>>> Emerging (81 of 144) sci-biology/rebase-905 * rebase-905.tar.bz2 RMD160 SHA1 SHA256 size ;-) ... [ ok ] * checking ebuild checksums ;-) ... [ ok ] * checking auxfile checksums ;-) ... [ ok ] * checking miscfile checksums ;-) ... [ ok ] >>> Unpacking source... >>> Unpacking rebase-905.tar.bz2 to /var/tmp/portage/sci-biology/rebase-905/work >>> Source unpacked in /var/tmp/portage/sci-biology/rebase-905/work >>> Compiling source in /var/tmp/portage/sci-biology/rebase-905/work/rebase-905 ... * Indexing Rebase for usage with EMBOSS. Error: File /usr/share/EMBOSS/acd/ .acd line 134542320: /usr/share/EMBOSS/acd/ .acd * * ERROR: sci-biology/rebase-905 failed. * Call stack: * ebuild.sh, line 49: Called src_compile * environment, line 120: Called die * The specific snippet of code: * EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${PV} -protofile proto.${PV} -equivalences || die "Indexing Rebase failed."; * The die message: * Indexing Rebase failed. * * If you need support, post the topmost build error, and the call stack if relevant. * A complete build log is located at '/var/tmp/portage/sci-biology/rebase-905/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-biology/rebase-905/temp/environment'. * It is weird there is a space instead of a filename base: ('/usr/share/EMBOSS/acd/ .acd'). # emerge --info Portage 2.1.6.13 (default/linux/x86/2008.0/desktop, gcc-4.3.2, glibc-2.9_p20081201-r2, 2.6.28-default x86_64) ================================================================= System uname: Linux-2.6.28-default-x86_64-Intel-R-_Core-TM-2_Quad_CPU_Q6600_@_2.40GHz-with-gentoo-1.12.11.1 Timestamp of tree: Tue, 13 Oct 2009 18:45:01 +0000 app-shells/bash: 4.0_p28 dev-java/java-config: 1.3.7-r1, 2.1.8-r1 dev-lang/python: 2.4.6, 2.5.4-r3, 2.6.2-r1 dev-python/pycrypto: 2.0.1-r8 sys-apps/baselayout: 1.12.11.1 sys-apps/sandbox: 1.6-r2 sys-devel/autoconf: 2.13, 2.63-r1 sys-devel/automake: 1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10.2 sys-devel/binutils: 2.18-r3 sys-devel/gcc-config: 1.4.1 sys-devel/libtool: 2.2.6a virtual/os-headers: 2.6.27-r2 ACCEPT_KEYWORDS="x86" CBUILD="i686-pc-linux-gnu" CFLAGS="-O2 -march=pentium4 -mmmx -msse -msse2 -fomit-frame-pointer -pipe" CHOST="i686-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/share/config /var/bind /var/qmail/alias /var/qmail/control /var/vpopmail/etc" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /etc/texmf/web2c /etc/udev/rules.d" CXXFLAGS="-O2 -march=pentium4 -mmmx -msse -msse2 -fomit-frame-pointer -pipe" DISTDIR="/usr/portage/distfiles" FEATURES="distlocks fixpackages parallel-fetch protect-owned sandbox sfperms strict unmerge-orphans userfetch" GENTOO_MIRRORS="http://distfiles.gentoo.org http://distro.ibiblio.org/pub/linux/distributions/gentoo" LDFLAGS="-Wl,-O1" LINGUAS="cs cz en" 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/portage/local/layman/sunrise /usr/local/portage" SYNC="rsync://rsync.europe.gentoo.org/gentoo-portage" USE="R X Xaw3d acl acpi apache2 bash-completion bcmath berkdb blas bluetooth boost branding bzip2 cairo cblas clamav cli colordiff compress consolekit cpio cracklib crypt cscope css ctype curl curlwrappers cxx dbus dia djbfft eds emacs emboss emf enblend encode enscript exif expat fam fftw firefox flac flash foomaticdb fortran ftp gcj gd gdbm gif glibc-compat20 glibc-omitfp glitz glut gmp gnuplot gnutls gpm graphviz gs gstreamer gtk gtkhtml hal i8x0 icc iconv ifc imagemagick inifile innodb isdnlog ithreads java javascript jbig jikes jpeg jpeg2k kdtree lapack lcms leim libedit libnotify libwww lzo lzw maildir mhash mime ming mjpeg mmap mmx mng mod_python modperl modplug modules motif mozilla moznoirc mpeg mpi mpi_njtree mudflap mule mxdatetime mysql mysqli ncurses netcdf netpbm network nls nntp nptl nptlonly nsplugin numeric openmp pam pango pcntl pcre pdf perl plotutils plugin png pnm postproc postscript ppds pppd procmail pymol python qt3support rar raw readline reflection reiserfs rpm rtc samba scp seamonkey server session sftp sift smime sndfile sockets spell spl srt sse sse2 sse3 ssl startup-notification svg svgz sysfs sysvipc tcl tcpd threads thunar tidy tiff tk transcode truetype unicode urandom usb userlocales uuencode vim-syntax vim-with-x vorbis wmf wxwindows x86 xanim xfs xinetd xml xorg xpm xprint xslt xulrunner xv xvid zip zlib" 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" 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="access auth_basic auth_dbm auth_anon auth_digest authz_host alias file-cache echo charset-lite cache disk-cache mem-cache deflate dir filter mime-magic cern-meta expires headers usertrack unique_id ident info include cgi cgid vhost-alias rewrite log_config env setenvif mime status autoindex asis negotiation imagemap actions userdir" ELIBC="glibc" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="cs cz en" USERLAND="GNU" VIDEO_CARDS="ati svga" Unset: CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, FFLAGS, INSTALL_MASK, LANG, LC_ALL, MAKEOPTS, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
Works her for stable emboss.
Works for me for sci-biology/rebase-1006 as well on ~x86. ;-)
