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Bug 263041 - Please stabilize sci-biology/eugene-3.5d
Summary: Please stabilize sci-biology/eugene-3.5d
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: New packages (show other bugs)
Hardware: All Linux
: Normal enhancement (vote)
Assignee: Andrey Kislyuk (RETIRED)
URL:
Whiteboard:
Keywords: STABLEREQ
Depends on:
Blocks:
 
Reported: 2009-03-19 14:23 UTC by Andrey Kislyuk (RETIRED)
Modified: 2009-04-18 12:36 UTC (History)
0 users

See Also:
Package list:
Runtime testing required: ---


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Description Andrey Kislyuk (RETIRED) gentoo-dev 2009-03-19 14:23:00 UTC
Please stabilize sci-biology/eugene-3.5d.
Comment 1 Markus Meier gentoo-dev 2009-03-22 16:23:54 UTC
fails testsuite here on amd64/x86:

make  check-DEJAGNU
make[2]: Entering directory `/var/tmp/portage/sci-biology/eugene-3.5d/work/eugene-3.5d-1'
Making a new site.exp file...
srcdir=`CDPATH="${ZSH_VERSION+.}:" && cd . && pwd`; export srcdir; \
        EXPECT=expect; export EXPECT; \
        runtest=runtest; \
        if /bin/sh -c "$runtest --version" > /dev/null 2>&1; then \
          exit_status=0; l='eugene'; for tool in $l; do \
            if $runtest  --tool TestSuite --srcdir Test --objdir . --outdir Test/TestTrace  ; \
            then :; else exit_status=1; fi; \
          done; \
        else echo "WARNING: could not find \`runtest'" 1>&2; :;\
        fi; \
        exit $exit_status
WARNING: Couldn't find the global config file.
WARNING: Couldn't find tool init file
couldn't open "Test/TestTrace/TestSuite.sum": no such file or directory
    while executing
"open "$outdir/$tool.sum" w"
    (procedure "open_logs" line 12)
    invoked from within
"open_logs" 
    (file "/usr/share/dejagnu/runtest.exp" line 1224)
make[2]: *** [check-DEJAGNU] Error 1
make[2]: Leaving directory `/var/tmp/portage/sci-biology/eugene-3.5d/work/eugene-3.5d-1'
make[1]: *** [check-am] Error 2
make[1]: Leaving directory `/var/tmp/portage/sci-biology/eugene-3.5d/work/eugene-3.5d-1'
make: *** [check-recursive] Error 1
 *
 * ERROR: sci-biology/eugene-3.5d failed.
 * Call stack:
 *               ebuild.sh, line   49:  Called src_test
 *             environment, line 2708:  Called _eapi0_src_test
 *               ebuild.sh, line  616:  Called die
 * The specific snippet of code:
 *                      hasq test $FEATURES && die "Make check failed. See above for details."
 *  The die message:
 *   Make check failed. See above for details.

Portage 2.1.6.7 (default/linux/amd64/2008.0/desktop, gcc-4.1.2, glibc-2.8_p20080602-r1, 2.6.28.7 x86_64)
=================================================================
System uname: Linux-2.6.28.7-x86_64-Intel-R-_Core-TM-2_Duo_CPU_T8300_@_2.40GHz-with-glibc2.2.5
Timestamp of tree: Sun, 22 Mar 2009 14:30:01 +0000
app-shells/bash:     3.2_p39
dev-java/java-config: 1.3.7-r1, 2.1.7
dev-lang/python:     2.4.4-r14, 2.5.2-r7
dev-python/pycrypto: 2.0.1-r8
dev-util/cmake:      2.6.2-r1
sys-apps/baselayout: 1.12.11.1
sys-apps/sandbox:    1.2.18.1-r2
sys-devel/autoconf:  2.13, 2.63
sys-devel/automake:  1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10.2
sys-devel/binutils:  2.18-r3
sys-devel/gcc-config: 1.4.0-r4
sys-devel/libtool:   1.5.26
virtual/os-headers:  2.6.27-r2
ACCEPT_KEYWORDS="amd64"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /opt/openfire/resources/security/ /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/shutdown /usr/lib64/fax /usr/share/config /var/bind /var/lib/hsqldb /var/spool/fax/etc /var/spool/torque"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/php/apache2-php5/ext-active/ /etc/php/cgi-php5/ext-active/ /etc/php/cli-php5/ext-active/ /etc/revdep-rebuild /etc/splash /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 -pipe"
DISTDIR="/usr/portage/distfiles"
FEATURES="collision-protect distlocks fixpackages multilib-strict parallel-fetch protect-owned sandbox sfperms strict test unmerge-orphans userfetch userpriv usersandbox"
GENTOO_MIRRORS="http://distfiles.gentoo.org http://distro.ibiblio.org/pub/linux/distributions/gentoo"
LDFLAGS="-Wl,-O1"
LINGUAS="en en_GB de"
MAKEOPTS="-j2"
PKGDIR="/mnt/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"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="X acl acpi alsa amd64 apache2 arts avahi berkdb bluetooth branding bzip2 cairo cdr cli cracklib crypt cups dbus dri dvd dvdr dvdread eds emboss encode esd evo examples fam firefox fortran gdbm gif gnome gpm gstreamer gtk hal iconv ipv6 isdnlog jpeg kde ldap libnotify mad midi mikmod mmx mp3 mpeg mudflap multilib ncurses nls nptl nptlonly nsplugin ogg opengl openmp pam pcre pdf perl png ppds pppd python qt3 qt3support qt4 quicktime readline reflection sdl session source spell spl sse sse2 ssl startup-notification svg sysfs tcpd test tiff truetype unicode usb vorbis xml xorg xulrunner xv 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" LINGUAS="en en_GB de" USERLAND="GNU" VIDEO_CARDS="fbdev glint i810 intel mach64 mga neomagic nv r128 radeon savage sis tdfx trident vesa vga via vmware voodoo"
Unset:  CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, FFLAGS, INSTALL_MASK, LANG, LC_ALL, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, PORTDIR_OVERLAY
Comment 2 Andrey Kislyuk (RETIRED) gentoo-dev 2009-03-23 12:59:40 UTC
Markus-

Strange, when I run the default test phase it doesnt crash. Neither does it crash if I cd into the builddir and run "make check" or "make check-DEJAGNU" myself. The error you posted is due to some file required for the testsuite missing from the tarball, I don't think I can do anything about that. Let me know if you have a way to fix this problem, otherwise I can't think of anything I can do to fix this.
Comment 3 Markus Meier gentoo-dev 2009-04-18 12:36:23 UTC
amd64/x86 stable, all arches done.