'emerge scilab' fails with: ... Creating ./locale/en_US/LC_MESSAGES/ 0 translated messages, 6117 untranslated messages. make[1]: Leaving directory '/var/tmp/portage/sci-mathematics/scilab-5.5.0_beta1/work/scilab-5.5.0-beta-1' >>> Source compiled. * --------------------------- ACCESS VIOLATION SUMMARY --------------------------- * LOG FILE: "/var/log/sandbox/sandbox-12672.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: unlink S: deny P: //home A: /home R: /home_impala C: /var/tmp/portage/sci-mathematics/scilab-5.5.0_beta1/work/scilab-5.5.0-beta-1/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce ... F: unlink S: deny P: //data_lynx2 A: /data_lynx2 R: /net/lynx2/data_lynx2 C: /var/tmp/portage/sci-mathematics/scilab-5.5.0_beta1/work/scilab-5.5.0-beta-1/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce * -------------------------------------------------------------------------------- !!! When you file a bug report, please include the following information: GENTOO_VM=icedtea-7 CLASSPATH="" JAVA_HOME="/usr/lib64/icedtea7" JAVACFLAGS="-source 1.5 -target 1.5" COMPILER="" Reproducible: Always root@impala:/root(253)# emerge --info =scilab-5.5.0_beta1 Portage 2.2.10 (default/linux/amd64/13.0, gcc-4.8.2, glibc-2.19, 3.13.6-gentoo x86_64) ================================================================= System Settings ================================================================= System uname: Linux-3.13.6-gentoo-x86_64-AMD_Phenom-tm-_II_X4_965_Processor-with-gentoo-2.2 KiB Mem: 8165076 total, 831708 free KiB Swap: 50331640 total, 49788548 free Timestamp of tree: Sun, 13 Apr 2014 04:30:01 +0000 ld GNU ld (GNU Binutils) 2.24 app-shells/bash: 4.2_p46-r1 dev-java/java-config: 2.2.0 dev-lang/python: 2.7.6, 3.3.5, 3.4.0 dev-util/cmake: 2.8.12.2 dev-util/pkgconfig: 0.28-r1 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, 1.14.1 sys-devel/binutils: 2.24-r2 sys-devel/gcc: 4.8.2 sys-devel/gcc-config: 1.8 sys-devel/libtool: 2.4.2 sys-devel/make: 4.0-r1 sys-kernel/linux-headers: 3.14 (virtual/os-headers) sys-libs/glibc: 2.19 Repositories: gentoo x11 science sunrise sage-on-gentoo x-portage g-cpan g-octave 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=amdfam10 -O2 -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /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-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="-march=amdfam10 -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 parallel-fetch preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="http://distfiles.gentoo.org" LANG="en_US.UTF-8" LC_ALL="" LDFLAGS="-Wl,-O1 -Wl,--as-needed" MAKEOPTS="-j5" 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_impala" PORTDIR_OVERLAY="/var/lib/layman/x11 /var/lib/layman/science /var/lib/layman/sunrise /var/lib/layman/sage-on-gentoo /usr/local/portage /var/lib/cpan /var/lib/g-octave" USE="3dnow 3dnowext 64bit R X Xaw3d a52 aac accessibility acl acpi admin afs alsa amd64 ao apache2 apng applet archive armadillo arpack asf aspell atlas audacious audiofile automap automount bash-completion berkdb blas blast bluetooth bluray boost bzip2 cairo cdda cddb cdf cdio cdparanoia cdr cg cgi chm cli cmake consolekit cracklib crypt css cups curl cxx daap db dbi dbm dbus declarative designer devhelp device-mapper dga dia dirac djvu doc dot dri ds2490 ds9097 ds9097u dts dv dvb dvd dvdr dvi dynamicplugin eds egl elf emacs emboss emf encode epiphany evo examples exif expat extensions extra extras faac faad fam ffmpeg fftw firefox fits flac fltk fontconfig foomaticdb fortran fortran95 fpm fpx fuse g3dvl gcj gd gdal gdbm gdu gedit geoip geolocation geos gfortran gif gimp git glade glib glpk gml gmp gnome gnome-keyring gnome-print gnuplot gnutls gold gphoto2 gpm grammar graphics graphtft graphviz grass gsl gsm gstreamer gtk gtk3 gudev guile hddtemp hdf hdf5 hdri html http httpd hvm hwdb iconv icq icu id3 id3tag ide imagemagick imap inotify introspection ipod ipv6 ithreads jabber jadetex java java6 jbig john jpeg jpeg2k kate kde kdepim kdrive kerberos keymap kpathsea kvm ladspa lame lapack latex lcms ldap lensfun libffi libkms libnotify libsamplerate live lm_sensors lua lzma lzo mad mail maildir mapnik math matroska media-library mercurial mikmod mkl mmx mmxext mng mod modules mono motif mozilla mp3 mp4 mpeg mpi mplayer mtp multilib multimedia musepack musicbrainz mysql mysqli nautilus ncurses netcdf netpbm network networking networkmanager nfs nls nntp nptl nsplugin ntfs ntp numpy nvidia obex objc ocaml ocr octave odbc ofa ogdi ogg 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 projectx pstricks pulseaudio python python-bindings q16 q32 qemu qhull qt3support qt4 quicktime raw readline real reiserfs reports rhythmbox rle romio rpc rrdcgi rrdtool sage samba sasl schroedinger science sdk sdl 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 sse sse2 ssl stlport subtitles subversion sudo suexec svg svm swig systemd szip t1lib tcl tcpd tex tex4ht texmacs tgif theora thesaurus threads thunderbird tidy tiff tk tools truetype udev udisks unicode usb userlocales utempter v4l vaapi vala valgrind vdpau video virt-network virtualbox visio vorbis vpx wav webdav webdav-serf webkit wmf wxwidgets x264 xa xattr xcb xetex xext xft xine xml xmlreader xmlrpc xpm xv xvid xvmc yaml youtube zlib zvbi" 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" 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" 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" CURL_SSL="nss" DRACUT_MODULES="caps lvm mdraid 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="keyboard mouse evdev void" KERNEL="linux" LCD_DEVICES="cfontz hd44780 mtxorb ncurses X lcd2usb lcdlinux png usblcd" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="de fr ru" 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="php5-3" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_3" QEMU_SOFTMMU_TARGETS="arm i386 x86_64" QEMU_USER_TARGETS="arm i386 x86_64" RUBY_TARGETS="ruby19 ruby20" USERLAND="GNU" VIDEO_CARDS="nouveau 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: CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, SYNC, USE_PYTHON ================================================================= Package Settings ================================================================= sci-mathematics/scilab-5.5.0_beta1 was built with the following: USE="bash-completion fftw gui matio mpi nls openmp tk umfpack xcos -debug -doc -static-libs -test" LINGUAS="-ca_ES -cs_CZ -de_DE -es_ES -fr_FR -it_IT -ja_JP -pl_PL -pt_BR -ru_RU -uk_UA -zh_CN -zh_TW" LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--no-as-needed"
I also observed the same thing, but now the access violation is gone. Do you still have the issue?
(In reply to Guillaume Horel from comment #1) > I also observed the same thing, but now the access violation is gone. Do you > still have the issue? I just tested once more. root@impala:/root(11)# emerge -v1 scilab ... * --------------------------- ACCESS VIOLATION SUMMARY --------------------------- * LOG FILE: "/var/log/sandbox/sandbox-3166.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: unlink S: deny P: //home A: /home R: /home_impala C: /var/tmp/portage/sci-mathematics/scilab-5.5.0_beta1/work/scilab-5.5.0-beta-1/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce
Thanks for checking. Unfortunately I have no idea what's causing it. I don't understand why it came and went in my case. I would also try the new scilab-5.5.0 version that I pushed in the tree.
I have one system, where I could emerge scilab-5.5.0 (and I could reemerge it succesfully today) and I have three systems where emerging scilab-5.5.0_beta1 and scilab-5.5.0 generates ACCESS VIOLATION. Until now I could not found any differences (versions of jdk-with-com-sun or icedtea) which can responsible for different behaviour.
(In reply to Juergen Rose from comment #4) > I have one system, where I could emerge scilab-5.5.0 (and I could reemerge > it succesfully today) and I have three systems where emerging > scilab-5.5.0_beta1 and scilab-5.5.0 generates ACCESS VIOLATION. Until now I > could not found any differences (versions of jdk-with-com-sun or icedtea) > which can responsible for different behaviour. Any idea, what I still could check to find the reason for the ACCESS VIOLATION?
I can't reproduce on my system anymore, so hard for me to debug. I remember that I deleted the .Scilab folder in my home directory, maybe you could try that just to be sure...
Well the message from the Access violation seems to incriminate /home so hiding .Scilab for a moment may be an idea. But why would it try to do stuff in someone home directory? Unless it tries all the directories under /home.... You are not somehow using portage as a normal user?
(In reply to Francois Bissey from comment #7) > Well the message from the Access violation seems to incriminate /home so > hiding .Scilab for a moment may be an idea. But why would it try to do stuff > in someone home directory? Unless it tries all the directories under > /home.... > You are not somehow using portage as a normal user? I am running 'emerge -uvDN scilab' as root, sitting at /root; root@impala:/root(20)# emerge -uvDN --exclude jlatexmath-fop scilab ... make[1]: Leaving directory '/var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0' >>> Source compiled. * --------------------------- ACCESS VIOLATION SUMMARY --------------------------- * LOG FILE: "/var/log/sandbox/sandbox-22204.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: unlink S: deny P: //home A: /home R: /home_impala C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce If I look in the environment I find three macros containing "home": root@impala:/root(22)# env | grep home EXPORT_DIRS=/home /usr/src /data /usr/portage /usr/local/portage/distfiles /usr/local/Bioinf /usr/local/gis LOCATE_PATH=/var/spool/locate/impala:/var/spool/locate/home_impala:/var/spool/locate/usr_src_impala:/var/spool/locate/data_impala:/var/spool/locate/usr_portage_impala:/var/spool/locate/usr_local_portage_distfiles_impala: ... GLOBAL_CONF_DIR=/home_caiman/rose/Txt/Configurations But on the system, where I could emerge scilab-5.5.0, I have the same settings.
Apart from under /var/spool/locate do you /home and /home_impala somewhere on the machine? Linking to each other? Do you have /var/spool/locate/home as well as home_impala?
(In reply to Francois Bissey from comment #9) > Apart from under /var/spool/locate do you /home and /home_impala somewhere > on the machine? Linking to each other? Do you have /var/spool/locate/home as > well as home_impala? I organized my local network, that at any "host" a partion is mounted at /home_"host", an other partition is mounted at /usr/src_"host", a further partition maybe at /data_"host". Then I have links from /home_"host" to /home and from /usr/src_"host" to /usr/src etc. Furthermore more I still have links from NFS shares to corresponding local points. 'updatedb' indexes the local filesystems and 'locate' finds with right setting of LOCATE_PATH files at the local filesystem and at NFS filesystem as well. lrwxrwxrwx 1 root root 9 Aug 3 2008 /home -> home_lynx/ lrwxrwxrwx 1 root root 31 May 2 13:35 /home_cheetahnew -> /net/cheetahnew/home_cheetahnew/ lrwxrwxrwx 1 root root 25 May 2 13:35 /home_leopard -> /net/leopard/home_leopard/ drwxr-xr-x 9 root root 4096 Feb 22 2013 /home_lynx/ root@lynx:/root(2)# ll /var/spool/locate/ total 83488 -rw-r----- 1 root locate 3986294 May 2 00:01 data_lynx -rw-r----- 1 root locate 9986113 May 2 00:01 home_lynx -rw-r----- 1 root locate 60907898 May 2 00:01 lynx -rw-r----- 1 root locate 635 May 2 00:01 usr_local_Bioinf_lynx -rw-r----- 1 root locate 629 May 2 00:01 usr_local_gis_lynx -rw-r----- 1 root locate 308841 May 2 00:01 usr_local_portage_distfiles_lynx -rw-r----- 1 root locate 4700682 May 2 00:01 usr_portage_lynx -rw-r----- 1 root locate 5460576 May 2 00:01 usr_src_lynx root@lynx:/root(4)# locate nightmerge.sh /home_lynx/rose/Txt/Configurations/scripts/nightmerge.sh /home_lynx/rose/scripts/nightmerge.sh /home_lynx/rosetest/scripts/nightmerge.sh /home_lynx/touchpad/scripts/nightmerge.sh /root/scripts/nightmerge.sh /home_lynx/rose/Txt/Configurations/scripts/nightmerge.sh /home_lynx/rose/scripts/nightmerge.sh /home_lynx/rosetest/scripts/nightmerge.sh /home_lynx/touchpad/scripts/nightmerge.sh /root/scripts/nightmerge.sh /home_lynx/rose/Txt/Configurations/scripts/nightmerge.sh /home_lynx/rose/scripts/nightmerge.sh /home_lynx/rosetest/scripts/nightmerge.sh /home_lynx/touchpad/scripts/nightmerge.sh /home_leopard/rose/Txt/Configurations/scripts/nightmerge.sh /home_leopard/rose/scripts/nightmerge.sh /home_cheetahnew/rose/Txt/Configurations/scripts/nightmerge.sh /home_cheetahnew/rose/scripts/nightmerge.sh
I have to wrap my head around your set up :) but I think there is potential for stuff to happen there.
(In reply to Francois Bissey from comment #11) > I have to wrap my head around your set up :) but I think there is potential > for stuff to happen there. If I look at the installed scilab 'qlist -v scilab', I find installed files under /usr/include/scilab /usr/share/applications /usr/share/scilab /usr/share/locale/en_US/LC_MESSAGES /usr/share/bash-completion/ /usr/share/icons/hicolor /usr/share/doc/scilab-5.5.0_beta1 /usr/lib64/scilab/ /usr/bin/ /etc/revdep-rebuild/ These directories are completely independent from my special settings. Why the installation of scilab tries now to access the /home directory?
(In reply to Juergen Rose from comment #12) > These directories are completely independent from my special settings. Why > the installation of scilab tries now to access the /home directory? I am not arguing, that's a good question. But if I believe your sandbox violation output stuff happens when the following command is executed: /var/tmp/portage/sci-mathematics/scilab-5.5.0_beta1/work/scilab-5.5.0-beta-1/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce So basically the compiled but uninstalld scilab is running some kind of script. I wonder if it would work from a fresh install rather than an upgrade? Is there a "modules/functions/scripts/buildmacros/buildmacros.sce" in the previous install? Have to find what it is supposed to do in any case.
(In reply to Francois Bissey from comment #13) > (In reply to Juergen Rose from comment #12) > > These directories are completely independent from my special settings. Why > > the installation of scilab tries now to access the /home directory? > > I am not arguing, that's a good question. But if I believe your sandbox > violation output stuff happens when the following command is executed: > > /var/tmp/portage/sci-mathematics/scilab-5.5.0_beta1/work/scilab-5.5.0-beta-1/ > .libs/scilab-cli-bin -ns -noatomsautoload -f > modules/functions/scripts/buildmacros/buildmacros.sce > > So basically the compiled but uninstalld scilab is running some kind of > script. > I wonder if it would work from a fresh install rather than an upgrade? Is > there a > "modules/functions/scripts/buildmacros/buildmacros.sce" in the previous > install? I can't find a modules/functions/scripts/buildmacros/buildmacros.sce" in the previous install. There is not a directory /usr/share/scilab/modules/functions/scripts/ > Have to find what it is supposed to do in any case. I also deleted the scilab-5.5.0_beta1 installation and tried a new installation of scilab. I get again ACCESS VIOLATION with a lot of directories, files and links, which should not be interesting for scilab from my point of view: make[1]: Leaving directory '/var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0' >>> Source compiled. * --------------------------- ACCESS VIOLATION SUMMARY --------------------------- * LOG FILE: "/var/log/sandbox/sandbox-25784.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: unlink S: deny P: //home A: /home R: /home_impala C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //home_lynx2 A: /home_lynx2 R: /net/lynx2/home_lynx2 C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //boot_local-d.log A: /boot_local-d.log R: /boot_local-d.log C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //login.log A: /login.log R: /login.log C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //home_caiman A: /home_caiman R: /net/caiman/home_caiman C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //lib A: /lib R: /lib64 C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //boot_local-d.log~ A: /boot_local-d.log~ R: /boot_local-d.log~ C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //data_caiman A: /data_caiman R: /net/caiman/data_caiman C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //home_condor A: /home_condor R: /net/condor/home_condor C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //data_condor A: /data_condor R: /net/condor/data_condor C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //data A: /data R: /data_impala C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //data_lynx2 A: /data_lynx2 R: /net/lynx2/data_lynx2 C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce * -------------------------------------------------------------------------------- !!! When you file a bug report, please include the following information: GENTOO_VM=icedtea-7 CLASSPATH="" JAVA_HOME="/usr/lib64/icedtea7" JAVACFLAGS="-source 1.5 -target 1.5" COMPILER="" and of course, the output of emerge --info =scilab-5.5.0
After removing scilab, I did an additional 'emerge --depclean' which removed several java-packages. The subsequent 'emerge -uvDN scilab' reemerges these packages and then fails with a new error: [javac] /var/tmp/portage/sci-mathematics/scilab-5.4.1/work/scilab-5.4.1/modules/helptools/src/java/org/scilab/modules/helptools/scilab/ScilabLexer.java [javac] /var/tmp/portage/sci-mathematics/scilab-5.4.1/work/scilab-5.4.1/modules/helptools/src/java/org/scilab/modules/helptools/source/ScilabSourceBrowser.java [javac] warning: [path] bad path element "/usr/share/scirenderer-1/lib/jogl2.jar": no such file or directory [javac] warning: [path] bad path element "/usr/share/scirenderer-1/lib/gluegen2-rt.jar": no such file or directory [javac] warning: [options] bootstrap class path not set in conjunction with -source 1.6 [javac] /var/tmp/portage/sci-mathematics/scilab-5.4.1/work/scilab-5.4.1/modules/helptools/src/java/org/scilab/modules/helptools/BuildDocObject.java:23: error: package com.icl.saxon does not exist Should I file a separate bug for this?
Looks like you're emerging scilab-5.4.1 now. Also you still have scirenderer installed (cause it's looking for paths like: /usr/share/scirenderer-1/lib/jogl2.jar). Can you remove it first and try again?
(In reply to Guillaume Horel from comment #16) > Looks like you're emerging scilab-5.4.1 now. Also you still have scirenderer > installed (cause it's looking for paths like: > /usr/share/scirenderer-1/lib/jogl2.jar). Can you remove it first and try > again? I started again with: root@impala:/home/rose(54)# emerge --depclean jeuclid-core =mediawiki-1.22.5 dev-ruby/hoe gnome-audio flexdock freehep-graphicsio-emf jogl =dev-java/jgraphx-2.5.0.3 =gentoo-sources-3.14.1 libbluedevil jlatexmath-fop =opencascade-6.6.0 libgdu metacity obexd =dev-java/jgraphx-1.8.0.6 dev-java/jrosetta dev-java/jcip-annotations =dev-java/xmlgraphics-commons-1.3.1 dev-java/freehep-graphicsio-tests skinlf gluegen swt jlatexmath laf-plugin freehep-graphicsio cpptasks freehep-graphics2d freehep-io freehep-export freehep-swing freehep-util freehep-misc-deps scirenderer Then 'emerge -uvDN scilab' wants to emerge: root@impala:/root(69)# emerge -uvDN scilab These are the packages that would be merged, in order: Calculating dependencies... done! [ebuild N ] dev-java/freehep-misc-deps-0.1 0 kB [ebuild N ] dev-java/jlatexmath-1.0.3:1::science USE="doc examples -source" 0 kB [ebuild N ] dev-java/jrosetta-1.0.4::science 0 kB [ebuild N ] dev-java/jgraphx-2.5.0.3:2.5::science USE="doc examples -source" 0 kB [ebuild N ] dev-java/laf-plugin-0.2 USE="doc -source" 0 kB [ebuild N ] dev-java/swt-3.7.2-r1:3.7 USE="cairo gnome opengl webkit" 0 kB [ebuild N ] dev-java/jcip-annotations-1.0-r1::science USE="-source" 0 kB [ebuild N ] dev-java/freehep-util-2.0.2 0 kB [ebuild N ] dev-java/cpptasks-1.0_beta5 USE="doc examples -source" 0 kB [ebuild N ] dev-java/freehep-swing-2.0.3 0 kB [ebuild N ] dev-java/freehep-io-2.0.2 0 kB [ebuild N ] dev-java/freehep-graphics2d-2.1.1 0 kB [ebuild N ] dev-java/skinlf-6.7-r1 USE="examples -source" 0 kB [ebuild N ] dev-java/freehep-export-2.1.1 0 kB [ebuild N ] dev-java/flexdock-1.2.4::science USE="doc -source" 0 kB [ebuild N ] dev-java/gluegen-2.1.4:2.1::science USE="doc -source {-test}" 0 kB [ebuild N ] dev-java/freehep-graphicsio-2.1.1 0 kB [ebuild N ] dev-java/freehep-graphicsio-tests-2.1.1 0 kB [ebuild N ] dev-java/freehep-graphicsio-emf-2.1.1 0 kB [ebuild N ] dev-java/jlatexmath-fop-1.0.3:1::science USE="examples -source" 0 kB [ebuild NS ] dev-java/xmlgraphics-commons-1.3.1:1.3::gentoo [1.5:1.5::science] USE="doc examples jpeg -source {-test}" 0 kB [ebuild N ] dev-java/jeuclid-core-3.1.9::science USE="-source" 0 kB [ebuild N ] dev-java/jogl-2.1.4:2.1::science USE="cg doc -source" 0 kB [ebuild N ] sci-mathematics/scilab-5.5.0::science USE="bash-completion emf fftw gui matio mpi nls openmp tk umfpack xcos -debug -doc -static-libs {-test}" LINGUAS="-ca_ES -cs_CZ -de_DE -es_ES -fr_FR -it_IT -ja_JP -pl_PL -pt_BR -ru_RU -uk_UA -zh_CN -zh_TW" 0 kB Total: 24 packages (23 new, 1 in new slot), Size of downloads: 0 kB This works until "jlatexmath-fop' which fails due to Bug 508504 . I suppose the subsequent 'emerge -uvDN --exclude jlatexmath-fop scilab' then tries to emerge scilab-5.4.1.
(In reply to Juergen Rose from comment #17) > (In reply to Guillaume Horel from comment #16) > > Looks like you're emerging scilab-5.4.1 now. Also you still have scirenderer ... > Then 'emerge -uvDN scilab' wants to emerge: > > root@impala:/root(69)# emerge -uvDN scilab > > These are the packages that would be merged, in order: > > Calculating dependencies... done! > [ebuild N ] dev-java/freehep-misc-deps-0.1 0 kB > [ebuild N ] dev-java/jlatexmath-1.0.3:1::science USE="doc examples > -source" 0 kB ... > [ebuild N ] dev-java/jlatexmath-fop-1.0.3:1::science USE="examples > -source" 0 kB ... > [ebuild N ] sci-mathematics/scilab-5.5.0::science USE="bash-completion > emf fftw gui matio mpi nls openmp tk umfpack xcos -debug -doc -static-libs > {-test}" LINGUAS="-ca_ES -cs_CZ -de_DE -es_ES -fr_FR -it_IT -ja_JP -pl_PL > -pt_BR -ru_RU -uk_UA -zh_CN -zh_TW" 0 kB > > Total: 24 packages (23 new, 1 in new slot), Size of downloads: 0 kB > > This works until "jlatexmath-fop' which fails due to Bug 508504 . I suppose > the subsequent 'emerge -uvDN --exclude jlatexmath-fop scilab' then tries to > emerge > scilab-5.4.1. Not true 'emerge jlatexmath-fop' did not fail. But 'emerge scilab' fails again with: * --------------------------- ACCESS VIOLATION SUMMARY --------------------------- * LOG FILE: "/var/log/sandbox/sandbox-26851.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: unlink S: deny P: //home A: /home R: /home_impala C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //home_lynx2 A: /home_lynx2 R: /home_lynx2 C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //boot_local-d.log A: /boot_local-d.log R: /boot_local-d.log C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce F: unlink S: deny P: //login.log A: /login.log R: /login.log C: /var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce ....
Any news? Which part of scilab-5.5.0.ebuild is responsible for the ACCESS VIOLATION, "prune_libtool_files --all" in src_install? Why "/var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce" tries to access files in the / directory?
prune_libtool_files --all is not responsible for the access violation. Why "/var/tmp/portage/sci-mathematics/scilab-5.5.0/work/scilab-5.5.0/.libs/scilab-cli-bin -ns -noatomsautoload -f modules/functions/scripts/buildmacros/buildmacros.sce" tries to access files in the / directory? If I knew the answer to that question, then how to fix it would be pretty obvious... I'm out of ideas. Please ask upstream about this issue. Maybe they will know why you trigger this.
Same for me: sandobox violation emerging scilab-5.5.0 on both an x86 (atom N270) and amd64: >>> Completed installing scilab-5.5.0 into /var/tmp/portage/sci-mathematics/scilab-5.5.0/image/ [31;01m*[0m --------------------------- ACCESS VIOLATION SUMMARY --------------------------- [31;01m*[0m LOG FILE: "/var/log/sandbox/sandbox-28948.log" [31;01m*[0m 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/card0 A: /dev/dri/card0 R: /dev/dri/card0 C: /usr/bin/glxinfo [31;01m*[0m -------------------------------------------------------------------------------- !!! When you file a bug report, please include the following information: GENTOO_VM=icedtea-bin-6 CLASSPATH="" JAVA_HOME="/opt/icedtea-bin-6.1.13.3" JAVACFLAGS="-source 1.5 -target 1.5" COMPILER="" and of course, the output of emerge --info =scilab-5.5.0 emerge --info =scilab-5.5.0 Portage 2.2.8-r1 (default/linux/x86/13.0/desktop, gcc-4.7.3, glibc-2.17, 3.12.21-gentoo-r1 i686) ================================================================= System Settings ================================================================= System uname: Linux-3.12.21-gentoo-r1-i686-Intel-R-_Atom-TM-_CPU_N270_@_1.60GHz-with-gentoo-2.2 KiB Mem: 2060280 total, 985216 free KiB Swap: 3145724 total, 3145724 free Timestamp of tree: Wed, 09 Jul 2014 10:30:01 +0000 ld GNU ld (GNU Binutils) 2.23.2 distcc 3.1 i686-pc-linux-gnu [enabled] app-shells/bash: 4.2_p45 dev-java/java-config: 2.2.0 dev-lang/python: 2.7.6, 3.3.3 dev-util/cmake: 2.8.12.2 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: 1.11.6, 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: 3.13 (virtual/os-headers) sys-libs/glibc: 2.17 Repositories: gentoo local-overlay-crossdev science local-overlay-main ACCEPT_KEYWORDS="x86" ACCEPT_LICENSE="*" CBUILD="i686-pc-linux-gnu" CFLAGS="-O2 -march=atom -mtune=atom -mno-cx16 -msahf -mmovbe -mno-aes -mno-pclmul -mno-popcnt -mno-abm -mno-lwp -mno-fma -mno-fma4 -mno-xop -mno-bmi -mno-bmi2 -mno-tbm -mno-avx -mno-avx2 -mno-sse4.2 -mno-sse4.1 -mno-lzcnt -mno-rdrnd -mno-f16c -mno-fsgsbase --param l1-cache-size=24 --param l1-cache-line-size=64 --param l2-cache-size=512 -mmmx -msse -msse2 -msse3 -mssse3 -mfpmath=sse -pipe -fomit-frame-pointer" CHOST="i686-pc-linux-gnu" CONFIG_PROTECT="/etc /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-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=atom -mtune=atom -mno-cx16 -msahf -mmovbe -mno-aes -mno-pclmul -mno-popcnt -mno-abm -mno-lwp -mno-fma -mno-fma4 -mno-xop -mno-bmi -mno-bmi2 -mno-tbm -mno-avx -mno-avx2 -mno-sse4.2 -mno-sse4.1 -mno-lzcnt -mno-rdrnd -mno-f16c -mno-fsgsbase --param l1-cache-size=24 --param l1-cache-line-size=64 --param l2-cache-size=512 -mmmx -msse -msse2 -msse3 -mssse3 -mfpmath=sse -pipe -fomit-frame-pointer" DISTDIR="/home/TEMP/root/DISTFILES" EMERGE_DEFAULT_OPTS="--autounmask=n" FCFLAGS="-O2 -march=atom -mtune=atom -mno-cx16 -msahf -mmovbe -mno-aes -mno-pclmul -mno-popcnt -mno-abm -mno-lwp -mno-fma -mno-fma4 -mno-xop -mno-bmi -mno-bmi2 -mno-tbm -mno-avx -mno-avx2 -mno-sse4.2 -mno-sse4.1 -mno-lzcnt -mno-rdrnd -mno-f16c -mno-fsgsbase --param l1-cache-size=24 --param l1-cache-line-size=64 --param l2-cache-size=512 -mmmx -msse -msse2 -msse3 -mssse3 -mfpmath=sse -pipe -fomit-frame-pointer" FEATURES="assume-digests binpkg-logs config-protect-if-modified distcc distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync" FFLAGS="-O2 -march=atom -mtune=atom -mno-cx16 -msahf -mmovbe -mno-aes -mno-pclmul -mno-popcnt -mno-abm -mno-lwp -mno-fma -mno-fma4 -mno-xop -mno-bmi -mno-bmi2 -mno-tbm -mno-avx -mno-avx2 -mno-sse4.2 -mno-sse4.1 -mno-lzcnt -mno-rdrnd -mno-f16c -mno-fsgsbase --param l1-cache-size=24 --param l1-cache-line-size=64 --param l2-cache-size=512 -mmmx -msse -msse2 -msse3 -mssse3 -mfpmath=sse -pipe -fomit-frame-pointer" GENTOO_MIRRORS="http://mirror.switch.ch/ftp/mirror/gentoo/ http://ftp-stud.fht-esslingen.de/pub/Mirrors/gentoo/ ftp://ftp.halifax.rwth-aachen.de/gentoo/" LANG="en_US.utf8" LDFLAGS="-Wl,-O1 -Wl,--as-needed" MAKEOPTS="-j8 -l2 --silent" PKGDIR="/home/TEMP/root/TBZ2" 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="/etc/portage/OV_CROSSDEV /var/lib/layman/science /etc/portage/OV_MAIN" USE="X a52 aac accessibility acl acpi aiglx aim alsa audiofile avahi berkdb bidi bluetooth bzip2 cairo cdda cddb cdr cjk cli consolekit cracklib crypt cups cxx dbus dga dri dts dv dvb dvd dvdr dvdread emboss encode exif fam fame fat ffmpeg firefox flac foomatic-db fortran freetype gcj gdbm gif gimpprint gmp gnutls gphoto2 gpm gsm gtk hfs iconv icq idn ieee1394 imap inotify ipod ipv6 irc irda jabber jfs joystick jpeg kdehiddenvisibility kerberos lame lcd lcms ldap libnotify live lm_sensors lzo mad mail matroska mjpeg mmx mng modules mozdevelop mp3 mp3rtp mp4 mpeg msn musepack musicbrainz ncurses network nls nptl nsplugin ntfs ogg openal openexr opengl openmp pam pango pcmcia pcre pda pdf png policykit ppds qt3support qt4 rar rdesktop readline real reiserfs rss scanner sdl session slp speex spell sse sse2 sse3 ssl ssse3 startup-notification stream svg sysfs theora tiff truetype udev udisks unicode upower usb v4l v4l2 visualization vorbis wifi wmf x264 x86 xattr xcb xfs xine xinerama xml xpm xprint xulrunner xv xvid xvmc yahoo zeroconf zlib" ABI_X86="32" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1 emu10k1x ens1370 ens1371 es1938 es1968 fm801 hda-intel intel8x0 intel8x0m maestro3 trident usb-audio via82xx via82xx-modem ymfpci" 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" APACHE2_MPMS="prefork" CALLIGRA_FEATURES="krita" 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 ublox ubx" GRUB_PLATFORMS="pc" INPUT_DEVICES="evdev synaptics void" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer nlpsolver pdfimport wiki-publisher" LINGUAS="en it" LIRC_DEVICES="audio audio_alsa serial pctv" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-5" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_3" QEMU_SOFTMMU_TARGETS="arm" RUBY_TARGETS="ruby20" USERLAND="GNU" VIDEO_CARDS="intel i915" 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, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, SYNC, USE_PYTHON
This sandbox violation is different, it's due to a call to glxinfo in the scilab script. The patch scilab-5.5.0-accessviolation.patch was supposed to fix it. As a workaround, you can just delete the test. Can you post your complete build logs? I want to understand why that line still gets executed.
Created attachment 380564 [details] build.log for scilab-5.5.0 emerged on Atom N270 Thank you
Created attachment 380566 [details] build.log for scilab-5.5.0 emerged on amd64
I got rid of the upstream hack, I think it should get rid of the access violation issue.
Yes, it works! Thank you!
scilab-5.5.0_beta1 is not in the overlay anymore. This was fixed anyhow. The most recent version is scilab-5.5.2.
