ar rcv libsquid.a aligneval.o alignio.o cluster.o dayhoff.o file.o getopt.o interleaved.o sqerror.o gnuregex.o sqio.o iupac.o msf.o revcomp.o rk.o selex.o seqencode.o sre_ctype.o sre_math.o sre_string.o stack.o translate.o types.o weight.o a - aligneval.o a - alignio.o a - cluster.o a - dayhoff.o a - file.o a - getopt.o a - interleaved.o a - sqerror.o a - gnuregex.o a - sqio.o a - iupac.o a - msf.o a - revcomp.o a - rk.o a - selex.o a - seqencode.o a - sre_ctype.o a - sre_math.o a - sre_string.o a - stack.o a - translate.o a - types.o a - weight.o if test -x /bin/ranlib; then /bin/ranlib libsquid.a; else exit 0; fi if test -x /usr/bin/ranlib; then /usr/bin/ranlib libsquid.a; else exit 0; fi if test -x ranlib; then ranlib libsquid.a; else exit 0; fi chmod 644 libsquid.a [cut] x86_64-pc-linux-gnu-gcc -O2 -pipe -march=nocona -o main -L../squid main.o -lsquid -lm x86_64-pc-linux-gnu-gcc -O2 -pipe -march=nocona -o cfgbuild -L../squid cfgbuild.o cfgio.o cfgmodel.o cfgparse.o codcreatealign.o coddp.o coddpscanfast.o codmodel.o codon.o codscorealign.o er_math.o evd.o evolcodmodel.o evolemissions.o evolmisc.o evolothmodel.o evolnullmodel.o evolqrnaversion.o evolriboprob.o evolrnadp.o evolrnadpscanfast.o evolrnamodel.o evolrnascorealign.o evolscorewithmodels.o evolscorewithmodelscanfast.o evolve.o globals.o hexamer.o matrix.o misc.o nrnscfg.o nullmodel.o othcreatealign.o othmodel.o othdp.o othdpscanfast.o othscorealign.o posterior.o qrnaversion.o riboprob.o rnacreatealign.o rnadp.o rnadpscanfast.o rnaio.o rnamodel.o rnaoutput.o rnascorealign.o rnascfg.o rnascfgscanfast.o scorewithmodels.o scorewithmodelscanfast.o seqio.o trace.o traceSCFG.o tying.o -lsquid -lm x86_64-pc-linux-gnu-gcc -O2 -pipe -march=nocona -o eqrna -L../squid eqrna.o cfgio.o cfgmodel.o cfgparse.o codcreatealign.o coddp.o coddpscanfast.o codmodel.o codon.o codscorealign.o er_math.o evd.o evolcodmodel.o evolemissions.o evolmisc.o evolothmodel.o evolnullmodel.o evolqrnaversion.o evolriboprob.o evolrnadp.o evolrnadpscanfast.o evolrnamodel.o evolrnascorealign.o evolscorewithmodels.o evolscorewithmodelscanfast.o evolve.o globals.o hexamer.o matrix.o misc.o nrnscfg.o nullmodel.o othcreatealign.o othmodel.o othdp.o othdpscanfast.o othscorealign.o posterior.o qrnaversion.o riboprob.o rnacreatealign.o rnadp.o rnadpscanfast.o rnaio.o rnamodel.o rnaoutput.o rnascorealign.o rnascfg.o rnascfgscanfast.o scorewithmodels.o scorewithmodelscanfast.o seqio.o trace.o traceSCFG.o tying.o -lsquid -lm x86_64-pc-linux-gnu-gcc -O2 -pipe -march=nocona -o eqrna_sample -L../squid eqrna_sample.o cfgio.o cfgmodel.o cfgparse.o codcreatealign.o coddp.o coddpscanfast.o codmodel.o codon.o codscorealign.o er_math.o evd.o evolcodmodel.o evolemissions.o evolmisc.o evolothmodel.o evolnullmodel.o evolqrnaversion.o evolriboprob.o evolrnadp.o evolrnadpscanfast.o evolrnamodel.o evolrnascorealign.o evolscorewithmodels.o evolscorewithmodelscanfast.o evolve.o globals.o hexamer.o matrix.o misc.o nrnscfg.o nullmodel.o othcreatealign.o othmodel.o othdp.o othdpscanfast.o othscorealign.o posterior.o qrnaversion.o riboprob.o rnacreatealign.o rnadp.o rnadpscanfast.o rnaio.o rnamodel.o rnaoutput.o rnascorealign.o rnascfg.o rnascfgscanfast.o scorewithmodels.o scorewithmodelscanfast.o seqio.o trace.o traceSCFG.o tying.o -lsquid -lm x86_64-pc-linux-gnu-gcc -O2 -pipe -march=nocona -o shuffle -L../squid shuffle.o cfgio.o cfgmodel.o cfgparse.o codcreatealign.o coddp.o coddpscanfast.o codmodel.o codon.o codscorealign.o er_math.o evd.o evolcodmodel.o evolemissions.o evolmisc.o evolothmodel.o evolnullmodel.o evolqrnaversion.o evolriboprob.o evolrnadp.o evolrnadpscanfast.o evolrnamodel.o evolrnascorealign.o evolscorewithmodels.o evolscorewithmodelscanfast.o evolve.o globals.o hexamer.o matrix.o misc.o nrnscfg.o nullmodel.o othcreatealign.o othmodel.o othdp.o othdpscanfast.o othscorealign.o posterior.o qrnaversion.o riboprob.o rnacreatealign.o rnadp.o rnadpscanfast.o rnaio.o rnamodel.o rnaoutput.o rnascorealign.o rnascfg.o rnascfgscanfast.o scorewithmodels.o scorewithmodelscanfast.o seqio.o trace.o traceSCFG.o tying.o -lsquid -lm x86_64-pc-linux-gnu-gcc -O2 -pipe -march=nocona -o rnamat_main -L../squid02 rnamat_main.o globals.o nstack.o rnamat.o -lsquid -lm /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/bin/ld: skipping incompatible ../squid02/libsquid.a when searching for -lsquid /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.3/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lsquid collect2: ld returned 1 exit status make: *** [rnamat_main] Error 1 * ERROR: sci-biology/qrna-2.0.3c failed: * (no error message) * * Call stack: * ebuild.sh, line 54: Called src_compile # emerge --info Portage 2.1.8.1 (default/linux/amd64/10.0, gcc-4.4.3, glibc-2.11-r1, 2.6.32-default x86_64) ================================================================= System uname: Linux-2.6.32-default-x86_64-Intel-R-_Core-TM-2_Quad_CPU_Q9650_@_3.00GHz-with-gentoo-2.0.1 Timestamp of tree: Fri, 05 Mar 2010 19:00:05 +0000 app-shells/bash: 4.1_p2 dev-java/java-config: 2.1.10 dev-lang/python: 2.5.4-r4, 2.6.4-r1, 3.1.1-r1 dev-util/cmake: 2.8.0-r2 sys-apps/baselayout: 2.0.1 sys-apps/openrc: 0.6.0-r1 sys-apps/sandbox: 2.2 sys-devel/autoconf: 2.13, 2.65 sys-devel/automake: 1.5, 1.9.6-r2, 1.10.3, 1.11.1 sys-devel/binutils: 2.20-r1 sys-devel/gcc: 4.3.4, 4.4.3 sys-devel/gcc-config: 1.4.1 sys-devel/libtool: 2.2.6b virtual/os-headers: 2.6.32 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="* -@EULA dlj-1.1 sun-bcla-java-vm" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-O2 -pipe -march=nocona" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/share/X11/xkb /usr/share/config /var/bind /var/qmail/alias /var/qmail/control /var/spool/torque" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo" CXXFLAGS="-O2 -pipe -march=nocona" DISTDIR="/usr/portage/distfiles" FEATURES="assume-digests distlocks fixpackages news nostrip parallel-fetch protect-owned sandbox sfperms splitdebug strict unmerge-logs unmerge-orphans userfetch" GENTOO_MIRRORS="http://distfiles.gentoo.org" LDFLAGS="-Wl,-O1" LINGUAS="en cs cz" MAKEOPTS="-j5" 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" SYNC="rsync://rsync.gentoo.org/gentoo-portage" USE="X amd64 berkdb bzip2 cracklib crypt cxx dbus dri fortran gdbm gnutls hal iconv innodb java jce jpeg jpg kde laptop mmx modules mpi mpich2 multilib mysql ncurses nfs nls nptl nptlonly nsplugin opengl openssl pam pcre perl png python qt3support qt4 readline server session sse sse2 ssl suexec svg sysfs syslog tcpd threads unicode usb xorg 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 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" ELIBC="glibc" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="en cs cz" RUBY_TARGETS="ruby18" USERLAND="GNU" VIDEO_CARDS="vesa" Unset: CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, FFLAGS, INSTALL_MASK, LANG, LC_ALL, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
CUT is not what we need for the bug report. please attach the full build.log as always. thanks.
Should be fixed, if not please repoen bug.
qrna-2.0.3c-r1 works, thanks.
