I cannot install dev-lang/R unless I turn USE 'test' off. Here goes the error message: running regression tests ... make[3]: Entering directory `/rd3/tmp/portage/dev-lang/R-2.15.3/work/R-2.15.3/tests' running code in 'reg-tests-1a.R' ... OK running code in 'reg-tests-1b.R' ... OK running code in 'reg-tests-2.R' ... OK comparing 'reg-tests-2.Rout' to './reg-tests-2.Rout.save' ... OK running code in 'reg-examples1.R' ... OK running code in 'reg-examples2.R' ... OK running code in 'reg-packages.R' ... OK running code in 'reg-IO.R' ... OK comparing 'reg-IO.Rout' to './reg-IO.Rout.save' ... OK running code in 'reg-IO2.R' ... OK comparing 'reg-IO2.Rout' to './reg-IO2.Rout.save' ... OK running code in 'reg-plot.R' ... OK comparing 'reg-plot.pdf' to './reg-plot.pdf.save' ... OK running code in 'reg-S4.R' ... OK comparing 'reg-S4.Rout' to './reg-S4.Rout.save' ... OK running code in 'reg-BLAS.R' ...make[3]: *** [reg-BLAS.Rout] Error 1 make[3]: Leaving directory `/rd3/tmp/portage/dev-lang/R-2.15.3/work/R-2.15.3/tests' make[2]: *** [test-Reg] Error 2 make[2]: Leaving directory `/rd3/tmp/portage/dev-lang/R-2.15.3/work/R-2.15.3/tests' make[1]: *** [test-all-basics] Error 1 make[1]: Leaving directory `/rd3/tmp/portage/dev-lang/R-2.15.3/work/R-2.15.3/tests' make: *** [check] Error 2 * ERROR: dev-lang/R-2.15.3 failed (test phase): * Make check failed. See above for details. * * Call stack: * ebuild.sh, line 93: Called src_test * environment, line 3545: Called __eapi0_src_test * phase-helpers.sh, line 606: Called die * The specific snippet of code: * $emake_cmd ${internal_opts} check || \ * die "Make check failed. See above for details." * * If you need support, post the output of `emerge --info '=dev-lang/R-2.15.3'`, * the complete build log and the output of `emerge -pqv '=dev-lang/R-2.15.3'`. * The complete build log is located at '/rd3/tmp/portage/dev-lang/R-2.15.3/temp/build.log'. * The ebuild environment file is located at '/rd3/tmp/portage/dev-lang/R-2.15.3/temp/environment'. * Working directory: '/rd3/tmp/portage/dev-lang/R-2.15.3/work/R-2.15.3' * S: '/rd3/tmp/portage/dev-lang/R-2.15.3/work/R-2.15.3' I googled for solution and found that some ones mentioned to use "builtin BLAS" rather than BLAS-reference lib. However, I do not see any USE flag for that or other alternative BLAS ebuild. Reproducible: Always
Here goes my USE flags: # equery u dev-lang/R [ Legend : U - final flag setting for installation] [ : I - package is installed with flag ] [ Colors : set, unset ] * Found these USE flags for dev-lang/R-2.15.3: U I + - X : Adds support for X11 + - bash-completion : Enable bash-completion support - - cairo : Enable support for the cairo graphics library - - doc : Adds extra documentation (API, Javadoc, etc). It is recommended to enable per package instead of globally - - icu : Enable ICU (Internationalization Components for Unicode) support, using dev-libs/icu + - java : Adds support for Java + - jpeg : Adds JPEG image support - - lapack : Adds support for the virtual/lapack numerical library - - minimal : Install a very minimal build (disables, for example, plugins, fonts, most drivers, non-critical features) - + nls : Adds Native Language Support (using gettext - GNU locale utilities) + + openmp : Build support for the OpenMP (support parallel computing), requires >=sys-devel/gcc-4.2 built with USE="openmp" - - perl : Adds optional support/bindings for the Perl language + - png : Adds support for libpng (PNG images) - - profile : Adds support for software performance analysis (will likely vary from ebuild to ebuild) + + readline : Enables support for libreadline, a GNU line-editing library that almost everyone wants - - static-libs : Build static libraries - - tiff : Adds support for the TIFF image format + - tk : Adds support for Tk GUI toolkit
# emerge --info Portage 2.1.11.52 (default/linux/amd64/13.0, gcc-4.6.3, glibc-2.15-r3, 3.6.11-gentoo x86_64) ================================================================= System uname: Linux-3.6.11-gentoo-x86_64-Intel-R-_Xeon-R-_CPU_E5310_@_1.60GHz-with-gentoo-2.1 KiB Mem: 33014624 total, 7059524 free KiB Swap: 32009508 total, 32009508 free Timestamp of tree: Tue, 05 Mar 2013 16:30:01 +0000 ld GNU ld (GNU Binutils) 2.22 distcc 3.1 x86_64-pc-linux-gnu [disabled] app-shells/bash: 4.2_p37 dev-java/java-config: 1.3.7-r1, 2.1.12-r1 dev-lang/python: 2.4.6, 2.5.4-r4, 2.6.8, 2.7.3-r2, 3.2.3 dev-util/cmake: 2.8.9 dev-util/pkgconfig: 0.28 sys-apps/baselayout: 2.1-r1 sys-apps/openrc: 0.11.8 sys-apps/sandbox: 2.5 sys-devel/autoconf: 2.13::<unknown repository>, 2.69 sys-devel/automake: 1.4_p6-r1, 1.6.3-r1, 1.7.9-r2, 1.9.6-r3, 1.10.3, 1.11.6 sys-devel/binutils: 2.22-r1 sys-devel/gcc: 4.6.3 sys-devel/gcc-config: 1.7.3 sys-devel/libtool: 2.4-r1 sys-devel/make: 3.82-r4 sys-kernel/linux-headers: 3.6 (virtual/os-headers) sys-libs/glibc: 2.15-r3 Repositories: gentoo science ACCEPT_KEYWORDS="amd64" ACCEPT_LICENSE="* -@EULA" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-O2 -pipe -march=native" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt /usr/share/maven-bin-3.0/conf" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.4/ext-active/ /etc/php/cgi-php5.4/ext-active/ /etc/php/cli-php5.4/ext-active/ /etc/revdep-rebuild /etc/sandbox.d /etc/splash /etc/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c" CXXFLAGS="-O2 -pipe -march=native" DISTDIR="/usr/portage/distfiles" FCFLAGS="-O2 -pipe" FEATURES="assume-digests binpkg-logs collision-protect config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch protect-owned sandbox sfperms strict test unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="http://distfiles.gentoo.org" LDFLAGS="-Wl,-O1 -Wl,--as-needed" MAKEOPTS="-j8" PKGDIR="/usr/portage/packages" PORTAGE_CONFIGROOT="/" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --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="/var/lib/layman/science" SYNC="rsync://162.105.250.143/gentoo-portage" USE="acl amd64 berkdb bzip2 cli cracklib crypt cxx dri fortran gdbm gpm iconv ipv6 mmx modules mudflap multilib ncurses nls nptl openmp pam pcre readline session sse sse2 ssl tcpd test threads unicode zlib" 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" 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 auth_digest authn_anon authn_dbd 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 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_http rewrite setenvif so speling status unique_id userdir usertrack vhost_alias cgi" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump" 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="evdev keyboard mouse" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" PHP_TARGETS="php5-3" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_2" RUBY_TARGETS="ruby18 ruby19" USERLAND="GNU" VIDEO_CARDS="mach64 r128 radeon vesa" 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, LANG, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON
Please attach the complete build.log.
Created attachment 341454 [details] Build log of =dev-lang/R-2.15.3
*** This bug has been marked as a duplicate of bug 353545 ***
