Bug 325399 – sci-chemistry/apbs-1.2.1b-r4: tests failed

• Product: Gentoo Linux
• Status: RESOLVED FIXED

[Description Pacho Ramos 2010-06-24 19:18:14 UTC]

Attached build log. My emerge --info:

Portage 2.1.8.3 (default/linux/amd64/10.0/desktop/gnome, gcc-4.4.3, glibc-2.11.1-r0, 2.6.33-tuxonice-r2 x86_64)
=================================================================
System uname: Linux-2.6.33-tuxonice-r2-x86_64-Intel-R-_Core-TM-2_Duo_CPU_T9300_@_2.50GHz-with-gentoo-1.12.13
Timestamp of tree: Thu, 24 Jun 2010 10:30:01 +0000
ccache version 2.4 [enabled]
app-shells/bash:     4.0_p37
dev-java/java-config: 2.1.10
dev-lang/python:     2.4.6, 2.6.5-r2
dev-util/ccache:     2.4-r7
dev-util/cmake:      2.6.4-r3
sys-apps/baselayout: 1.12.13
sys-apps/sandbox:    1.6-r2
sys-devel/autoconf:  2.13, 2.65
sys-devel/automake:  1.9.6-r3, 1.10.3, 1.11.1
sys-devel/binutils:  2.20.1-r1
sys-devel/gcc:       4.4.3-r2
sys-devel/gcc-config: 1.4.1
sys-devel/libtool:   2.2.6b
virtual/os-headers:  2.6.30-r1
ACCEPT_KEYWORDS="amd64"
ACCEPT_LICENSE="*"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe -march=native"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/X11/xkb /usr/share/config /var/lib/hsqldb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /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 -march=native"
DISTDIR="/usr/distfiles"
FEATURES="assume-digests autoaddcvs ccache cvs distlocks fixpackages multilib-strict news parallel-fetch protect-owned sandbox sfperms sign split-log strict test test-fail-continue unmerge-logs unmerge-orphans userfetch"
GENTOO_MIRRORS="ftp://ftp.free.fr/mirrors/ftp.gentoo.org"
LANG="es_ES.UTF-8"
LDFLAGS="-Wl,-O1"
LINGUAS="es es_ES en_US"
MAKEOPTS="-j3"
PKGDIR="/usr/local/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/portage/local/layman/sunrise /usr/local/portage"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="X a52 aac acl acpi alsa amd64 applet avahi bash-completion berkdb bluetooth branding bzip2 cairo cdda cddb cdinstall cdr cleartype cli consolekit cracklib crypt css cups cxx daap dbus dell djvu dri dts dvd dvdr dvi eds emboss encode evo exif fam fat ffmpeg firefox flac fortran fuse gdbm gdu gif git glitz gnome gnome-keyring gpm gstreamer gtk hal iconv ieee1394 imagemagick ipod java jpeg kdehiddenvisibility kpathsea lame laptop latex lcms libnotify lm_sensors lyx lzma mad mikmod mmx mmxext mng modules mono mp3 mp4 mpeg mudflap multilib musicbrainz nautilus ncurses network network-cron networkmanager nls nptl nptlonly ntfs nvidia ogg opengl openmp pam pango pch pcre pdf perl png policykit ppds pppd python qt3support qt4 readline reflection reiserfs scanner sdl session spell spl sse sse2 ssl ssse3 startup-notification subversion svg sysfs t1lib tcpd threads tiff truetype unicode usb v4l2 vcd vdpau vorbis webkit wifi x264 xattr xcb xml xmp xorg xpm xulrunner xv xvid zeroconf zlib" ALSA_CARDS="hda-intel" 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="evdev synaptics" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="es es_ES en_US" RUBY_TARGETS="ruby18" USERLAND="GNU" VIDEO_CARDS="nvidia nv" 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:  CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, FFLAGS, INSTALL_MASK, LC_ALL, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS


Reproducible: Always

[Comment 1 Justin Lecher (RETIRED) 2010-06-24 19:40:33 UTC]

build.log please!

[Comment 2 Pacho Ramos 2010-06-24 20:16:41 UTC]

Created attachment 236437 [details]
build.log

[Comment 3 Justin Lecher (RETIRED) 2010-06-24 20:24:41 UTC]

Could you please attach "${S}"/examples/TESTRESULTS.log ?

[Comment 4 Pacho Ramos 2010-06-24 20:46:20 UTC]

I will have to rebuild it without test-fail-continue as the build directory is removed once it's merged :'(

[Comment 5 Pacho Ramos 2010-06-25 13:42:56 UTC]

Created attachment 236507 [details]
The file

[Comment 6 Justin Lecher (RETIRED) 2010-06-27 14:27:55 UTC]

Thanks for your test results, but It is a locale error. The app works fine being an a local having a dot as decimal seperator. But this true for many sci apps.

[Comment 7 Pacho Ramos 2010-06-27 14:33:30 UTC]

Then, why don't you force proper locale (C?) for running tests? (I think it's being done, or was done in the past, for some mono stuff)

Thanks a lot :-)

[Comment 8 Justin Lecher (RETIRED) 2010-06-27 16:47:00 UTC]

Right I added it to the ebuild:


+  27 Jun 2010; Justin Lecher <[e-mail]> apbs-1.2.1b-r4.ebuild:
+  Force LC_NUMERIC to C during test, should fix problem with decimal
+  seperators
+