'MAKEOPTS=-j1 emerge -v sage' fails with: ... Enabling Cython debugging support Finished Cythonizing, time: 1.45 seconds. Executing 0 commands (using 1 thread) Time to execute 0 commands: 0.11 seconds. Total time spent compiling C/C++ extensions: 0.16 seconds. Setting permissions of DOT_SAGE directory so only you can read and write it. * ACCESS DENIED: open_wr: /dev/dri/renderD128 * ACCESS DENIED: open_wr: /dev/dri/renderD128 Building reference manual, first pass. ... Build finished. The built documents can be found in /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/build_doc/html/en/developer Elapsed time: 2057.0 seconds. Done building the documentation! >>> Source compiled. * --------------------------- ACCESS VIOLATION SUMMARY --------------------------- * LOG FILE: "/var/log/sandbox/sandbox-10081.log" * VERSION 1.0 FORMAT: F - Function called FORMAT: S - Access Status FORMAT: P - Path as passed to function FORMAT: A - Absolute Path (not canonical) FORMAT: R - Canonical Path FORMAT: C - Command Line F: open_wr S: deny P: /dev/dri/renderD128 A: /dev/dri/renderD128 R: /dev/dri/renderD128 C: /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html F: open_wr S: deny P: /dev/dri/renderD128 A: /dev/dri/renderD128 R: /dev/dri/renderD128 C: /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html * -------------------------------------------------------------------------------- >>> Failed to emerge sci-mathematics/sage-7.5.1-r1, Log file: root@lynx:/usr/src/linux(128)# emerge --info =sage-7.5.1-r1 Portage 2.3.3 (python 3.4.5-final-0, default/linux/amd64/13.0/desktop, gcc-5.4.0, glibc-2.23-r3, 4.9.6 x86_64) ================================================================= System Settings ================================================================= System uname: Linux-4.9.6-x86_64-Intel-R-_Core-TM-_i7-6700HQ_CPU_@_2.60GHz-with-gentoo-2.3 KiB Mem: 15851884 total, 4687712 free KiB Swap: 50331644 total, 49815580 free Timestamp of repository gentoo: Fri, 03 Feb 2017 06:00:01 +0000 sh bash 4.4_p11 ld GNU ld (Gentoo 2.27 p1.0) 2.27 distcc[23806] (dcc_trace_version) distcc 3.2rc1 x86_64-pc-linux-gnu; built Oct 2 2016 20:49:06 [disabled] app-shells/bash: 4.4_p11::gentoo dev-java/java-config: 2.2.0-r3::gentoo dev-lang/perl: 5.24.1_rc4::gentoo dev-lang/python: 2.7.12-r102::sage-on-gentoo, 3.4.5::gentoo, 3.5.2::gentoo dev-util/cmake: 3.7.2::gentoo dev-util/pkgconfig: 0.29.1::gentoo sys-apps/baselayout: 2.3::gentoo sys-apps/openrc: 0.23.2::gentoo sys-apps/sandbox: 2.10-r3::gentoo sys-devel/autoconf: 2.13::gentoo, 2.69-r2::gentoo sys-devel/automake: 1.9.6-r4::gentoo, 1.11.6-r2::gentoo, 1.12.6-r1::gentoo, 1.13.4-r1::gentoo, 1.14.1-r1::gentoo, 1.15-r2::gentoo sys-devel/binutils: 2.27::gentoo sys-devel/gcc: 4.9.3::gentoo, 5.4.0-r3::gentoo sys-devel/gcc-config: 1.8-r1::gentoo sys-devel/libtool: 2.4.6-r2::gentoo sys-devel/make: 4.2.1::gentoo sys-kernel/linux-headers: 4.9::gentoo (virtual/os-headers) sys-libs/glibc: 2.23-r3::gentoo Repositories: gentoo location: /usr/portage_lynx sync-type: rsync sync-uri: rsync://rsync.gentoo.org/gentoo-portage priority: -1000 local location: /usr/local/portage masters: gentoo priority: 0 g-cpan location: /var/lib/cpan masters: gentoo priority: 1 g-octave location: /var/lib/g-octave masters: gentoo priority: 2 activehome location: /var/lib/layman/activehome masters: gentoo priority: 50 ago location: /var/lib/layman/ago masters: gentoo priority: 50 sage-on-gentoo location: /var/lib/layman/sage-on-gentoo masters: gentoo science priority: 50 science location: /var/lib/layman/science masters: gentoo priority: 50 sunrise location: /var/lib/layman/sunrise masters: gentoo priority: 50 tlp location: /var/lib/layman/tlp masters: gentoo priority: 50 x11 location: /var/lib/layman/x11 masters: gentoo priority: 50 Installed sets: @system ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="* -@EULA PUEL Intel-SDP dlj-1.1 skype-eula skype-4.0.0.7-copyright googleearth AdobeFlash-11.x cadsoft Oracle-BCLA-JavaSE MakeMKV-EULA NVIDIA-CUDA Nero-AAC-EULA GIMPS" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=native -O2 -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /etc/stunnel/stunnel.conf /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt /var/lib/hsqldb" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php7.1/ext-active/ /etc/php/cgi-php7.1/ext-active/ /etc/php/cli-php7.1/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=native -O2 -pipe" DISTDIR="/usr/portage/distfiles" FCFLAGS="-O2 -pipe" FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news noclean nostrip parallel-fetch preserve-libs protect-owned sandbox sfperms splitdebug strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-march=native -O2 -pipe" GENTOO_MIRRORS="http://distfiles.gentoo.org" LANG="en_US.UTF-8" LDFLAGS="-Wl,-O1 -Wl,--as-needed" MAKEOPTS="-j9" 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 --exclude=/.git" PORTAGE_TMPDIR="/var/tmp" USE="64bit R X Xaw3d a52 aac acl acpi admin afs alsa amd64 amr ao apache2 apng applet archive armadillo arpack asf aspell assistant atlas audacious audiofile aufs automap automount barcode bash-completion berkdb blas blast bluetooth bluray boost branding btrfs bzip2 cairo cdda cddb cdf cdio cdparanoia cdr cg cgi chm cilk cli cmake collada consolekit contrib cracklib crypt css cups curl cxx daap db dbi dbm dbus declarative designer devhelp device-mapper dga dia digitalradio djvu doc dot dri ds2490 ds9097 ds9097u dts dv dvb dvd dvdr dvi dynamicplugin eds egl elf emacs emboss emf encode epiphany evo examples excel exif expat extensions extra extras faac faad fam ffmpeg fftw firefox fits flac fltk fontconfig foomaticdb fortran fortran95 fpm fpx ftp fuse gcj gd gdal gdbm gedit geoip geolocation geos gfortran gif gimp git glade glamor glib glpk gml gmp gnome gnome-keyring gnuplot gnutls gold gphoto2 gpm grammar graphics graphtft graphviz grass gsl gsm gstreamer gtk gtk3 gudev guile hdaps hddtemp hdf hdf5 hdri html http httpd hvm hwdb iconv icq icu id3tag ide imagemagick imap inotify introspection ipod ipv6 irda ithreads jadetex java jbig jit john jpeg jpeg2k kate kde kdepim kdrive kerberos keymap kpathsea kvm ladspa lame lapack latex lcms ldap lensfun libffi libgda libkms libnotify libsamplerate lirc live lm_sensors lua lzma lzo mad mail maildir mapnik math matroska media-library mercurial mikmod mkl mng mod modules mono motif mozilla mp3 mp4 mpeg mpi mpi-threads mplayer mtp multilib multimedia musepack musicbrainz mysql mysqli nautilus ncurses neXt netcdf netpbm network networking nfs nls nntp nptl nsplugin ntfs ntp numpy obex objc ocaml ocr octave odbc ofa ogdi ogg opencl opencv openexr opengl openmp openvg pam pango pcre pda pdf pdl2 perl plasma plotutils plugins png podcast policykit portaudio posix postgres postscript ppds preview-latex proj projectm pstricks pulseaudio python q16 q32 qemu qhull qml qt3support qt4 qt5 quicktime raw readline reiserfs reports rle romio rpc rrdcgi rrdtool rtlsdr sage samba sasl schroedinger science sdk sdl seccomp secure-delete semantic-desktop server session shout sip slang slp smart smbclient smp sms sndfile snmp soap sockets sound soup sox speex spell sql sqlite ssl startup-notification stlport subtitles subversion sudo suexec svg svm swig systemd szip t1lib tbb tcl tcpd tex tex4ht theora thesaurus thinkpad threads thunderbird tidy tiff tk tools truetype udev udisks unicode upower usb utempter v4l v4l2 vaapi vala valgrind vdpau video vim-syntax virt-network virtualbox visio vorbis vpx vtk wav wayland webdav webdav-serf webkit wifi wmf wxwidgets x264 xa xattr xcb xetex xft xine xml xmlreader xmlrpc xpm xv xvid xvmc yaml youtube zlib zsh-completion zvbi" ABI_X86="64" ALSA_CARDS="intel8x0" APACHE2_MODULES="actions alias auth_basic auth_digest authn_anon authn_dbd authn_core authn_dbm authn_default authn_file authz_core authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgid dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident imagemap include info lbmethod_byrequests log_config logio mem_cache mime mime_magic negotiation proxy proxy_ajp proxy_balancer proxy_connect proxy_http rewrite setenvif slotmem_shm so socache_shmcb speling status unique_id unixd userdir usertrack vhost_alias" APACHE2_MPMS="worker" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump author" CAMERAS="canon fuji ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog sensors thermal" CPU_FLAGS_X86="aes avx avx2 fma3 mmx mmxext popcnt sse sse2 sse3 sse4_1 sse4_2 ssse3" CURL_SSL="nss" ELIBC="glibc" GPSD_PROTOCOLS="aivdm ashtech earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 navcom ntrip oceanserver oncore rtcm104v2 rtcm104v3 sirf superstar2 tnt tripmate tsip ublox nmea0183 nmea2000 passthrough" GRUB_PLATFORMS="emu efi-64 pc" INPUT_DEVICES="keyboard mouse evdev synaptics void" KERNEL="linux" L10N="de en fr ru" LCD_DEVICES="cfontz hd44780 mtxorb ncurses X lcd2usb lcdlinux png usblcd SureElec" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="de en fr ru" LIRC_DEVICES="devinput" NETBEANS_MODULES="apisupport cnd dlight enterprise ergonomics groovy gsf harness ide identity j2ee java mobility nb php profiler websvccommon xml" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-6" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_4" QEMU_SOFTMMU_TARGETS="arm i386 x86_64" QEMU_USER_TARGETS="arm i386 x86_64" RUBY_TARGETS="ruby21" USERLAND="GNU" VIDEO_CARDS="nouveau intel i965 displaylink" 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: CC, CPPFLAGS, CTARGET, CXX, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON
'USE=-doc-html emerge -v1 sage' works.
Interesting... Can you post a full build log?
Created attachment 463434 [details] build.log.bz2
(In reply to Francois Bissey from comment #2) > Interesting... Can you post a full build log? Hi Francois, any news with doc-html?
Sorry, I am a bit busy at the moment and that one escaped me. Looking at it now. It may be difficult because I suspect it involves a specific hardware configuration. It may have been a problem before, but I was providing binary build of documentation by default (this is coming back in the next release, building sage documentation is too hard on a lot of hardware) which would have been hiding the problem.
OK, so your logs mention quite a few things before going on about the access violation: [faq ] Exception occurred: [website ] Exception occurred: [prep ] Exception occurred: [developer] reading sources... [ 61%] sagenb/development_workflow [prep ] File "/usr/lib64/python2.7/site-packages/sphinx/environment.py", line 136, in topickle [prep ] pickle.dump(self, picklefile, pickle.HIGHEST_PROTOCOL) [prep ] IOError: [Errno 28] No space left on device [installat] writing output... [100%] standard_packages [prep ] The full traceback has been saved in /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/sphinx-err-6aTspR.log, if you want to report the issue to the developers. [prep ] Please also report this if it was a user error, so that a better error message can be provided next time. [prep ] A bug report can be filed in the tracker at <https://github.com/sphinx-doc/sphinx/issues>. Thanks! [developer] reading sources... [ 65%] sagenb/following_latest [developer] reading sources... [ 69%] sagenb/forking_hell [website ] File "/usr/lib64/python2.7/shutil.py", line 84, in copyfile [website ] copyfileobj(fsrc, fdst) [website ] IOError: [Errno 28] No space left on device [faq ] File "/usr/lib64/python2.7/shutil.py", line 84, in copyfile [website ] The full traceback has been saved in /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/sphinx-err-eQg1Lf.log, if you want to report the issue to the developers. [website ] Please also report this if it was a user error, so that a better error message can be provided next time. [website ] A bug report can be filed in the tracker at <https://github.com/sphinx-doc/sphinx/issues>. Thanks! [faq ] copyfileobj(fsrc, fdst) [faq ] IOError: [Errno 28] No space left on device [faq ] The full traceback has been saved in /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/sphinx-err-78ujAa.log, if you want to report the issue to the developers. [faq ] Please also report this if it was a user error, so that a better error message can be provided next time. [faq ] A bug report can be filed in the tracker at <https://github.com/sphinx-doc/sphinx/issues>. Thanks! [installat] generating indices... genindex [installat] Merging js index files... [installat] ... done (1233 js index entries) [installat] Writing js search indexes...writing additional pages... search [developer] reading sources... [ 73%] sagenb/github_development [developer] reading sources... [ 76%] sagenb/index Error building the documentation. The message about there being no space left on the device may be linked to the access violation (I won't let you go there, therefore no space is available, kind of logic) but the "sphinx-err-*.log" file may be more informative about what is actually going on. Could you find them or re-generate them?
Hallo Francois, last week I was able to emerge sage-7.5.1-r1 with the doc-html USE flag. Today I tried to repead the procedure. But now 'emerge -v sage' hangs for about two hours at: [plot3d ] build succeeded. Build finished. The built documents can be found in /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/build_doc/inventory/en/reference/plot3d At my last attempt it needs me 45 minutes to emerge sage: rose@lynx:/home/rose/Txt/projects/Robina/Administration(63)$ genlop -t sage | tail Mon Feb 6 11:00:58 2017 >>> sci-mathematics/sage-7.5.1-r1 merge time: 12 minutes and 7 seconds. Thu Feb 9 01:54:43 2017 >>> sci-mathematics/sage-7.5.1-r1 merge time: 9 minutes and 41 seconds. Sun Feb 19 22:20:49 2017 >>> sci-mathematics/sage-7.5.1-r1 merge time: 45 minutes and 52 seconds. Now 'genlop -c' shows: rose@lynx:/home/rose/Txt/projects/Robina/Administration(65)$ genlop -c Currently merging 1 out of 1 * sci-mathematics/sage-7.5.1-r1 current merge time: 2 hours and 28 seconds. ETA: any time now. And this is the second time, that this happens. 'df' seems to show, that there is enough space: rose@lynx:/home/rose/Txt/projects/Robina/Administration(66)$ df Filesystem 1K-blocks Used Available Use% Mounted on none 7957456 3868 7953588 1% /run udev 10240 0 10240 0% /dev tmpfs 7957456 16 7957440 1% /dev/shm /dev/sdb6 131980772 91541904 33711600 74% / tmpfs 7957456 0 7957456 0% /sys/fs/cgroup /dev/mapper/vg-src 12254384 8434188 3174668 73% /usr/src_lynx /dev/mapper/vg-portage 1996691 342830 1549004 19% /usr/portage_lynx /dev/mapper/vg-distfiles 33544048 29283412 2582916 92% /usr/local/portage/distfiles_lynx /dev/mapper/vg-data 264092676 135771188 114883332 55% /data_lynx /dev/mapper/vg-home 1066818040 564715008 447888788 56% /home /dev/mapper/vg-tmp 8125880 6940208 749860 91% /tmp /dev/mapper/vg-opt 12254384 2893580 8731660 25% /opt /dev/mapper/vg-var 12254384 8920592 2704648 77% /var /dev/mapper/vg-vtmp 32896880 25729356 5473420 83% /var/tmp .... 'ps' shows, that there are a lot of sleeping python processes: rose@lynx:/home/rose/Txt/projects/Robina/Administration(69)$ ps -auf | grep python rose 18195 0.0 0.0 15400 860 pts/7 S+ 23:29 0:00 \_ grep --colour=auto python root 365 0.1 1.9 421144 310256 pts/5 S+ 21:24 0:12 \_ /usr/bin/python3.4 -b /usr/lib/python-exec/python3.4/emerge -v sage portage 1455 0.0 0.0 4192 1408 pts/5 S+ 21:24 0:00 \_ [sci-mathematics/sage-7.5.1-r1] sandbox /usr/lib/portage/python3.4/ebuild.sh compile portage 1457 0.0 0.0 33696 8204 pts/5 S+ 21:24 0:00 \_ /bin/bash /usr/lib/portage/python3.4/ebuild.sh compile portage 1474 0.0 0.0 35416 9056 pts/5 S+ 21:24 0:00 \_ /bin/bash /usr/lib/portage/python3.4/ebuild.sh compile portage 5827 0.0 0.0 15284 2252 pts/5 S+ 21:32 0:00 \_ tee -a /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/build-python2_7.log portage 5887 0.3 1.2 17998784 196344 pts/5 Sl+ 21:32 0:21 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 7239 0.0 0.8 17998784 128292 pts/5 S+ 21:35 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 7258 0.0 0.8 17998784 128292 pts/5 S+ 21:35 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 7371 0.0 0.8 17998784 128292 pts/5 S+ 21:35 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 7373 0.0 0.8 17998784 128292 pts/5 S+ 21:35 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 7458 0.0 0.8 17998784 128292 pts/5 S+ 21:35 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 8210 0.0 0.8 17998784 128292 pts/5 S+ 21:36 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 9458 0.0 0.8 17998784 128292 pts/5 S+ 21:37 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 12081 0.0 0.8 17998784 128292 pts/5 S+ 21:39 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html portage 14995 0.0 0.8 17998784 128292 pts/5 S+ 21:41 0:00 \_ /usr/bin/python2.7 sage_setup/docbuild/__main__.py --no-pdf-links all html Grepping for "No space" and "sphinx-err" does not provide any results: rose@lynx:/home/rose/Txt/projects/Robina/Administration(71)$ grep "No space" /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/build.log rose@lynx:/home/rose/Txt/projects/Robina/Administration(72)$ grep "sphinx-err" /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/build.log rose@lynx:/home/rose/Txt/projects/Robina/Administration(73)$ (In reply to Francois Bissey from comment #6) > OK, so your logs mention quite a few things before going on about the access > violation: > [website ] Exception occurred: ... > [prep ] The full traceback has been saved in > /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/sphinx-err-6aTspR.log, > if you want to report the issue to the developers. > [prep ] Please also report this if it was a user error, so that a better > error message can be provided next time. > [prep ] A bug report can be filed in the tracker at > <https://github.com/sphinx-doc/sphinx/issues>. Thanks! > [developer] reading sources... [ 65%] sagenb/following_latest > [developer] reading sources... [ 69%] sagenb/forking_hell > [website ] File "/usr/lib64/python2.7/shutil.py", line 84, in copyfile > [website ] copyfileobj(fsrc, fdst) > [website ] IOError: [Errno 28] No space left on device > [faq ] File "/usr/lib64/python2.7/shutil.py", line 84, in copyfile > [website ] The full traceback has been saved in > /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/sphinx-err-eQg1Lf.log, > if you want to report the issue to the developers. > [website ] Please also report this if it was a user error, so that a better > error message can be provided next time. > [website ] A bug report can be filed in the tracker at > <https://github.com/sphinx-doc/sphinx/issues>. Thanks! > [faq ] copyfileobj(fsrc, fdst) > [faq ] IOError: [Errno 28] No space left on device > [faq ] The full traceback has been saved in > /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/sphinx-err-78ujAa.log, > if you want to report the issue to the developers. > [faq ] Please also report this if it was a user error, so that a better > error message can be provided next time. .. > Error building the documentation. > > The message about there being no space left on the device may be linked to > the access violation (I won't let you go there, therefore no space is > available, kind of logic) but the "sphinx-err-*.log" file may be more > informative about what is actually going on. Could you find them or > re-generate them?
Can you post ~10 lines before [plot3d ] build succeeded. please. I suspect one of the plotting command has hung on you, or a pari one ("gp") or a gap one...
(In reply to Francois Bissey from comment #8) > Can you post ~10 lines before > [plot3d ] build succeeded. > > please. I suspect one of the plotting command has hung on you, or a pari one > ("gp") or a gap one... A little bit more complete output looks like: ... manifolds] writing output... [ 97%] tensorfield [manifolds] writing output... [100%] vectorfield [manifolds] /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/doc/en/reference/manifolds/index.rst:4: WARNING: undefined label: tensors-on-free-modules (if the link has no caption the label must precede a section header) [manifolds] dumping object inventory... done [manifolds] build succeeded. Build finished. The built documents can be found in /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/build_doc/inventory/en/reference/manifolds libpng warning: iTXt: bad compression info libpng warning: iTXt: bad compression info ... libpng warning: iTXt: bad compression info [plot3d ] reading sources... [ 45%] sage/plot/plot3d/parametric_surface [plot3d ] reading sources... [ 50%] sage/plot/plot3d/platonic libpng warning: iTXt: bad compression info libpng warning: iTXt: bad compression info ... libpng warning: iTXt: bad compression info [plotting ] reading sources... [ 77%] sage/plot/plot_field libpng warning: iTXt: bad compression info ... libpng warning: iTXt: bad compression info [plotting ] reading sources... [ 80%] sage/plot/point [plotting ] reading sources... [ 83%] sage/plot/polygon libpng warning: iTXt: bad compression info ... libpng warning: iTXt: bad compression info [plotting ] reading sources... [ 87%] sage/plot/primitive [plotting ] reading sources... [ 90%] sage/plot/scatter_plot [plotting ] reading sources... [ 93%] sage/plot/step [plotting ] reading sources... [ 96%] sage/plot/streamline_plot libpng warning: iTXt: bad compression info ... libpng warning: iTXt: bad compression info [plotting ] reading sources... [100%] sage/plot/text libpng warning: iTXt: bad compression info ... libpng warning: iTXt: bad compression info [plotting ] loading cross citations... looking for now-outdated files... none found [plotting ] pickling environment... done [plotting ] checking consistency... done [plotting ] preparing documents... done [plotting ] writing output... [ 3%] index [plotting ] writing output... [ 6%] sage/graphs/graph_plot [plotting ] writing output... [ 9%] sage/plot/animate [plotting ] writing output... [ 12%] sage/plot/arc [plotting ] writing output... [ 16%] sage/plot/arrow [plotting ] writing output... [ 19%] sage/plot/bar_chart [plotting ] writing output... [ 22%] sage/plot/bezier_path [plotting ] writing output... 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[ 80%] sage/plot/point [plotting ] writing output... [ 83%] sage/plot/polygon [plotting ] writing output... [ 87%] sage/plot/primitive [plotting ] writing output... [ 90%] sage/plot/scatter_plot [plotting ] writing output... [ 93%] sage/plot/step [plotting ] writing output... [ 96%] sage/plot/streamline_plot [plotting ] writing output... [100%] sage/plot/text libpng warning: iTXt: bad compression info libpng warning: iTXt: bad compression info libpng warning: iTXt: bad compression info [plotting ] dumping object inventory... done [plotting ] build succeeded. Build finished. The built documents can be found in /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/build_doc/inventory/en/reference/plotting libpng warning: iTXt: bad compression info libpng warning: iTXt: bad compression info ... libpng warning: iTXt: bad compression info [plot3d ] reading sources... [ 60%] sage/plot/plot3d/plot_field3d [plot3d ] reading sources... 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Locking for "error:" in build.log I still found: rose@lynx:/home/rose/Txt/lectures/BIC/Studienkolleg/2017/Physik/Lectures/Technische_Mechanik/1.04_Lagerreaktionen_Fachwerke_Balken(110)$ grep -C12 "rror:" /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/temp/build.log #140 0x00007fcf4860ad40 in PyEval_EvalCodeEx() #141 0x00007fcf485938a0 in function_call() #142 0x00007fcf4856dcc0 in PyObject_Call() #143 0x00007fcf4857cb70 in instancemethod_call() #144 0x00007fcf4856dcc0 in PyObject_Call() #145 0x00007fcf48601440 in PyEval_CallObjectWithKeywords() #146 0x00007fcf4863afd0 in t_bootstrap() #147 0x00007fcf4830d300 in start_thread() #148 0x00007fcf48057970 in clone() close failed in file object destructor: IOError: [Errno 9] Bad file descriptor Saved trace to /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/signals_crash_logs/crash_kEceqr.log [algebras ] writing output... [ 35%] sage/algebras/free_algebra_quotient_element [algebras ] writing output... [ 38%] sage/algebras/free_zinbiel_algebra ------------------------------------------------------------------------ Unhandled SIGSEGV: A segmentation fault occurred. This probably occurred because a *compiled* module has a bug in it and is not properly wrapped with sig_on(), sig_off(). Python will now terminate. ------------------------------------------------------------------------ [algebras ] writing output... [ 41%] sage/algebras/group_algebra /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/sage_setup/docbuild/__init__.py:931: DeprecationWarning: sage.coding.sd_codes is now called sage.coding.self_dual_codes -- #163 0x00007fcf48601aa0 in PyEval_EvalFrameEx() #164 0x00007fcf4860ad40 in PyEval_EvalCodeEx() #165 0x00007fcf4860b680 in PyEval_EvalCode() #166 0x00007fcf48624e70 in run_mod() #167 0x00007fcf48626020 in PyRun_FileExFlags() #168 0x00007fcf486271c0 in PyRun_SimpleFileExFlags() #169 0x00007fcf486386b0 in Py_Main() #170 0x00007fcf47f8f0f0 in __libc_start_main() #171 0x0000000000400620 in _start() close failed in file object destructor: IOError: [Errno 9] Bad file descriptor Saved trace to /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/signals_crash_logs/crash_vwuCGa.log ------------------------------------------------------------------------ Unhandled SIGSEGV: A segmentation fault occurred. This probably occurred because a *compiled* module has a bug in it and is not properly wrapped with sig_on(), sig_off(). Python will now terminate. ------------------------------------------------------------------------ [schemes ] reading sources... [ 95%] sage/schemes/toric/weierstrass [schemes ] reading sources... [ 97%] sage/schemes/toric/weierstrass_covering [plotting ] reading sources... [ 12%] sage/plot/arc [schemes ] reading sources... [100%] sage/schemes/toric/weierstrass_higher
Can you attach one of those crash logs? Say /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/signals_crash_logs/crash_vwuCGa.log
Created attachment 465460 [details] /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/signals_crash_logs/crash_kEceqr.log
Created attachment 465462 [details] /var/tmp/portage/sci-mathematics/sage-7.5.1-r1/work/sage-7.5.1/src-python2_7/signals_crash_logs/crash_vwuCGa.log
Thank you. I now have some ideas to work on. Which versions of cython and cysignals are in use?
Now I have the issue on three systems. Recompiling of python-2.7.13, cython-0.25.2-r1::sage-on-gentoo and cysignals-1.4.0::sage-on-gentoo did not help.
Ha! python 2.7.13 made it into the tree. May be we have a culprit, I'll prepare a sage-on-gentoo version ASAP so we can check if it is caused by it.
I have updated python in the sage-on-gentoo overlay, upgrade it and try again please.
