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Bug 502156

Summary: sci-biology/bioperl-network-1.6.9 fails tests with dev-perl/Graph-0.960.0
Product: Gentoo Linux Reporter: Paweł Hajdan, Jr. (RETIRED) <phajdan.jr>
Component: Current packagesAssignee: Gentoo Science Biology related packages <sci-biology>
Status: CONFIRMED ---    
Severity: normal CC: kentnl
Priority: Normal Keywords: TESTFAILURE
Version: unspecified   
Hardware: All   
OS: Linux   
Whiteboard:
Package list:
Runtime testing required: ---
Attachments: build.log.gz

Description Paweł Hajdan, Jr. (RETIRED) gentoo-dev 2014-02-22 18:47:04 UTC
Created attachment 371082 [details]
build.log.gz

Test Summary Report
-------------------
t/Graph-MD5.t  (Wstat: 512 Tests: 14 Failed: 0)
  Non-zero exit status: 2
  Parse errors: Bad plan.  You planned 23 tests but ran 14.
t/Graph-Seq.t  (Wstat: 65280 Tests: 14 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 21 tests but ran 14.
t/IO_psi10.t   (Wstat: 65280 Tests: 10 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 22 tests but ran 10.
Files=9, Tests=302, 27 wallclock secs ( 0.10 usr  0.10 sys + 26.43 cusr  0.81 csys = 27.44 CPU)
Result: FAIL
Failed 3/9 test programs. 0/302 subtests failed.
 * ERROR: sci-biology/bioperl-network-1.6.0::gentoo failed (test phase):
 *   test failed

This is a regression - tests succeed with dev-perl/Graph-0.940.0 .

Also note bug #298326 for the t/IO_psi10.t test.

Portage 2.2.7 (default/linux/x86/13.0/developer, gcc-4.7.3, glibc-2.17, 3.10.25-gentoo i686)
=================================================================
System uname: Linux-3.10.25-gentoo-i686-Intel-R-_Core-TM-2_Duo_CPU_P8700_@_2.53GHz-with-gentoo-2.2
KiB Mem:     1029232 total,    157768 free
KiB Swap:    1951892 total,   1823960 free
Timestamp of tree: Sat, 22 Feb 2014 05:00:01 +0000
ld GNU ld (GNU Binutils) 2.23.2
app-shells/bash:          4.2_p45
dev-java/java-config:     2.1.12-r1
dev-lang/python:          2.7.5-r3, 3.3.3
dev-util/cmake:           2.8.11.2
dev-util/pkgconfig:       0.28
sys-apps/baselayout:      2.2
sys-apps/openrc:          0.12.4
sys-apps/sandbox:         2.6-r1
sys-devel/autoconf:       2.13, 2.69
sys-devel/automake:       1.10.3, 1.11.6, 1.12.6, 1.13.4
sys-devel/binutils:       2.23.2
sys-devel/gcc:            4.7.3-r1
sys-devel/gcc-config:     1.7.3
sys-devel/libtool:        2.4.2
sys-devel/make:           3.82-r4
sys-kernel/linux-headers: 3.9 (virtual/os-headers)
sys-libs/glibc:           2.17
Repositories: gentoo x-portage
ACCEPT_KEYWORDS="x86"
ACCEPT_LICENSE="*"
CBUILD="i686-pc-linux-gnu"
CFLAGS="-O2 -march=i686 -pipe"
CHOST="i686-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib/python2.7/site-packages/buildbot/status/web /usr/share/config /usr/share/gnupg/qualified.txt /var/lib/hsqldb /var/spool/munin-async/.ssh"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.5/ext-active/ /etc/php/cgi-php5.5/ext-active/ /etc/php/cli-php5.5/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 -march=i686 -pipe"
DISTDIR="/usr/portage/distfiles"
FCFLAGS="-O2 -march=i686 -pipe"
FEATURES="assume-digests binpkg-logs collision-protect compress-build-logs config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch preserve-libs protect-owned sandbox sfperms sign splitdebug strict test test-fail-continue unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync"
FFLAGS="-O2 -march=i686 -pipe"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LDFLAGS="-Wl,--hash-style=gnu -Wl,-O1 -Wl,--as-needed"
MAKEOPTS="-j3"
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"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY="/usr/local/portage"
USE="X a52 aac acl acpi alsa berkdb bzip2 cairo cdda cdr cli consolekit cracklib crypt cups cxx dbus device-mapper dri dts dvd dvdr emacs emboss encode exif fam firefox flac fortran gdbm gif git gles2 gnutls gtk iconv icu jpeg lcms libkms libnotify mad mbox mercurial minizip mmx mng modules mp3 mp4 mpeg ncurses nls nptl nss objc ogg opengl openmp opus pam pango pcre pdf perl png policykit ppds pulseaudio python qt3support readline sdl secure-delete session snmp spell sqlite sse ssl startup-notification subversion svg systemd tcb tcmalloc tcpd threads tiff tk toolkit-scroll-bars truetype udev udisks unicode upower usb vorbis wxwidgets x264 x86 xa xcb xft xinerama xml xv xvfb xvid zlib" ABI_X86="32" ALSA_CARDS="ens1371" 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" 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="evdev keyboard vmmouse" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-5" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_3" RUBY_TARGETS="ruby18 ruby19 ruby20 jruby" USERLAND="GNU" VIDEO_CARDS="vmware vesa vga" 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, INSTALL_MASK, LANG, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, SYNC, USE_PYTHON