Attachment 372213 Details for Bug 539214 – build.log

build.log

build.log (text/plain), 7.98 KB, created by FTBFS on 2009-11-19 17:16:58 UTC

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Creator: FTBFS

Created: 2009-11-19 17:16:58 UTC

Size: 7.98 KB

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obsolete

>Mock Version: 0.9.19
>ENTER do(['bash', '--login', '-c', 'rpmbuild -bs --target x86_64 --nodeps builddir/build/SPECS/R-affy.spec'], False, '/var/lib/mock/fedora-development-x86_64-R-affy-1.22.1-3.fc12.src.rpm/root/', None, 21600, True, 0, 8116, 14667, None, logger=<mock.trace_decorator.getLog object at 0x1853890>)
>Executing command: ['bash', '--login', '-c', 'rpmbuild -bs --target x86_64 --nodeps builddir/build/SPECS/R-affy.spec']
>Building target platforms: x86_64
>Building for target x86_64
>Wrote: /builddir/build/SRPMS/R-affy-1.22.1-3.fc13.src.rpm
>Child returncode was: 0
>LEAVE do --> 
>
>ENTER do(['bash', '--login', '-c', 'rpmbuild -bb --target x86_64 --nodeps builddir/build/SPECS/R-affy.spec'], False, '/var/lib/mock/fedora-development-x86_64-R-affy-1.22.1-3.fc12.src.rpm/root/', None, 21600, True, 0, 8116, 14667, None, logger=<mock.trace_decorator.getLog object at 0x1853890>)
>Executing command: ['bash', '--login', '-c', 'rpmbuild -bb --target x86_64 --nodeps builddir/build/SPECS/R-affy.spec']
>Building target platforms: x86_64
>Building for target x86_64
>Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.dXnBQI
>+ umask 022
>+ cd /builddir/build/BUILD
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ cd /builddir/build/BUILD
>+ rm -rf affy
>+ /bin/mkdir -p affy
>+ cd affy
>+ /usr/bin/gzip -dc /builddir/build/SOURCES/affy_1.22.1.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.c2ryO4
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd affy
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ exit 0
>Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.mnxrNq
>+ umask 022
>+ cd /builddir/build/BUILD
>+ '[' /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64 '!=' / ']'
>+ rm -rf /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64
>++ dirname /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64
>+ mkdir -p /builddir/build/BUILDROOT
>+ mkdir /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64
>+ cd affy
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ rm -rf /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64
>+ mkdir -p /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library
>+ R CMD INSTALL affy -l /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library
>* installing *source* package 'affy' ...
>creating cache ./config.cache
>checking how to run the C preprocessor... cc -E
>checking for main in -lz... yes
>checking for zlib.h... yes
>checking if zlib version >= 1.1.3... yes
>updating cache ./config.cache
>creating ./config.status
>creating src/Makevars
>** libs
>gcc -m64 -std=gnu99 -I/usr/include/R -DHAVE_ZLIB=1  -I/usr/local/include -I"/usr/lib64/R/library/preprocessCore/include"   -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c chipbackground.c -o chipbackground.o
>gcc -m64 -std=gnu99 -I/usr/include/R -DHAVE_ZLIB=1  -I/usr/local/include -I"/usr/lib64/R/library/preprocessCore/include"   -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c getall_locations.c -o getall_locations.o
>gcc -m64 -std=gnu99 -I/usr/include/R -DHAVE_ZLIB=1  -I/usr/local/include -I"/usr/lib64/R/library/preprocessCore/include"   -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c mas5calls.c -o mas5calls.o
>gcc -m64 -std=gnu99 -I/usr/include/R -DHAVE_ZLIB=1  -I/usr/local/include -I"/usr/lib64/R/library/preprocessCore/include"   -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c rma2.c -o rma2.o
>gcc -m64 -std=gnu99 -I/usr/include/R -DHAVE_ZLIB=1  -I/usr/local/include -I"/usr/lib64/R/library/preprocessCore/include"   -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c rma_common.c -o rma_common.o
>gcc -m64 -std=gnu99 -shared -L/usr/local/lib64 -o affy.so chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -lz -L/usr/lib64/R/lib -lR
>** R
>** data
>** demo
>** inst
>** preparing package for lazy loading
>Warning: package 'Biobase' was built under R version 2.9.1 and help may not work correctly
>Welcome to Bioconductor
>  Vignettes contain introductory material. To view, type
>  'openVignette()'. To cite Bioconductor, see
>  'citation("Biobase")' and for packages 'citation(pkgname)'.
>Creating a new generic function for "open" in "affy"
>Creating a new generic function for "close" in "affy"
>Creating a new generic function for "colnames" in "affy"
>Creating a new generic function for "barplot" in "affy"
>** help
>Warning: ./man/AffyBatch-class.Rd:123: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:126: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:129: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:133: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:135: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:137: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:139: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:153: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:155: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:157: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:159: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:161: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:163: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:164: unknown macro '\item'
>Warning: ./man/AffyBatch-class.Rd:166: unknown macro '\item'
>*** installing help indices
>** building package indices ...
>* DONE (affy)
>+ test -d affy/src
>+ cd affy/src
>+ rm -f chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o affy.so
>+ rm -rf /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/R.css
>+ /usr/lib/rpm/find-debuginfo.sh --strict-build-id /builddir/build/BUILD/affy
>extracting debug info from /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/libs/affy.so
>82 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.ySD9F7
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd affy
>+ unset DISPLAY
>+ exit 0
>Processing files: R-affy-1.22.1-3.fc13.x86_64
>RPM build errors:
>error: File not found: /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/latex
>error: File not found: /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/man
>error: File not found: /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/CONTENTS
>error: File not found: /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/R-ex
>    File not found: /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/latex
>    File not found: /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/man
>    File not found: /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/CONTENTS
>    File not found: /builddir/build/BUILDROOT/R-affy-1.22.1-3.fc13.x86_64/usr/lib64/R/library/affy/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-affy.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-affy.spec']
>LEAVE do --> EXCEPTION RAISED
>

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Attachments on bug 539214: 372209 | 372210 | 372211 | 372212 | 372213 | 372214