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BioC 2.12: BUILD BIN report for hapFabia on petty

This page was generated on 2013-10-09 09:40:14 -0700 (Wed, 09 Oct 2013).

Package 307/671HostnameOS / ArchBUILDCHECKBUILD BIN
hapFabia 1.2.2
Sepp Hochreiter
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/hapFabia
Last Changed Rev: 77740 / Revision: 81334
Last Changed Date: 2013-06-19 22:40:09 -0700 (Wed, 19 Jun 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK [ OK ]

Summary

Package: hapFabia
Version: 1.2.2
Command: rm -rf hapFabia.buildbin-libdir && mkdir hapFabia.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh hapFabia_1.2.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R hapFabia.buildbin-libdir
StartedAt: 2013-10-09 00:56:05 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 00:56:39 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 33.3 seconds
RetCode: 0
Status:  OK 
PackageFile: hapFabia_1.2.2.tgz
PackageFileSize: 1.635 MiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=hapFabia.buildbin-libdir hapFabia_1.2.2.tar.gz'
>>>>>>> 

* installing *source* package 'hapFabia' ...
rmdir: inst/commandLine/i386: No such file or directory
rmdir: inst/commandLine/x86_64: No such file or directory
rmdir: inst/commandLine/ppc: No such file or directory
rmdir: inst/commandLine/ppc64: No such file or directory
rmdir: inst/commandLine: No such file or directory
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c interfaceR.c -o interfaceR.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c split_sparse_matrixB.c -o split_sparse_matrixB.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c vcftoFABIAB.c -o vcftoFABIAB.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o hapFabia.so interfaceR.o split_sparse_matrixB.o vcftoFABIAB.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -c ./commandLine/split_sparse_matrix.c -o ./commandLine/split_sparse_matrix.o -mtune=core2 -g -O2 
./commandLine/split_sparse_matrix.c: In function 'Rprintf':
./commandLine/split_sparse_matrix.c:9: warning: format not a string literal and no format arguments
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -c split_sparse_matrixB.c -o ./commandLine/split_sparse_matrixB.o -mtune=core2 -g -O2 
llvm-gcc-4.2 -arch x86_64 -std=gnu99 ./commandLine/split_sparse_matrix.o ./commandLine/split_sparse_matrixB.o -o ./commandLine/split_sparse_matrix
mv ./commandLine/split_sparse_matrix ../inst/commandLine/
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -c ./commandLine/vcftoFABIA.c -o ./commandLine/vcftoFABIA.o -mtune=core2 -g -O2 
./commandLine/vcftoFABIA.c: In function 'Rprintf':
./commandLine/vcftoFABIA.c:10: warning: format not a string literal and no format arguments
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -c vcftoFABIAB.c -o ./commandLine/vcftoFABIAB.o -mtune=core2 -g -O2 
llvm-gcc-4.2 -arch x86_64 -std=gnu99 ./commandLine/vcftoFABIA.o ./commandLine/vcftoFABIAB.o -o ./commandLine/vcftoFABIA
mv ./commandLine/vcftoFABIA ../inst/commandLine/
installing to /Users/biocbuild/bbs-2.12-bioc/meat/hapFabia.buildbin-libdir/hapFabia/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (hapFabia)


>>>>>>> 
>>>>>>> FIXING LINKS FOR hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgcc_s.1.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.5.2.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"