Attachment 371604 Details for Bug 539097 – build.log

build.log

build.log (text/plain), 14.57 KB, created by FTBFS on 2009-11-19 16:46:59 UTC

(hide)

Description:

Filename:

MIME Type:

Creator: FTBFS

Created: 2009-11-19 16:46:59 UTC

Size: 14.57 KB

patch

obsolete

>Mock Version: 0.9.19
>ENTER do(['bash', '--login', '-c', 'rpmbuild -bs --target x86_64 --nodeps builddir/build/SPECS/R-qtl.spec'], False, '/var/lib/mock/fedora-development-x86_64-R-qtl-1.14.2-1.fc13.src.rpm/root/', None, 21600, True, 0, 8116, 14667, None, logger=<mock.trace_decorator.getLog object at 0x1829890>)
>Executing command: ['bash', '--login', '-c', 'rpmbuild -bs --target x86_64 --nodeps builddir/build/SPECS/R-qtl.spec']
>Building target platforms: x86_64
>Building for target x86_64
>Wrote: /builddir/build/SRPMS/R-qtl-1.14.2-1.fc13.src.rpm
>Child returncode was: 0
>LEAVE do --> 
>
>ENTER do(['bash', '--login', '-c', 'rpmbuild -bb --target x86_64 --nodeps builddir/build/SPECS/R-qtl.spec'], False, '/var/lib/mock/fedora-development-x86_64-R-qtl-1.14.2-1.fc13.src.rpm/root/', None, 21600, True, 0, 8116, 14667, None, logger=<mock.trace_decorator.getLog object at 0x1829890>)
>Executing command: ['bash', '--login', '-c', 'rpmbuild -bb --target x86_64 --nodeps builddir/build/SPECS/R-qtl.spec']
>Building target platforms: x86_64
>Building for target x86_64
>Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.1zh1vc
>+ umask 022
>+ cd /builddir/build/BUILD
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ cd /builddir/build/BUILD
>+ rm -rf qtl
>+ /bin/mkdir -p qtl
>+ cd qtl
>+ /usr/bin/gzip -dc /builddir/build/SOURCES/qtl_1.14-2.tar.gz
>+ /bin/tar -xf -
>+ STATUS=0
>+ '[' 0 -ne 0 ']'
>+ /bin/chmod -Rf a+rX,u+w,g-w,o-w .
>+ exit 0
>Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.HREOjn
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd qtl
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ exit 0
>Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.EWw7by
>+ umask 022
>+ cd /builddir/build/BUILD
>+ '[' /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64 '!=' / ']'
>+ rm -rf /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64
>++ dirname /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64
>+ mkdir -p /builddir/build/BUILDROOT
>+ mkdir /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64
>+ cd qtl
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ rm -rf /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64
>+ mkdir -p /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library
>+ R CMD INSTALL qtl -l /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library
>* installing *source* package 'qtl' ...
>** libs
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c countXO.c -o countXO.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c discan.c -o discan.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c discan_covar.c -o discan_covar.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c effectscan.c -o effectscan.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c findDupMarkers_notexact.c -o findDupMarkers_notexact.o
>findDupMarkers_notexact.c: In function 'findDupMarkers_notexact':
>findDupMarkers_notexact.c:60: warning: unused variable 'nna'
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c fitqtl_hk.c -o fitqtl_hk.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c fitqtl_imp.c -o fitqtl_imp.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c forwsel.c -o forwsel.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_4way.c -o hmm_4way.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_bc.c -o hmm_bc.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_bci.c -o hmm_bci.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_f2.c -o hmm_f2.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_f2i.c -o hmm_f2i.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_main.c -o hmm_main.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_ri4self.c -o hmm_ri4self.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_ri4sib.c -o hmm_ri4sib.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_ri8self.c -o hmm_ri8self.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c hmm_ri8sib.c -o hmm_ri8sib.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c info.c -o info.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c lapackutil.c -o lapackutil.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c ril48_reorg.c -o ril48_reorg.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c ripple.c -o ripple.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scanone_ehk.c -o scanone_ehk.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scanone_em.c -o scanone_em.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scanone_em_covar.c -o scanone_em_covar.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scanone_hk.c -o scanone_hk.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scanone_imp.c -o scanone_imp.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scanone_mr.c -o scanone_mr.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scanone_np.c -o scanone_np.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scantwo_binary_em.c -o scantwo_binary_em.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scantwo_em.c -o scantwo_em.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scantwo_hk.c -o scantwo_hk.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scantwo_imp.c -o scantwo_imp.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c scantwo_mr.c -o scantwo_mr.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c simulate.c -o simulate.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c simulate_ril.c -o simulate_ril.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c stahl_mf.c -o stahl_mf.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c summary_scantwo.c -o summary_scantwo.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c util.c -o util.o
>gcc -m64 -std=gnu99 -I/usr/include/R  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c vbscan.c -o vbscan.o
>gcc -m64 -std=gnu99 -shared -L/usr/local/lib64 -o qtl.so countXO.o discan.o discan_covar.o effectscan.o findDupMarkers_notexact.o fitqtl_hk.o fitqtl_imp.o forwsel.o hmm_4way.o hmm_bc.o hmm_bci.o hmm_f2.o hmm_f2i.o hmm_main.o hmm_ri4self.o hmm_ri4sib.o hmm_ri8self.o hmm_ri8sib.o info.o lapackutil.o ril48_reorg.o ripple.o scanone_ehk.o scanone_em.o scanone_em_covar.o scanone_hk.o scanone_imp.o scanone_mr.o scanone_np.o scantwo_binary_em.o scantwo_em.o scantwo_hk.o scantwo_imp.o scantwo_mr.o simulate.o simulate_ril.o stahl_mf.o summary_scantwo.o util.o vbscan.o -L/usr/lib64/R/lib -lRlapack -L/usr/lib64/R/lib -lRblas -lgfortran -lm -L/usr/lib64/R/lib -lR
>** R
>** data
>** inst
>** preparing package for lazy loading
>** help
>*** installing help indices
>** building package indices ...
>* DONE (qtl)
>+ test -d qtl/src
>+ cd qtl/src
>+ rm -f countXO.o discan.o discan_covar.o effectscan.o findDupMarkers_notexact.o fitqtl_hk.o fitqtl_imp.o forwsel.o hmm_4way.o hmm_bc.o hmm_bci.o hmm_f2.o hmm_f2i.o hmm_main.o hmm_ri4self.o hmm_ri4sib.o hmm_ri8self.o hmm_ri8sib.o info.o lapackutil.o ril48_reorg.o ripple.o scanone_ehk.o scanone_em.o scanone_em_covar.o scanone_hk.o scanone_imp.o scanone_mr.o scanone_np.o scantwo_binary_em.o scantwo_em.o scantwo_hk.o scantwo_imp.o scantwo_mr.o simulate.o simulate_ril.o stahl_mf.o summary_scantwo.o util.o vbscan.o qtl.so
>+ rm -rf /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/R.css
>+ /usr/lib/rpm/find-debuginfo.sh --strict-build-id /builddir/build/BUILD/qtl
>extracting debug info from /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/libs/qtl.so
>952 blocks
>+ /usr/lib/rpm/check-buildroot
>+ /usr/lib/rpm/redhat/brp-compress
>+ /usr/lib/rpm/redhat/brp-strip-static-archive /usr/bin/strip
>+ /usr/lib/rpm/redhat/brp-strip-comment-note /usr/bin/strip /usr/bin/objdump
>+ /usr/lib/rpm/brp-python-bytecompile
>+ /usr/lib/rpm/redhat/brp-python-hardlink
>+ /usr/lib/rpm/redhat/brp-java-repack-jars
>Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.UB6SgN
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd qtl
>+ unset DISPLAY
>+ exit 0
>Processing files: R-qtl-1.14.2-1.fc13.x86_64
>RPM build errors:
>error: File not found: /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/latex
>error: File not found: /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/man
>error: File not found: /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/CONTENTS
>error: File not found: /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/R-ex
>    File not found: /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/latex
>    File not found: /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/man
>    File not found: /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/CONTENTS
>    File not found: /builddir/build/BUILDROOT/R-qtl-1.14.2-1.fc13.x86_64/usr/lib64/R/library/qtl/R-ex
>Child returncode was: 1
>EXCEPTION: Command failed. See logs for output.
> # ['bash', '--login', '-c', 'rpmbuild -bb --target x86_64 --nodeps builddir/build/SPECS/R-qtl.spec']
>Traceback (most recent call last):
>  File "/usr/lib/python2.6/site-packages/mock/trace_decorator.py", line 70, in trace
>    result = func(*args, **kw)
>  File "/usr/lib/python2.6/site-packages/mock/util.py", line 324, in do
>    raise mock.exception.Error, ("Command failed. See logs for output.\n # %s" % (command,), child.returncode)
>Error: Command failed. See logs for output.
> # ['bash', '--login', '-c', 'rpmbuild -bb --target x86_64 --nodeps builddir/build/SPECS/R-qtl.spec']
>LEAVE do --> EXCEPTION RAISED
>

Actions: View

Attachments on bug 539097: 371600 | 371601 | 371602 | 371603 | 371604 | 371605