shouldn't lapack be a dependency of rpy? /usr/lib/gcc/i686-pc-linux-gnu/4.1.2/../../../../i686-pc-linux-gnu/bin/ld: cannot find -llapack collect2: ld returned 1 exit status /usr/lib/gcc/i686-pc-linux-gnu/4.1.2/../../../../i686-pc-linux-gnu/bin/ld: cannot find -llapack collect2: ld returned 1 exit status error: Command "i686-pc-linux-gnu-gcc -pthread -shared -march=pentium-m -O2 -pipe build/temp.linux-i686-2.4/src/rpymodule2070.o build/temp.linux-i686-2.4/src/R_eval2070.o build/temp.linux-i686-2.4/src/io2070.o build/temp.linux-i686-2.4/src/setenv.o -L/usr/lib/R/bin -L/usr/lib/R/lib -Wl,-R/usr/lib/R/bin -Wl,-R/usr/lib/R/lib -lR -llapack -o build/lib.linux-i686-2.4/_rpy2070.so" failed with exit status 1 * * ERROR: dev-python/rpy-1.0.2-r1 failed. * Call stack: * ebuild.sh, line 49: Called src_compile * environment, line 2357: Called distutils_src_compile * environment, line 691: Called die * The specific snippet of code: * ${python} setup.py build "$@" || die "compilation failed" * The die message: * compilation 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/dev-python/rpy-1.0.2-r1/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/dev-python/rpy-1.0.2-r1/temp/environment'. Reproducible: Always
Hi Renato, lapack does not need to be a rpy dependency, but of R, and should autodetect if you have it built or not. Do you have USE=lapack set for R? Could you provide your emerge --info and if you have USE=lapack, also eselect lapack list. Thanks.
Created attachment 155581 [details] rpy emerge full log I don't have USE=lapack set for R. If I do lapack is installed as dep and then rpy compiles without problems. emerge --info Portage 2.1.4.4 (default-linux/x86/2007.0, gcc-4.1.2, glibc-2.6.1-r0, 2.6.24-gentoo-r8 i686) ================================================================= System uname: 2.6.24-gentoo-r8 i686 Intel(R) Pentium(R) M processor 2.00GHz Timestamp of tree: Sun, 01 Jun 2008 02:15:01 +0000 ccache version 2.4 [enabled] app-shells/bash: 3.2_p33 dev-java/java-config: 1.3.7, 2.1.6 dev-lang/python: 2.4.4-r13 dev-python/pycrypto: 2.0.1-r6 dev-util/ccache: 2.4-r7 sys-apps/baselayout: 1.12.12 sys-apps/sandbox: 1.2.18.1-r2 sys-devel/autoconf: 2.13, 2.61-r1 sys-devel/automake: 1.4_p6, 1.5, 1.7.9-r1, 1.9.6-r2, 1.10.1 sys-devel/binutils: 2.18-r1 sys-devel/gcc-config: 1.4.0-r4 sys-devel/libtool: 1.5.26 virtual/os-headers: 2.6.23-r3 ACCEPT_KEYWORDS="x86" CBUILD="i686-pc-linux-gnu" CFLAGS="-march=pentium-m -O2 -pipe" CHOST="i686-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/shutdown /usr/share/config" CONFIG_PROTECT_MASK="/etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/revdep-rebuild /etc/terminfo /etc/texmf/web2c /etc/udev/rules.d" CXXFLAGS="-march=pentium-m -O2 -pipe" DISTDIR="/usr/portage/distfiles" FEATURES="ccache collision-protect distlocks metadata-transfer parallel-fetch sandbox sfperms strict unmerge-orphans userfetch" GENTOO_MIRRORS="http://darkstar.ist.utl.pt/gentoo/ http://ftp.dei.uc.pt/pub/linux/gentoo/ http://cesium.di.uminho.pt/pub/gentoo/" LANG="en_US.UTF-8" MAKEOPTS="-j2" PKGDIR="/usr/portage/packages" 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/science /usr/local/portage" SYNC="rsync://darkstar.ist.utl.pt/gentoo-portage" USE="X alsa bzip2 cli cracklib crypt cups dri firefox fortran gdbm gif gpm iconv ipv6 isdnlog jpeg midi mudflap ncurses nptl nptlonly opengl openmp pcre perl png pppd python readline reflection sdl session spl sse sse2 ssl tcpd tiff truetype unicode x86 xorg zlib" ALSA_CARDS="intel8x0 intel8x0m" ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug file hooks iec958 ioplug ladspa lfloat linear meter mulaw multi null plug rate route share shm softvol" APACHE2_MODULES="actions alias auth_basic auth_digest authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident imagemap include info log_config logio mem_cache mime mime_magic negotiation proxy proxy_ajp proxy_balancer proxy_connect proxy_ftp proxy_http rewrite setenvif speling status unique_id userdir usertrack vhost_alias" APACHE2_MPMS="worker" ELIBC="glibc" INPUT_DEVICES="keyboard mouse synaptics" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" USERLAND="GNU" VIDEO_CARDS="fbdev fglrx vesa vga radeon" Unset: CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LC_ALL, LDFLAGS, LINGUAS, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
It looks the problem was a bad detection of the R lapack module. It should be fixed in cvs. Wait till it hits the mirror and emerge again. Re-open if the problems persists. Thanks.
