Attempting to emerge vtk hangs forever at the same point while configuring before building. Reproducible: always. See https://forums.gentoo.org/viewtopic-t-955876-highlight-.html for details.
Ironically, the forums are down. Regardless of that, it is more handy for the maintainers if this information is available from the bug report itself: 1) Please attach the complete build log. 2) Please comment with the output of `emerge --info =sci-libs/vtk-5.10.1`.
Created attachment 344274 [details] build log. Pressed Ctrl_C where it says 'caught signal 2'.
# emerge --info =sci-libs/vtk-5.10.1 Portage 2.1.11.55 (default/linux/amd64/13.0/desktop, gcc-4.6.3, glibc-2.15-r3, 3.7.10-gentoo x86_64) ================================================================= System Settings ================================================================= System uname: Linux-3.7.10-gentoo-x86_64-Intel-R-_Core-TM-_i5-2520M_CPU_@_2.50GHz-with-gentoo-2.1 KiB Mem: 8089420 total, 6718956 free KiB Swap: 4194300 total, 4194300 free Timestamp of tree: Wed, 03 Apr 2013 03:15:01 +0000 ld GNU ld (GNU Binutils) 2.22 app-shells/bash: 4.2_p37 dev-java/java-config: 2.1.12-r1 dev-lang/python: 2.7.3-r3, 3.2.3-r2, 3.3.0-r1 dev-util/cmake: 2.8.9 dev-util/pkgconfig: 0.28 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: 1.9.6-r3, 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: 3.7 (virtual/os-headers) sys-libs/glibc: 2.15-r3 Repositories: gentoo gamerlay sunrise gentoo-haskell science ezod mistafunk ACCEPT_KEYWORDS="amd64" ACCEPT_LICENSE="* -@EULA" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=native -O2 -pipe -mno-avx" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/share/config /usr/share/gnupg/qualified.txt /usr/share/polkit-1/actions" CONFIG_PROTECT_MASK="${EPREFIX}/etc/gconf /etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /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=native -O2 -pipe -mno-avx" DISTDIR="/usr/portage/distfiles" FCFLAGS="-O2 -pipe" FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="http://ftp.swin.edu.au/gentoo http://gentoo.mirrors.tera-byte.com/" LANG="en_GB.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 --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages" PORTAGE_TMPDIR="/var/tmp" PORTDIR="/usr/portage" PORTDIR_OVERLAY="/var/lib/layman/gamerlay /var/lib/layman/sunrise /var/lib/layman/haskell /var/lib/layman/science /var/lib/layman/ezod /var/lib/layman/mistafunk" SYNC="rsync://rsync1.au.gentoo.org/gentoo-portage" USE="3dnow 3dnowext X a52 aac acl acpi alsa amd64 bash-completion beagle berkdb bluetooth branding bzip2 cairo cdda cdr cli consolekit cracklib crypt cups cxx dbus dga dri dts dvd dvdr dvdread emboss encode exif fam ffmpeg firefox flac fortran gdbm gif gpm gstreamer gtk iconv ipv6 java jpeg lcms ldap libnotify lm_sensors mad mmx mng modules mono mp3 mp4 mpeg mudflap multilib ncurses nls nptl nsplugin ogg openal opengl openmp pam pango pcre pdf png pnm policykit ppds qt3-support qt3support qt4 quicktime readline sdl session spell sse sse2 ssl ssse3 startup-notification svg tcpd thinkpad threads tiff truetype udev udisks unicode upower usb v4l v4l2 vaapi vim-syntax vorbis wifi wxwidgets x264 xcb xml xv xvid zlib" ABI_X86="64" 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="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" 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" GRUB_PLATFORMS="efi-64" INPUT_DEVICES="evdev synaptics keyboard mouse" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="en en_GB hi" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-3" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_2 python3_3" RUBY_TARGETS="ruby18 ruby19" USERLAND="GNU" VIDEO_CARDS="intel v4l vesa fbdev" 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, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON
Comment on attachment 344274 [details] build log. Pressed Ctrl_C where it says 'caught signal 2'. At this point, if I go to /var/tmp/portage/sci-libs/vtk-5.10.1/work/VTK5.10.1 and build as any normal package from source (mkdir build; cd build; cmake ../; make; sudo make install), it works fine and installs into /usr/local prefix.
mmh, I don't know what is wrong, but I will take a look into it. Could you please check whether you find any config.log equal file for cmake in that build dir?
Can you build without the sandbox? If so, I suspect this is a dupe of #462602. Posting the rest of your investigation from the forums would have helped isolate this.
Created attachment 344434 [details] CMakeError.log file in folder /var/tmp/portage/sci-libs/vtk-5.10.1/work/vtk-5.10.1_build/CMakeFiles/ This is the only interesting CMake generated file that I could find that vaguely resembles some kind of error log.
Created attachment 344436 [details] CMakeOutput.log file in folder /var/tmp/portage/sci-libs/vtk-5.10.1/work/vtk-5.10.1_build/CMakeFiles/ CMakeOutput.log
(In reply to comment #6) > Can you build without the sandbox? > > If so, I suspect this is a dupe of #462602. > > Posting the rest of your investigation from the forums would have helped > isolate this. How do I build without the sandbox?
(Taken from my posting in the Gentoo forums, link given in 1st comment) I also tried running it inside strace. I must admit I have no idea what was going on with all those system calls, but right at the end it seems to hang at some futex call (here are the last few lines of the output): [pid 19708] open("/usr/local/lib/libresolv.so.2", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory) [pid 19708] open("/opt/sun-jdk-1.6.0.43/jre/lib/amd64/libresolv.so.2", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory) [pid 19708] open("/opt/sun-jdk-1.6.0.43/jre/lib/amd64/native_threads/libresolv.so.2", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory) [pid 19708] open("/opt/sun-jdk-1.6.0.43/jre/lib/amd64/xawt/libresolv.so.2", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory) [pid 19708] open("/opt/sun-jdk-1.6.0.43/jre/lib/amd64/server/libresolv.so.2", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory) [pid 19708] open("/lib64/libresolv.so.2", O_RDONLY|O_CLOEXEC) = 3 [pid 19708] read(3, "\177ELF\2\1\1\0\0\0\0\0\0\0\0\0\3\0>\0\1\0\0\0\260@\0\0\0\0\0\0"..., 832) = 832 [pid 19708] fstat(3, {st_mode=S_IFREG|0755, st_size=84624, ...}) = 0 [pid 19708] mmap(NULL, 2189960, PROT_READ|PROT_EXEC, MAP_PRIVATE|MAP_DENYWRITE, 3, 0) = 0x7f34b5c56000 [pid 19708] mprotect(0x7f34b5c69000, 2097152, PROT_NONE) = 0 [pid 19708] mmap(0x7f34b5e69000, 8192, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_FIXED|MAP_DENYWRITE, 3, 0x13000) = 0x7f34b5e69000 [pid 19708] mmap(0x7f34b5e6b000, 6792, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_FIXED|MAP_ANONYMOUS, -1, 0) = 0x7f34b5e6b000 [pid 19708] close(3) = 0 [pid 19708] mmap(NULL, 4096, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = 0x7f34b8179000 [pid 19708] mmap(NULL, 4096, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = 0x7f34b8178000 [pid 19708] mmap(NULL, 4096, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = 0x7f34b8177000 [pid 19708] mmap(NULL, 4096, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = 0x7f34b8176000 [pid 19708] arch_prctl(ARCH_SET_FS, 0x7f34b8177700) = 0 [pid 19708] mprotect(0x7f34b78ed000, 16384, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b5e69000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b6081000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b754a000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b6d22000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b63dd000, 32768, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b65f4000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b67fe000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b6a2b000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b6f25000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b713b000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b7b0e000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b7346000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b7d80000, 16384, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b7f98000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x603000, 4096, PROT_READ) = 0 [pid 19708] mprotect(0x7f34b81bd000, 4096, PROT_READ) = 0 [pid 19708] munmap(0x7f34b817f000, 246848) = 0 [pid 19708] set_tid_address(0x7f34b81779d0) = 19708 [pid 19708] set_robust_list(0x7f34b81779e0, 24) = 0 [pid 19708] futex(0x7ffff96897bc, FUTEX_WAKE_PRIVATE, 1) = 0 [pid 19708] futex(0x7ffff96897bc, FUTEX_WAIT_BITSET_PRIVATE|FUTEX_CLOCK_REALTIME, 1, NULL, 7f34b8177700) = -1 EAGAIN (Resource temporarily unavailable) [pid 19708] rt_sigaction(SIGRTMIN, {0x7f34b78fd730, [], SA_RESTORER|SA_SIGINFO, 0x7f34b7907460}, NULL, 8) = 0 [pid 19708] rt_sigaction(SIGRT_1, {0x7f34b78fd7c0, [], SA_RESTORER|SA_RESTART|SA_SIGINFO, 0x7f34b7907460}, NULL, 8) = 0 [pid 19708] rt_sigprocmask(SIG_UNBLOCK, [RTMIN RT_1], NULL, 8) = 0 [pid 19708] getrlimit(RLIMIT_STACK, {rlim_cur=8192*1024, rlim_max=RLIM64_INFINITY}) = 0 [pid 19708] stat("/proc/self/status", {st_mode=S_IFREG|0444, st_size=0, ...}) = 0 [pid 19708] futex(0x7f34b754b0e0, FUTEX_WAKE_PRIVATE, 2147483647) = 0 [pid 19708] futex(0x7f34b7f993c0, FUTEX_WAIT_PRIVATE, 2, NULL
(In reply to comment #9) > How do I build without the sandbox? FEATURES=-sandbox emerge ...
(In reply to comment #11) > (In reply to comment #9) > > How do I build without the sandbox? > > FEATURES=-sandbox emerge ... Yes, it now builds.
@sandbox - Only hangs inside of the sandbox. Is this potentially related to #462990?
*** Bug 465522 has been marked as a duplicate of this bug. ***
(In reply to Justin Bronder from comment #13) doubtful. that bug was because the process was overriding symbols that sandbox was also overriding. what process exactly is hanging here ? the `ps` output (which includes commandline) would be useful. also attach gdb via /proc/$PID/exe and do a backtrace.
