Bug 458488

Summary:	sci-biology/vaal fails to compile on x86
Product:	Gentoo Linux	Reporter:	Agostino Sarubbo <ago>
Component:	Current packages	Assignee:	Gentoo Science Biology related packages <sci-biology>
Status:	RESOLVED FIXED
Severity:	normal
Priority:	Normal
Version:	unspecified
Hardware:	All
OS:	Linux
Whiteboard:
Package list:		Runtime testing required:	---
Attachments:	vaal-1.6:20130220-160841.log

Description Agostino Sarubbo gentoo-dev

2013-02-20 16:13:09 UTC

Portage 2.1.11.31 (default/linux/x86/13.0, gcc-4.6.3, glibc-2.15-r3, 3.4.6-hardened-r1-osl-guest-x86_64-1 i686)
=================================================================
System uname: Linux-3.4.6-hardened-r1-osl-guest-x86_64-1-i686-QEMU_Virtual_CPU_version_0.13.0-with-gentoo-2.1
ld GNU ld (GNU Binutils) 2.22
app-shells/bash:          4.2_p37
dev-lang/python:          2.7.3-r2, 3.2.3
dev-util/cmake:           2.8.9
dev-util/pkgconfig:       0.27.1
sys-apps/baselayout:      2.1-r1
sys-apps/openrc:          0.11.8
sys-apps/sandbox:         2.5
sys-devel/autoconf:       2.13, 2.69
sys-devel/automake:       1.11.6
sys-devel/binutils:       2.22-r1
sys-devel/gcc:            4.6.3
sys-devel/gcc-config:     1.7.3
sys-devel/libtool:        2.4-r1
sys-devel/make:           3.82-r4
sys-kernel/linux-headers: 3.6 (virtual/os-headers)
sys-libs/glibc:           2.15-r3
Repositories: gentoo
ACCEPT_KEYWORDS="x86"
ACCEPT_LICENSE="*"                                                                                                                                                                  
CBUILD="i686-pc-linux-gnu"                                                                                                                                                          
CFLAGS="-O2 -g0 -pipe"                                                                                                                                                              
CHOST="i686-pc-linux-gnu"                                                                                                                                                           
CONFIG_PROTECT="/etc /usr/share/config /usr/share/gnupg/qualified.txt"                                                                                                              
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/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/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c"                                                                                           
CXXFLAGS="-O2 -pipe"                                                                                                                                                                
DISTDIR="/usr/portage/distfiles"                                                                                                                                                    
EMERGE_DEFAULT_OPTS="--with-bdeps y --keep-going y -1"                                                                                                                              
FCFLAGS="-O2 -march=i686 -pipe"                                                                                                                                                     
FEATURES="assume-digests binpkg-logs collision-protect config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch protect-owned sandbox 
sfperms split-log strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync"                                                                           
FFLAGS="-O2 -march=i686 -pipe"                                                                                                                                                      
GENTOO_MIRRORS="http://gentoo.llarian.net/ http://lug.mtu.edu/gentoo/"                                                                                                              
LANG="en_US.utf8"                                                                                                                                                                   
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu"                                                                                                                              
MAKEOPTS="-j4"                                                                                                                                                                      
PKGDIR="/usr/portage/packages"                                                                                                                                                      
PORTAGE_CONFIGROOT="/"                                                                                                                                                              
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles 
--exclude=/local --exclude=/packages"                                                                                                                                                         
PORTAGE_TMPDIR="/var/tmp"                                                                                                                                                           
PORTDIR="/usr/portage"                                                                                                                                                              
PORTDIR_OVERLAY=""                                                                                                                                                                  
SYNC="rsync://rsync.gentoo.org/gentoo-portage"                                                                                                                                      
USE="X acl berkdb bzip2 cairo cli consolekit cracklib crypt cxx dbus dri fortran gdbm gpm gudev hwdb iconv ipv6 kmod minizip modules mudflap ncurses nls nptl ogg openmp pam 
pcre policykit qt3support qt4 readline session ssl tcpd threads unicode vorbis x86 zlib" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1 
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" ELIBC="glibc" 
KERNEL="linux" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" PHP_TARGETS="php5-3 php5-4" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 
python3_2" RUBY_TARGETS="ruby18 ruby19" USERLAND="GNU"
USE_PYTHON="2.7 3.2"

Comment 1 Agostino Sarubbo gentoo-dev

2013-02-20 16:13:15 UTC

Created attachment 339506 [details]
vaal-1.6:20130220-160841.log

build log

Comment 2 Justin Lecher (RETIRED) gentoo-dev

2013-02-20 16:23:12 UTC

How about version 42179? Should we stable that one?

Comment 3 Justin Lecher (RETIRED) gentoo-dev

2013-11-12 17:45:50 UTC

+  12 Nov 2013; Justin Lecher <jlec@gentoo.org> vaal-1.6.ebuild,
+  vaal-42179.ebuild, vaal-45166.ebuild, vaal-46233.ebuild:
+  Drop x86 as upstream gives no support and types are not easily fixable,
+  #458488, #472088 & #488550
+