Attachment 371446 Details for Bug 539068 – build.log

build.log

build.log (text/plain), 21.74 KB, created by FTBFS on 2009-11-19 16:40:11 UTC

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Created: 2009-11-19 16:40:11 UTC

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patch

obsolete

>Mock Version: 0.9.19
>ENTER do(['bash', '--login', '-c', 'rpmbuild -bs --target i386 --nodeps builddir/build/SPECS/R-BufferedMatrix.spec'], False, '/var/lib/mock/fedora-development-i386-R-BufferedMatrix-1.8.0-2.fc12.src.rpm/root/', None, 21600, True, 0, 8116, 14667, None, logger=<mock.trace_decorator.getLog object at 0x25888d0>)
>Executing command: ['bash', '--login', '-c', 'rpmbuild -bs --target i386 --nodeps builddir/build/SPECS/R-BufferedMatrix.spec']
>Building target platforms: i386
>Building for target i386
>Wrote: /builddir/build/SRPMS/R-BufferedMatrix-1.8.0-2.fc13.src.rpm
>Child returncode was: 0
>LEAVE do --> 
>
>ENTER do(['bash', '--login', '-c', 'rpmbuild -bb --target i386 --nodeps builddir/build/SPECS/R-BufferedMatrix.spec'], False, '/var/lib/mock/fedora-development-i386-R-BufferedMatrix-1.8.0-2.fc12.src.rpm/root/', None, 21600, True, 0, 8116, 14667, None, logger=<mock.trace_decorator.getLog object at 0x25888d0>)
>Executing command: ['bash', '--login', '-c', 'rpmbuild -bb --target i386 --nodeps builddir/build/SPECS/R-BufferedMatrix.spec']
>Building target platforms: i386
>Building for target i386
>Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.FLNEEU
>+ umask 022
>+ cd /builddir/build/BUILD
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ cd /builddir/build/BUILD
>+ rm -rf BufferedMatrix
>+ /bin/mkdir -p BufferedMatrix
>+ cd BufferedMatrix
>+ /usr/bin/gzip -dc /builddir/build/SOURCES/BufferedMatrix_1.8.0.tar.gz
>+ /bin/tar -xf -
>+ STATUS=0
>+ '[' 0 -ne 0 ']'
>+ /bin/chmod -Rf a+rX,u+w,g-w,o-w .
>Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.glJjyZ
>+ exit 0
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd BufferedMatrix
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ exit 0
>Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.esWOu4
>+ umask 022
>+ cd /builddir/build/BUILD
>+ '[' /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386 '!=' / ']'
>+ rm -rf /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386
>++ dirname /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386
>+ mkdir -p /builddir/build/BUILDROOT
>+ mkdir /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386
>+ cd BufferedMatrix
>+ LANG=C
>+ export LANG
>+ unset DISPLAY
>+ rm -rf /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386i
>+ sed -i -e 's/\r$//' BufferedMatrix/inst/doc/BufferedMatrix.Rnw
>+ mkdir -p /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library
>+ /usr/bin/R CMD INSTALL -l /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library BufferedMatrix
>* installing *source* package 'BufferedMatrix' ...
>** libs
>gcc -m32 -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 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -c RBufferedMatrix.c -o RBufferedMatrix.o
>gcc -m32 -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 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -c doubleBufferedMatrix.c -o doubleBufferedMatrix.o
>doubleBufferedMatrix.c: In function 'dbm_ReadOnlyMode':
>doubleBufferedMatrix.c:1580: warning: suggest parentheses around operand of '!' or change '&' to '&&' or '!' to '~'
>doubleBufferedMatrix.c: At top level:
>doubleBufferedMatrix.c:3327: warning: 'sort_double' defined but not used
>gcc -m32 -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 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -c doubleBufferedMatrix_C_tests.c -o doubleBufferedMatrix_C_tests.o
>gcc -m32 -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 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -c init_package.c -o init_package.o
>gcc -m32 -std=gnu99 -shared -L/usr/local/lib -o BufferedMatrix.so RBufferedMatrix.o doubleBufferedMatrix.o doubleBufferedMatrix_C_tests.o init_package.o -L/usr/lib/R/lib -lR
>** R
>** inst
>** preparing package for lazy loading
>Creating a generic for "rowMeans" in package "BufferedMatrix"
>    (the supplied definition differs from and overrides the implicit generic
>    in package "base": Formal arguments differ (in default values?))
>Creating a generic for "rowSums" in package "BufferedMatrix"
>    (the supplied definition differs from and overrides the implicit generic
>    in package "base": Formal arguments differ (in default values?))
>Creating a generic for "colMeans" in package "BufferedMatrix"
>    (the supplied definition differs from and overrides the implicit generic
>    in package "base": Formal arguments differ (in default values?))
>Creating a generic for "colSums" in package "BufferedMatrix"
>    (the supplied definition differs from and overrides the implicit generic
>    in package "base": Formal arguments differ (in default values?))
>Creating a new generic function for "ncol" in "BufferedMatrix"
>Creating a new generic function for "nrow" in "BufferedMatrix"
>Creating a new generic function for "mean" in "BufferedMatrix"
>Creating a new generic function for "as.matrix" in "BufferedMatrix"
>** help
>*** installing help indices
>** building package indices ...
>* DONE (BufferedMatrix)
>+ test -d BufferedMatrix/src
>+ cd BufferedMatrix/src
>+ rm -f RBufferedMatrix.o doubleBufferedMatrix.o doubleBufferedMatrix_C_tests.o init_package.o BufferedMatrix.so
>+ rm -rf /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/R.css
>+ /usr/lib/rpm/find-debuginfo.sh --strict-build-id /builddir/build/BUILD/BufferedMatrix
>extracting debug info from /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/libs/BufferedMatrix.so
>289 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.gCO8NO
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd BufferedMatrix
>+ unset DISPLAY
>+ /usr/bin/R CMD check BufferedMatrix
>* checking for working pdflatex ...kpathsea: Running mktexfmt pdflatex.fmt
>fmtutil: running `pdftex -ini   -jobname=pdflatex -progname=pdflatex -translate-file=cp227.tcx *pdflatex.ini' ...
>This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) (INITEX)
> %&-line parsing enabled.
> (/usr/share/texmf/web2c/cp227.tcx)
>entering extended mode
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>(/usr/share/texmf/tex/latex/base/latex.ltx
>(/usr/share/texmf/tex/latex/base/texsys.cfg)
>./texsys.aux found
>\@currdir set to: ./.
>Assuming \openin and \input 
>have the same search path.
>Defining UNIX/DOS style filename parser.
>catcodes, registers, compatibility for TeX 2,  parameters,
>LaTeX2e <2005/12/01>
>hacks, control, par, spacing, files, font encodings, lengths,
>====================================
>Local config file fonttext.cfg used
>====================================
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>=== Don't modify this file, use a .cfg file instead ===
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>(/usr/share/texmf/tex/latex/base/ot1cmr.fd)
>(/usr/share/texmf/tex/latex/base/ot1cmss.fd)
>(/usr/share/texmf/tex/latex/base/ot1cmtt.fd)))
>====================================
>Local config file fontmath.cfg used
>====================================
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>(/usr/share/texmf/tex/latex/base/fontmath.ltx
>=== Don't modify this file, use a .cfg file instead ===
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>(/usr/share/texmf/tex/latex/base/omxcmex.fd)
>(/usr/share/texmf/tex/latex/base/ucmr.fd)))
>====================================
>Local config file preload.cfg used
>=====================================
>(/usr/share/texmf/tex/latex/base/preload.cfg
>(/usr/share/texmf/tex/latex/base/preload.ltx)) page nos., x-ref, environments,
>center, verbatim, math definitions, boxes, title, sectioning, contents,
>floats, footnotes, index, bibliography, output,
>===========================================
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>===========================================
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-bahyph.tex
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-bghyphen.tex
>(/usr/share/texmf/tex/generic/bghyphen/bghyphen.tex
>Bulgarian hyphenation patterns
>(/usr/share/texmf/tex/generic/bghyphen/catmik.tex)
>(/usr/share/texmf/tex/generic/bghyphen/mik2t2.tex)
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>(/usr/share/texmf/tex/csplain/base/t1code.tex Font encoding set to Cork.)
>The \^, \`, \', \v, \" and \r expands to characters by Cork.
>(/usr/share/texmf/tex/csplain/base/czhyphen.tex)))
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>(/usr/share/texmf/tex/generic/hyphen/skhyph.tex
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-dehypht.tex
>(/usr/share/texmf/tex/generic/hyphen/dehypht.tex
>German Traditional Hyphenation Patterns `dehypht' Version 3.2a <1999/03/03>
>(Formerly known under the name `ghyph31' and `ghyphen'.)))
>(/usr/share/texmf/tex/generic/xu-hyphen/xu-dehyphn.tex
>(/usr/share/texmf/tex/generic/hyphen/dehyphn.tex
>New German Hyphenation Patterns `dehyphn' Rev.31 <2001-05-07> (WaS)))
>(/usr/share/texmf/tex/generic/hyphen/dkhyph.tex
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>(/usr/share/texmf/tex/generic/hyphen/eohyph.tex
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-eshyph.tex
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>(/usr/share/texmf/tex/generic/hyphen/cahyph.tex
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>frhyph.tex - French hyphenation patterns (V2.12) <2002/12/11>))
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-grmhyph4.tex
>(/usr/share/texmf/tex/generic/hyphen/grmhyph4.tex
>Hyphenation patterns for uni-accent (monotonic) Modern Greek))
>(/usr/share/texmf/tex/generic/xu-hyphen/xu-grahyph4.tex
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-hrhyph.tex
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>Greek hyphenation patterns for Ibycus 4)
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>(/usr/share/texmf/tex/generic/hyphen/ithyph.tex)
>(/usr/share/texmf/tex/generic/xu-hyphen/xu-lahyph.tex
>(/usr/share/texmf/tex/generic/hyphen/lahyph.tex
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-mnhyph.tex
>(/usr/share/texmf/tex/generic/hyphen/mnhyph.tex
>mnhyphen.tex - Hyphenation Patterns for Xalx Mongolian, LMC Encoding))
>(/usr/share/texmf/tex/generic/hyphen/nehyph96.tex)
>(/usr/share/texmf/tex/generic/xu-hyphen/xu-nohyphbx.tex
>(/usr/share/texmf/tex/generic/hyphen/nohyphbx.tex
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-plhyph.tex
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>(/usr/share/texmf/tex/generic/hyphen/pthyph.tex
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-pyhyph.tex
>(/usr/share/texmf/tex/generic/hyphen/pyhyph.tex
>Hyphenation patterns for unaccented pinyin syllables (CJK 4.7.0)))
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-sorhyph.tex
>(/usr/share/texmf/tex/generic/hyphen/sorhyph.tex
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>(/usr/share/texmf/tex/generic/hyphen/svhyph.tex
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>(/usr/share/texmf/tex/generic/hyphen/tkhyph.tex
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>(/usr/share/texmf/tex/generic/xu-hyphen/xu-ukrhyph.tex
>(/usr/share/texmf/tex/generic/ukrhyph/ukrhyph.tex
>Ukrainian hyphenation patterns in t2a encoding
>(/usr/share/texmf/tex/generic/ukrhyph/catlcy.tex)
>(/usr/share/texmf/tex/generic/ukrhyph/lcy2t2a.tex)
>(/usr/share/texmf/tex/generic/ukrhyph/ukrhypmp.tex)
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>=================================
>Applying patch file ltpatch.ltx
>=================================
>(/usr/share/texmf/tex/latex/base/ltpatch.ltx)
> ) )
>Beginning to dump on file pdflatex.fmt
> (format=pdflatex 2009.11.18)
>5927 strings of total length 82929
>47930 memory locations dumped; current usage is 144&43637
>3390 multiletter control sequences
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>No pages of output.
>Transcript written on pdflatex.log.
>fmtutil: /builddir/.texlive2007/texmf-var/web2c/pdftex/pdflatex.fmt installed.
> OK
>* using log directory '/builddir/build/BUILD/BufferedMatrix/BufferedMatrix.Rcheck'
>* using R version 2.10.0 (2009-10-26)
>* using session charset: UTF-8
>* checking for file 'BufferedMatrix/DESCRIPTION' ... OK
>* this is package 'BufferedMatrix' version '1.8.0'
>* checking package name space information ... OK
>* checking package dependencies ... OK
>* checking if this is a source package ... OK
>* checking for executable files ... OK
>* checking whether package 'BufferedMatrix' can be installed ... OK
>* checking package directory ... OK
>* checking for portable file names ... OK
>* checking for sufficient/correct file permissions ... OK
>* checking DESCRIPTION meta-information ... OK
>* checking top-level files ... OK
>* checking index information ... OK
>* checking package subdirectories ... OK
>* checking R files for non-ASCII characters ... OK
>* checking R files for syntax errors ... OK
>* checking whether the package can be loaded ... OK
>* checking whether the package can be loaded with stated dependencies ... OK
>* checking whether the name space can be loaded with stated dependencies ... OK
>* checking for unstated dependencies in R code ... OK
>* checking S3 generic/method consistency ... OK
>* checking replacement functions ... OK
>* checking foreign function calls ... OK
>* checking R code for possible problems ... OK
>* checking Rd files ... NOTE
>prepare_Rd: createBufferedMatrix.Rd:26: Dropping empty section \keyword
>prepare_Rd: createBufferedMatrix.Rd:17-18: Dropping empty section \details
>prepare_Rd: createBufferedMatrix.Rd:15-16: Dropping empty section \value
>prepare_Rd: createBufferedMatrix.Rd:19-20: Dropping empty section \references
>prepare_Rd: createBufferedMatrix.Rd:21-22: Dropping empty section \seealso
>prepare_Rd: createBufferedMatrix.Rd:23-24: Dropping empty section \examples
>* checking Rd metadata ... OK
>* checking Rd cross-references ... WARNING
>Warning: unable to access index for repository http://cran.r-project.org/src/contrib
>Warning: unable to access index for repository http://www.omegahat.org/R/src/contrib
>Warning: unable to access index for repository http://www.bioconductor.org/packages/2.5/bioc/src/contrib
>Warning: unable to access index for repository http://www.bioconductor.org/packages/2.5/data/annotation/src/contrib
>Warning: unable to access index for repository http://www.bioconductor.org/packages/2.5/data/experiment/src/contrib
>Unknown package(s) âBufferedMatrix-classâ in Rd xrefs
>* checking for missing documentation entries ... OK
>* checking for code/documentation mismatches ... OK
>* checking Rd \usage sections ... OK
>* checking line endings in C/C++/Fortran sources/headers ... OK
>* checking line endings in Makefiles ... OK
>* checking for portable use of $BLAS_LIBS ... OK
>* checking examples ... NONE
>* checking tests ...
>  Running âc_code_level_tests.Râ
>  Running âobjectTesting.Râ
>  Running ârawCalltesting.Râ
>  Running âRcodetesting.Râ
> OK
>* checking package vignettes in 'inst/doc' ...sh: texi2dvi: command not found
> OK
>* checking PDF version of manual ... OK
>WARNING: There was 1 warning, see
>  /builddir/build/BUILD/BufferedMatrix/BufferedMatrix.Rcheck/00check.log
>for details
>+ exit 0
>Processing files: R-BufferedMatrix-1.8.0-2.fc13.i386
>error: File not found: /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/CONTENTS
>error: File not found: /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/R-ex
>error: File not found: /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/man
>error: File not found: /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/latex
>RPM build errors:
>    File not found: /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/CONTENTS
>    File not found: /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/R-ex
>    File not found: /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/man
>    File not found: /builddir/build/BUILDROOT/R-BufferedMatrix-1.8.0-2.fc13.i386/usr/lib/R/library/BufferedMatrix/latex
>Child returncode was: 1
>EXCEPTION: Command failed. See logs for output.
> # ['bash', '--login', '-c', 'rpmbuild -bb --target i386 --nodeps builddir/build/SPECS/R-BufferedMatrix.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 i386 --nodeps builddir/build/SPECS/R-BufferedMatrix.spec']
>LEAVE do --> EXCEPTION RAISED
>

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Attachments on bug 539068: 371445 | 371446 | 371447 | 371448 | 371449 | 371450