Bugzilla Bug 151908

Error:

make[5]: Leaving directory
`/var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/src/library/grDevices/src'
make[5]: Entering directory
`/var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/src/library/grDevices/src'
i686-pc-linux-gnu-gcc -I../../../../include -I../../../../include
-I../../../include -I../../../../src/include -DHAVE_CONFIG_H
-I/usr/local/include    -fPIC  -march=pentium4 -O2 -fomit-frame-pointer -pipe
-Wall -c chull.c -o chull.o
i686-pc-linux-gnu-gcc -I../../../../include -I../../../../include
-I../../../include -I../../../../src/include -DHAVE_CONFIG_H
-I/usr/local/include    -fPIC  -march=pentium4 -O2 -fomit-frame-pointer -pipe
-Wall -c devNull.c -o devNull.o
i686-pc-linux-gnu-gcc -I../../../../include -I../../../../include
-I../../../include -I../../../../src/include -DHAVE_CONFIG_H
-I/usr/local/include    -fPIC  -march=pentium4 -O2 -fomit-frame-pointer -pipe
-Wall -c devPicTeX.c -o devPicTeX.o
i686-pc-linux-gnu-gcc -I../../../../include -I../../../../include
-I../../../include -I../../../../src/include -DHAVE_CONFIG_H
-I/usr/local/include    -fPIC  -march=pentium4 -O2 -fomit-frame-pointer -pipe
-Wall -c devPS.c -o devPS.o
i686-pc-linux-gnu-gcc -I../../../../include -I../../../../include
-I../../../include -I../../../../src/include -DHAVE_CONFIG_H
-I/usr/local/include    -fPIC  -march=pentium4 -O2 -fomit-frame-pointer -pipe
-Wall -c devQuartz.c -o devQuartz.o
i686-pc-linux-gnu-gcc -I../../../../include -I../../../../include
-I../../../include -I../../../../src/include -DHAVE_CONFIG_H
-I/usr/local/include    -fPIC  -march=pentium4 -O2 -fomit-frame-pointer -pipe
-Wall -c init.c -o init.o
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--sort-common
-Wl,-z,now -o grDevices.so chull.o devNull.o devPicTeX.o devPS.o devQuartz.o
init.o   -L../../../../lib -lR
mkdir -p -- ../../../../library/grDevices/libs
make[5]: Leaving directory
`/var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/src/library/grDevices/src'
make[4]: Leaving directory
`/var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/src/library/grDevices/src'
Error in solve.default(rgb) : lapack routines cannot be loaded
In addition: Warning message:
unable to load shared library
'/var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/modules//lapack.so':
  /var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/lib/libRlapack.so: undefined
symbol: _gfortran_concat_string
Error: unable to load R code in package 'grDevices'
Execution halted
make[3]: *** [all] Error 1
make[3]: Leaving directory
`/var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/src/library/grDevices'
make[2]: *** [R] Error 1
make[2]: Leaving directory
`/var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/src/library'
make[1]: *** [R] Error 1
make[1]: Leaving directory `/var/tmp/portage/dev-lang/R-2.4.0/work/R-2.4.0/src'
make: *** [R] Error 1

!!! ERROR: dev-lang/R-2.4.0 failed.
Call stack:
  ebuild.sh, line 1568:   Called dyn_compile
  ebuild.sh, line 937:   Called src_compile
  R-2.4.0.ebuild, line 76:   Called die

!!! emake failed
!!! If you need support, post the topmost build error, and the call stack if
relevant.

*** Bug 151909 has been marked as a duplicate of this bug. ***

Portage 2.1.2_pre3-r4 (default-linux/x86/2006.1, gcc-4.1.1, glibc-2.5-r0,
2.6.19-rc1-mm1-badram i686)
=================================================================
System uname: 2.6.19-rc1-mm1-badram i686 Intel(R) Pentium(R) 4 CPU 2.80GHz
Gentoo Base System version 1.12.5
Last Sync: Wed, 18 Oct 2006 17:50:01 +0000
distcc 2.18.3 i686-pc-linux-gnu (protocols 1 and 2) (default port 3632)
[disabled]
ccache version 2.4 [enabled]
app-admin/eselect-compiler: [Not Present]
dev-java/java-config: 1.3.7, 2.0.30
dev-lang/python:     2.4.3-r4, 2.5-r1
dev-python/pycrypto: 2.0.1-r5
dev-util/ccache:     2.4-r6
dev-util/confcache:  0.4.2-r1
sys-apps/sandbox:    1.2.18.1
sys-devel/autoconf:  2.13, 2.60
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
sys-devel/binutils:  2.17.50.0.5
sys-devel/gcc-config: 1.3.13-r4
sys-devel/libtool:   1.5.22
virtual/os-headers:  2.6.18
ACCEPT_KEYWORDS="x86 ~x86"
AUTOCLEAN="yes"
CBUILD="i686-pc-linux-gnu"
CFLAGS="-march=pentium4 -O2 -fomit-frame-pointer -pipe -Wall"
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/X11/xkb /usr/share/config"
CONFIG_PROTECT_MASK="/etc/env.d /etc/env.d/java/ /etc/gconf
/etc/java-config/vms/ /etc/revdep-rebuild /etc/splash /etc/terminfo
/etc/texmf/web2c"
CXXFLAGS="-march=pentium4 -O2 -fomit-frame-pointer -pipe -Wall"
DISTDIR="/usr/portage/distfiles"
FEATURES="autoconfig candy ccache collision-protect confcache distlocks
metadata-transfer nodoc noinfo parallel-fetch sandbox sfperms strict stricter
userpriv usersandbox"
GENTOO_MIRRORS="http://gentoo.blueyonder.co.uk"
LANG="en_GB"
LC_ALL="en_GB"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--sort-common -Wl,-z,now"
LINGUAS="en en_GB"
MAKEOPTS="-j2"
PKGDIR="/usr/portage/packages"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress
--force --whole-file --delete --delete-after --stats --timeout=180
--exclude=/distfiles --exclude=/local --exclude=/packages"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY="/usr/local/portage /home/chaza/devship/overlay
/usr/portage/local/layman/liquidx /usr/portage/local/layman/vmware
/usr/portage/local/layman/sunrise /usr/portage/local/layman/liquidx
/usr/portage/local/layman/vmware /usr/portage/local/layman/sunrise
/home/chaza/devship/overlay"
SYNC="rsync://rsync.europe.gentoo.org/gentoo-portage"
USE="x86 7zip X aac acl acpi alsa amd amuled ansi apache2 arts asf audacious
bash-completion bzip2 cap ccache cdda cddb cdinstall cdparanoia cdr cdrom cgi
chroot ck-plus cracklib crypt css cups curl curlwrappers dbus dhcp dillo dio
directfb djbfft dnd dri dv dvdread edl elibc_glibc encode erandom exif ext-png
ext-zlib extensions fastcgi fbcon fbsplash ffmpeg firefox flash fortify fortran
fpx geoip gif gimp gimpprint glibc-omitfp glitz glut gnuplot gpm graphviz gs
gsl gtk gtk2 hal hardenedphp hbci hdf iconv icq ide idl image imap imlib imlib2
infopipe ipv6 irda irmc j2ee jabber javacomm javamail javascript jbig jboss jce
jms jmx joystick jpeg jpeg2k jta jython kakasi kde kdehiddenvisibility
kdenewldflags kdexdeltas kerberos kernel_linux kqemu krb4 latex lcms leim
libclamav libdsk libgd libgda libsamplerate libwww linguas_en linguas_en_GB
live lua lzo lzw m17n-lib mad maildir matroska mbox migemo mime mixer mjpeg
mmap mmx mmxext mono mozcalendar mozdevelop mozsvg mozxmlterm mp3 mpeg mpi
mplayer msn mule multislot music mysql mysqli mythtv nagios-dns nagios-ntp
nagios-ping nagios-ssh ncurses net netcdf network neural nis nls no-old-linux
nomalloccheck nowin nptl nptlonly ntlm ntpl oav objc ocaml offensive ogg
oggvorbis openal opengl oscar ospfapi pam parse-clocks pcap pcntl pcre pdf perl
pertty pg-hier pg-intdatetime pg-vacuumdelay php physfs pic plotutils png
portaudio povray ppds pri print procmail python qa qt3 qt4 quicktime quotas
quotes readline real reiser4 reiserfs risky rogue rplay sdl seamonkey
semanticfix session sftplogging shared sharedmem slp smime sndfile snortsam
socks5 sox sse sse-filters sse2 ssl suspend2 svga symlink sysvipc szip tcltk
tcpd tga theora tidy tk transcode truetype uim unicode usb userland_GNU v4l
v4l2 vcd vda video_cards_i810 videos virus-scan vorbis wddx webdav wifi
win32codecs winbind wma wmf wxwindows xanim xchatdccserver xchattext xcomposite
xface xgetdefault xine xml xmlreader xmlrpc xmlwriter xmms xorg xosd xpm xprint
xrandr xscreensaver xsettings xv xvid xvmc yahoo yaz yp yv12 zaptel zeo zlib
zvbi"
Unset:  CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, PORTAGE_RSYNC_EXTRA_OPTS

(In reply to comment #2)
> LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--sort-common -Wl,-z,now"

Please try without the "-Wl,--as-needed".

Thanks,
Markus

(In reply to comment #3)
> Please try without the "-Wl,--as-needed".

It works without --as-needed

(In reply to comment #4)
> (In reply to comment #3)
> > Please try without the "-Wl,--as-needed".
> 
> It works without --as-needed
> 

Thanks for testing! I just committed a patch to portage cvs
that should take care of this. Please re-open the bug should
you continue to have problems with this.

Thanks,
Markus