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BioC 3.2: BUILD BIN report for TitanCNA on perceval

This page was generated on 2015-08-24 10:53:48 -0700 (Mon, 24 Aug 2015).

Package 1022/1071HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
TitanCNA 1.7.1
Gavin Ha , Sohrab P Shah
Snapshot Date: 2015-08-23 16:24:14 -0700 (Sun, 23 Aug 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/TitanCNA
Last Changed Rev: 105790 / Revision: 107696
Last Changed Date: 2015-07-03 11:16:29 -0700 (Fri, 03 Jul 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: TitanCNA
Version: 1.7.1
Command: rm -rf TitanCNA.buildbin-libdir && mkdir TitanCNA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh TitanCNA_1.7.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R TitanCNA.buildbin-libdir
StartedAt: 2015-08-24 07:22:07 -0700 (Mon, 24 Aug 2015)
EndedAt: 2015-08-24 07:22:26 -0700 (Mon, 24 Aug 2015)
EllapsedTime: 18.7 seconds
RetCode: 0
Status:  OK 
PackageFile: TitanCNA_1.7.1.tgz
PackageFileSize: 3.897 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf TitanCNA.buildbin-libdir && mkdir TitanCNA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh TitanCNA_1.7.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R TitanCNA.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=TitanCNA.buildbin-libdir TitanCNA_1.7.1.tar.gz'
>>>>>>> 

* installing *source* package ‘TitanCNA’ ...
** 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 -Wall  -c fwd_backC_clonalCN.c -o fwd_backC_clonalCN.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 -Wall  -c getPositionOverlapC.c -o getPositionOverlapC.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 -Wall  -c register.c -o register.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 -Wall  -c viterbiC_clonalCN.c -o viterbiC_clonalCN.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/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -L/usr/local/lib -o TitanCNA.so fwd_backC_clonalCN.o getPositionOverlapC.o register.o viterbiC_clonalCN.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/TitanCNA.buildbin-libdir/TitanCNA/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 (TitanCNA)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "TitanCNA.buildbin-libdir/TitanCNA/libs//TitanCNA.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.2.dylib" "TitanCNA.buildbin-libdir/TitanCNA/libs//TitanCNA.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "TitanCNA.buildbin-libdir/TitanCNA/libs//TitanCNA.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "TitanCNA.buildbin-libdir/TitanCNA/libs//TitanCNA.so"