Bug 403287 – dev-lang/python-2.72-r3 and dev-lang/python-3.2.2 src_test(): deadlock in test_threading when FEATURES=test is enabled

• Status: RESOLVED NEEDINFO
• Product: Gentoo Linux

[Description Richard Yao (RETIRED) 2012-02-12 14:22:05 UTC]

Created attachment 301657 [details]
build log

Here is my system information:

# emerge --info
Portage 2.1.10.45 (default/linux/amd64/10.0/desktop/kde, gcc-4.5.3, glibc-2.13-r4, 3.2.5 x86_64)
=================================================================
System uname: Linux-3.2.5-x86_64-Intel-R-_Core-TM-2_Quad_CPU_Q9550_@_2.83GHz-with-gentoo-2.1
Timestamp of tree: Sat, 11 Feb 2012 09:45:01 +0000
ccache version 3.1.7 [enabled]
app-shells/bash:          4.2_p20
dev-java/java-config:     2.1.11-r3
dev-lang/python:          2.7.2-r3, 3.2.2
dev-util/ccache:          3.1.7
dev-util/cmake:           2.8.7-r3
dev-util/pkgconfig:       0.26
sys-apps/baselayout:      2.1
sys-apps/openrc:          0.9.8.4
sys-apps/sandbox:         2.5
sys-devel/autoconf:       2.13, 2.68
sys-devel/automake:       1.11.3
sys-devel/binutils:       2.22-r1
sys-devel/gcc:            4.4.6-r1, 4.5.3-r2
sys-devel/gcc-config:     1.5-r2
sys-devel/libtool:        2.4.2
sys-devel/make:           3.82-r3
sys-kernel/linux-headers: 3.2 (virtual/os-headers)
sys-libs/glibc:           2.13-r4
Repositories: gentoo local_overlay mythtv sunrise vmware bitcoin science sabayon x-gentoofan
ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="*"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=core2 -mtune=core2 -mcx16 -msahf -msse4.1 --param l1-cache-size=32 --param l1-cache-line-size=64 --param l2-cache-size=6144 -O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/config /usr/share/gnupg/qualified.txt /usr/share/openvpn/easy-rsa"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.4/ext-active/ /etc/php/cgi-php5.4/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="-march=core2 -mtune=core2 -mcx16 -msahf -msse4.1 --param l1-cache-size=32 --param l1-cache-line-size=64 --param l2-cache-size=6144 -O2 -pipe"
DISTDIR="/usr/portage/distfiles"
FEATURES="assume-digests binpkg-logs buildpkg ccache distlocks ebuild-locks fixlafiles multilib-strict news parallel-fetch parallel-install protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox"
FFLAGS="-march=core2 -mtune=core2 -mcx16 -msahf -msse4.1 --param l1-cache-size=32 --param l1-cache-line-size=64 --param l2-cache-size=6144 -O2 -pipe"
GENTOO_MIRRORS="http://mirror.lug.udel.edu/pub/gentoo/ http://gentoo.osuosl.org/ ftp://mirrors.rit.edu/gentoo/"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--sort-common"
LINGUAS="en"
MAKEOPTS="-j5"
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="/usr/local/portage /usr/local/mythtv_portage/Gentoo /var/lib/layman/sunrise /var/lib/layman/vmware /var/lib/layman/bitcoin /var/lib/layman/science /var/lib/layman/sabayon /var/lib/layman/gentoofan"
SYNC="rsync://rsync.namerica.gentoo.org/gentoo-portage"
USE="X a52 aac acpi alsa amd64 bash-completion berkdb branding bzip2 cairo cdda cdr cjk cli consolekit cracklib crypt cups cxx dbus declarative dri dts dvd dvdr emboss encode exif fam ffmpeg fftw firefox flac fontconfig fortran gdbm gdu gif gles gnutls gpm iconv ipv6 java jpeg kde kipi lcms libnotify lzma mad mmap mmx mng modules mp3 mp4 mpeg mudflap multilib ncurses nls nptl nptlonly nsplugin ogg opengl openmp pam pango pcre pdf phonon plasma png policykit ppds pppd qt3support qt4 readline sdl session spell sse sse2 sse3 ssl ssse3 startup-notification svg sysfs tcpd theora tiff truetype udev unicode usb vdpau vorbis x264 xcb xcomposite xinerama xml xorg xscreensaver xulrunner xv xvid xvmc zlib zsh-completion" ALSA_CARDS="hda-intel hpet hrtimer" 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 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 stage tables krita karbon braindump" CAMERAS="*" 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 ubx" INPUT_DEVICES="evdev synaptics" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="en" PHP_TARGETS="php5-3" QEMU_SOFTMMU_TARGETS="mips mips64 mips64el mipsel x86_64" QEMU_USER_TARGETS="mips mipsel x86_64" RUBY_TARGETS="ruby19" USERLAND="GNU" VIDEO_CARDS="nvidia" 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

[Comment 1 Richard Yao (RETIRED) 2012-02-12 14:24:02 UTC]

I had to stop emerge after a few hours of the system basically being idle. I assume that this is a deadlock.

[Comment 2 Richard Yao (RETIRED) 2012-02-16 20:16:05 UTC]

Created attachment 302193 [details]
dev-lang/python-2.7.2-r3 build.log

It seems that this also happens to Python 2.7.2-r3.

[Comment 3 Ian Delaney (RETIRED) 2012-02-16 21:47:22 UTC]

Created attachment 302207 [details]
the build log

[Comment 4 Ian Delaney (RETIRED) 2012-02-16 21:48:02 UTC]

Created attachment 302209 [details]
my emerge --info

[Comment 5 Dirkjan Ochtman (RETIRED) 2012-02-17 09:59:39 UTC]

I can't reproduce this with python-3.2.2 on one of my amd64 boxes.

[Comment 6 Richard Yao (RETIRED) 2012-02-17 22:59:56 UTC]

(In reply to comment #5)
> I can't reproduce this with python-3.2.2 on one of my amd64 boxes.

This appears to be exclusive to the testing tree. I cannot reproduce it with either dev-lang/python-2.72-r3 or dev-lang/python-3.1.4-r3 on amd64 stable:

# emerge --info
Portage 2.1.10.44 (default/linux/amd64/10.0, gcc-4.4.5, glibc-2.11.3, 3.0.0-12-generic x86_64)
=================================================================
System uname: Linux-3.0.0-12-generic-x86_64-AMD_Phenom-tm-_II_X6_1090T_Processor-with-gentoo-2.0.3
Timestamp of tree: Fri, 17 Feb 2012 05:30:01 +0000
ccache version 3.1.6 [enabled]
app-shells/bash:          4.1_p9
dev-lang/python:          2.7.2-r3, 3.1.4-r3
dev-util/ccache:          3.1.6
dev-util/cmake:           2.8.6-r4
dev-util/pkgconfig:       0.26
sys-apps/baselayout:      2.0.3
sys-apps/openrc:          0.9.8.4
sys-apps/sandbox:         2.5
sys-devel/autoconf:       2.68
sys-devel/automake:       1.11.1
sys-devel/binutils:       2.21.1-r1
sys-devel/gcc:            4.4.5, 4.5.3-r1
sys-devel/gcc-config:     1.4.1-r1
sys-devel/libtool:        2.4-r1
sys-devel/make:           3.82-r1
sys-kernel/linux-headers: 3.1 (virtual/os-headers)
sys-libs/glibc:           2.11.3
Repositories: gentoo local_overlay
ACCEPT_KEYWORDS="amd64"
ACCEPT_LICENSE="* -@EULA"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe -march=amdfam10 -mcx16 -msahf -mpopcnt --param l1-cache-size=64 --param l1-cache-line-size=64 --param l2-cache-size=512 -mtune=amdfam10"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo"
CXXFLAGS="-O2 -pipe -march=amdfam10 -mcx16 -msahf -mpopcnt --param l1-cache-size=64 --param l1-cache-line-size=64 --param l2-cache-size=512 -mtune=amdfam10"
DISTDIR="/usr/portage/distfiles"
FEATURES="assume-digests binpkg-logs buildpkg ccache distlocks ebuild-locks fixlafiles multilib-strict news noinfo parallel-fetch parallel-install protect-owned sandbox sfperms strict test test-fail-continue unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync"
FFLAGS="-O2 -pipe -march=amdfam10 -mcx16 -msahf -mpopcnt --param l1-cache-size=64 --param l1-cache-line-size=64 --param l2-cache-size=512 -mtune=amdfam10"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="en_US.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
MAKEOPTS="-j7"
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 3dnowext acl acpi amd64 berkdb bzip2 cli cracklib crypt cups cxx dri fortran gdbm gpm iconv ipv6 lvm2 mmap mmx modules mudflap multilib ncurses nls nptl nptlonly openmp pam pcre pppd readline session sse sse2 sse3 sse4a 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 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 stage tables krita karbon braindump" 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 ubx" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" PHP_TARGETS="php5-3" RUBY_TARGETS="ruby18" USERLAND="GNU" VIDEO_CARDS="fbdev glint intel mach64 mga neomagic nouveau nv r128 radeon savage sis tdfx trident vesa via vmware dummy v4l" 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, LC_ALL, LINGUAS, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS

[Comment 7 Dirkjan Ochtman (RETIRED) 2012-04-12 09:12:44 UTC]

Could someone look at chasing this down some more?

[Comment 8 Marien Zwart (RETIRED) 2012-04-12 11:03:15 UTC]

I've never seen this. If it is a deadlock then attaching gdb to the stuck test process (gdb -p pid-of-process-from-task-manager) and attaching the output of "thread apply all bt full" may give me a starting point for determining where it hangs. Also try running "python /usr/lib/python2.7/test/test_threading.py" directly: if this does not hang while the testsuite run through portage consistently does that is interesting, and if this also hangs it will give you a better idea which test fails (pastebin the output).

[Comment 9 Patrice Clement 2016-10-10 20:42:38 UTC]

I cannot reproduce this error with Python-2.7.11. This test passes. Let's try with Python 3.4.3.