Bug 295309 – sys-cluster/hpl-2.0 fails to build

• Product: Gentoo Linux
• Status: RESOLVED WORKSFORME

[Description lumbrius 2009-12-01 12:23:01 UTC]

sys-cluster/hpl-2.0 fails to build due to undefined references in /usr/lib64/liblapack.so

Reproducible: Always




iunona ~ # eselect lapack show
lib64: atlas

iunona ~ # eselect cblas show
lib64: atlas

iunona ~ # emerge --info
Portage 2.1.7.5 (default/linux/amd64/10.0, gcc-4.4.1, glibc-2.10.1-r0, 2.6.29-gentoo-r5 x86_64)
=================================================================
System uname: Linux-2.6.29-gentoo-r5-x86_64-Intel-R-_Core-TM-2_Quad_CPU_Q9300_@_2.50GHz-with-gentoo-2.0.1
Timestamp of tree: Tue, 01 Dec 2009 08:30:15 +0000
app-shells/bash:     4.0_p35
dev-lang/python:     2.6.4, 3.1.1-r1
sys-apps/baselayout: 2.0.1
sys-apps/openrc:     0.5.2-r2
sys-apps/sandbox:    2.2
sys-devel/autoconf:  2.13, 2.63-r1
sys-devel/automake:  1.10.2, 1.11
sys-devel/binutils:  2.19.1-r1
sys-devel/gcc-config: 1.4.1
sys-devel/libtool:   2.2.6b
virtual/os-headers:  2.6.30-r1
ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="* -@EULA"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -march=native -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/X11/xkb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5/ext-active/ /etc/php/cgi-php5/ext-active/ /etc/php/cli-php5/ext-active/ /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 /etc/udev/rules.d"
CXXFLAGS="-O2 -march=native -pipe"
DISTDIR="/usr/portage/distfiles"
FEATURES="assume-digests distlocks fixpackages news parallel-fetch protect-owned sandbox sfperms strict unmerge-logs unmerge-orphans userfetch"
GENTOO_MIRRORS="http://distfiles.gentoo.org http://distro.ibiblio.org/pub/linux/distributions/gentoo"
LDFLAGS="-Wl,-O1"
MAKEOPTS="-j5"
PKGDIR="/usr/portage/packages"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --stats --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY="/usr/local/portage"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="3dnow X acl amd64 berkdb bzip2 cli cracklib crypt dri fortran gdbm gpm iconv mmx modules mudflap multilib ncurses nls nptl nptlonly openmp pam pcre perl pppd python readline reflection session spl sse sse2 sse3 ssl sysfs tcpd unicode 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="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 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" ELIBC="glibc" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" RUBY_TARGETS="ruby18" USERLAND="GNU" VIDEO_CARDS="nvidia"
Unset:  CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, FFLAGS, INSTALL_MASK, LANG, LC_ALL, LINGUAS, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS

[Comment 1 lumbrius 2009-12-01 12:23:26 UTC]

Created attachment 211684 [details]
build.log

build.log

[Comment 2 Wormo (RETIRED) 2009-12-16 07:47:52 UTC]

Not that I'm an expert on this package (haven't even installed it), but I think the linking order looks wrong; normally I see -llapack -lblas since library that defines symbols should come after library referencing them.

[Comment 3 lumbrius 2009-12-17 17:47:56 UTC]

This package can be compiled normally if blas, cblas and lapack are set to atlas in eselect, but fails to compile with mkl libraries.

[Comment 4 Kacper Kowalik (Xarthisius) (RETIRED) 2012-05-24 09:45:29 UTC]

It was never a bug in hpl, rather broken lapack/blas installation.