ ftp://sunsite.informatik.rwth-aachen.de/pub/Linux/gor.bytemark.co.uk/gentoo/ rsync://ftp.snt.utwente.nl/gentoo" LANG="en_US.utf8" LDFLAGS="-Wl,-O1 -Wl,--as-needed" MAKEOPTS="-j1" PKGDIR="/usr/portage/packages" PORTAGE_CONFIGROOT="/" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git" PORTAGE_TMPDIR="/var/tmp" USE="acl alisp alsa amd64 apache2 berkdb bzip2 cgi cli cracklib crypt cxx dri ecc exif fitz fortran fpm gdbm graphtft gtk gtk2 gtkstyle iconv imap introspection ipv6 jadetex ldap lzma mad mikmod minimal mmx mmxext modules mpg123 mta multitarget ncurses nls nptl ogg openexr openmp pam pax_kernel pcre pdo printsupport pwquality readline rendering scrypt seccomp semantic-desktop session smime sse sse2 ssh ssl ssp system-harfbuzz system-jpeg system-libevent tcl tcpd tls unicode v4l2 video vlc xattr xml xslt xtpax xvmc zenmap zlib" ABI_X86="64" 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" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump author" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="aes avx mmx mmxext popcnt sse sse2 sse3 sse4_1 sse4_2 ssse3" 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 ublox ubx" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" L10N="as en-GB es-CL et kk pt" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-6" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_4" RUBY_TARGETS="ruby20 ruby21" USERLAND="GNU" VIDEO_CARDS="amdgpu fbdev intel nouveau radeon radeonsi vesa dummy v4l" 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" Unset: CC, CPPFLAGS, CTARGET, CXX, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON