On (only) one of two nearly identical AMD64 machines, R-12.2.2 fails to install with many errors like Warning in lazyLoadDBinsertVariable(vars[i], from, datafile, ascii, compress, : internal error 8 in R_compress3 I have no idea, why. The complete build log has more than 2500 lines. Reproducible: Always emerge --info '=dev-lang/R-2.12.2' Portage 2.2.0_alpha26 (default/linux/amd64/10.0/desktop, gcc-4.5.2, glibc-2.13-r1, 2.6.37-gentoo x86_64) ================================================================= System Settings ================================================================= System uname: Linux-2.6.37-gentoo-x86_64-AMD_Phenom-tm-_II_X4_955_Processor-with-gentoo-2.0.1 Timestamp of tree: Wed, 02 Mar 2011 07:45:01 +0000 ccache version 3.1.4 [disabled] app-shells/bash: 4.1_p10 dev-java/java-config: 2.1.11-r3 dev-lang/python: 2.6.6-r1, 2.7.1-r1, 3.1.3-r1 dev-util/ccache: 3.1.4 dev-util/cmake: 2.8.4 sys-apps/baselayout: 2.0.1-r1 sys-apps/openrc: 0.7.0 sys-apps/sandbox: 2.5 sys-devel/autoconf: 2.13, 2.68 sys-devel/automake: 1.9.6-r3, 1.10.3, 1.11.1 sys-devel/binutils: 2.21 sys-devel/gcc: 4.4.5, 4.5.2, 4.6.0_pre9999::local sys-devel/gcc-config: 1.4.1 sys-devel/libtool: 2.4-r1 sys-devel/make: 3.82 virtual/os-headers: 2.6.36.1 (sys-kernel/linux-headers) Repositories: gentoo local sunrise Installed sets: ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="*" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-mtune=native -O2 -msse3 -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/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.2/ext-active/ /etc/php/apache2-php5.3/ext-active/ /etc/php/cgi-php5.2/ext-active/ /etc/php/cgi-php5.3/ext-active/ /etc/php/cli-php5.2/ext-active/ /etc/php/cli-php5.3/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="-mtune=native -O2 -msse3 -pipe" DISTDIR="/usr/portage/distfiles" FEATURES="assume-digests binpkg-logs buildpkg distlocks fixlafiles fixpackages news parallel-fetch preserve-libs protect-owned sandbox sfperms splitdebug strict unknown-features-warn unmerge-logs unmerge-orphans userfetch" FFLAGS="" GENTOO_MIRRORS="ftp://sunsite.informatik.rwth-aachen.de/pub/Linux/gentoo " LANG="en_US.iso88591" LDFLAGS="-Wl,-O1 -Wl,--as-needed" LINGUAS="en de" MAKEOPTS="-j4" 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 /usr/local/portage/layman/sunrise" SYNC="rsync://rsync.informatik.RWTH-Aachen.de/gentoo-portage" USE="3dnow 3dnowext 3dnowprefetch X a52 aac acl acpi alsa amd64 atm avahi berkdb branding bzip2 cairo cdr cli consolekit cracklib crypt cups cxx dbus dri dts dvd dvdr emboss encode exif fam ffmpeg fftw firefox flac fortran fuse gdbm gdu gfortran gif gimp gnome gpm gtk gtk2 iconv ipv6 jpeg kde lapack lcms libnotify mad mikmod mmx mmxext mng modules mp3 mp4 mpeg mudflap multilib ncurses nls nptl nptlonly ogg opengl openmp pam pango pcre pdf perl png policykit ppds pppd python qt qt3support qt4 readline sdl session smp spell sqlite sqlite3 sse sse2 sse3 sse4a ssl startup-notification svg sysfs tcl tcpd threads tiff tk truetype udev unicode usb vorbis x264 xcb xml xorg xulrunner xv xvid 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" 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" LINGUAS="en de" PHP_TARGETS="php5-3" RUBY_TARGETS="ruby18" USERLAND="GNU" VIDEO_CARDS="ati radeon" 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
Please attach your complete build.log file to the bug report.
Created attachment 264403 [details] build log
(In reply to comment #2) > Created an attachment (id=264403) [details] > build log Doesn't look like that's the entire build log. And it ends /successfully/ if incomplete... Please try again.
Created attachment 264591 [details] build log xz-compressed
Thanks.
Hi Helmut, Could you post your bug to the R project bugs? I could not reproduce here. Thanks,
What about 2.1{3,4}.0?
upstream fixed it, and R-2.12.x, R-2.13.x are gone.
