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Package 136/514HostnameOS / ArchBUILDCHECKBUILD BIN
DiffBind 1.0.9
Rory Stark
Snapshot Date: 2012-03-23 18:21:46 -0700 (Fri, 23 Mar 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/DiffBind
Last Changed Rev: 64078 / Revision: 64395
Last Changed Date: 2012-03-18 15:19:15 -0700 (Sun, 18 Mar 2012)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK [ OK ]

Summary

Package: DiffBind
Version: 1.0.9
Command: rm -rf DiffBind.buildbin-libdir && mkdir DiffBind.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DiffBind_1.0.9.tar.gz /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R DiffBind.buildbin-libdir
StartedAt: 2012-03-24 05:13:05 -0700 (Sat, 24 Mar 2012)
EndedAt: 2012-03-24 05:14:26 -0700 (Sat, 24 Mar 2012)
EllapsedTime: 80.3 seconds
RetCode: 0
Status:  OK 
PackageFile: DiffBind_1.0.9.tgz
PackageFileSize: 1.888 MiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=DiffBind.buildbin-libdir DiffBind_1.0.9.tar.gz'
>>>>>>> 

* installing *source* package 'DiffBind' ...
** libs
*** arch - i386
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bam.cpp -o bam.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bamReader.cpp -o bamReader.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bamWriter.cpp -o bamWriter.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bed.cpp -o bed.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bedReader.cpp -o bedReader.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c croi_func.cpp -o croi_func.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c croi_main.cpp -o croi_main.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c interval.cpp -o interval.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalNode.cpp -o intervalNode.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalSet.cpp -o intervalSet.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalSetSplit.cpp -o intervalSetSplit.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalTree.cpp -o intervalTree.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalTreeSplit.cpp -o intervalTreeSplit.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -pedantic -c mergeOne.c -o mergeOne.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c reader.cpp -o reader.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c sequence.cpp -o sequence.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c util.cpp -o util.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c writer.cpp -o writer.o
g++ -arch i386 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o DiffBind.so bam.o bamReader.o bamWriter.o bed.o bedReader.o croi_func.o croi_main.o interval.o intervalNode.o intervalSet.o intervalSetSplit.o intervalTree.o intervalTreeSplit.o mergeOne.o reader.o sequence.o util.o writer.o /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/i386/libbam.a /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/i386/libbcf.a /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/i386/libtabix.a -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.9-bioc/meat/DiffBind.buildbin-libdir/DiffBind/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'DiffBind.Rnw' 
** testing if installed package can be loaded

* DONE (DiffBind)


>>>>>>> 
>>>>>>> FIXING LINKS FOR DiffBind.buildbin-libdir/DiffBind/libs/i386/DiffBind.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/i386/DiffBind.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/i386/DiffBind.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/i386/DiffBind.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/i386/DiffBind.so"


>>>>>>> 
>>>>>>> INSTALLATION OF ppc LIBS WITH 'R_ARCH=/ppc R CMD INSTALL --preclean --no-multiarch --no-test-load --library=DiffBind.buildbin-libdir --libs-only DiffBind_1.0.9.tar.gz'
>>>>>>> 

* installing *source* package 'DiffBind' ...
** libs
*** arch - ppc
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bam.cpp -o bam.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bamReader.cpp -o bamReader.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bamWriter.cpp -o bamWriter.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bed.cpp -o bed.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bedReader.cpp -o bedReader.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c croi_func.cpp -o croi_func.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c croi_main.cpp -o croi_main.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c interval.cpp -o interval.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalNode.cpp -o intervalNode.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalSet.cpp -o intervalSet.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalSetSplit.cpp -o intervalSetSplit.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalTree.cpp -o intervalTree.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalTreeSplit.cpp -o intervalTreeSplit.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -pedantic -c mergeOne.c -o mergeOne.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c reader.cpp -o reader.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c sequence.cpp -o sequence.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c util.cpp -o util.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c writer.cpp -o writer.o
g++ -arch ppc -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o DiffBind.so bam.o bamReader.o bamWriter.o bed.o bedReader.o croi_func.o croi_main.o interval.o intervalNode.o intervalSet.o intervalSetSplit.o intervalTree.o intervalTreeSplit.o mergeOne.o reader.o sequence.o util.o writer.o /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/ppc/libbam.a /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/ppc/libbcf.a /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/ppc/libtabix.a -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.9-bioc/meat/DiffBind.buildbin-libdir/DiffBind/libs/ppc

* DONE (DiffBind)


>>>>>>> 
>>>>>>> FIXING LINKS FOR DiffBind.buildbin-libdir/DiffBind/libs/ppc/DiffBind.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/ppc/DiffBind.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/ppc/DiffBind.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/ppc/DiffBind.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/ppc/DiffBind.so"


>>>>>>> 
>>>>>>> INSTALLATION OF x86_64 LIBS WITH 'R_ARCH=/x86_64 R CMD INSTALL --preclean --no-multiarch --no-test-load --library=DiffBind.buildbin-libdir --libs-only DiffBind_1.0.9.tar.gz'
>>>>>>> 

* installing *source* package 'DiffBind' ...
** libs
*** arch - x86_64
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bam.cpp -o bam.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bamReader.cpp -o bamReader.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bamWriter.cpp -o bamWriter.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bed.cpp -o bed.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c bedReader.cpp -o bedReader.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c croi_func.cpp -o croi_func.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c croi_main.cpp -o croi_main.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c interval.cpp -o interval.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalNode.cpp -o intervalNode.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalSet.cpp -o intervalSet.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalSetSplit.cpp -o intervalSetSplit.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalTree.cpp -o intervalTree.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c intervalTreeSplit.cpp -o intervalTreeSplit.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -pedantic -c mergeOne.c -o mergeOne.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c reader.cpp -o reader.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c sequence.cpp -o sequence.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c util.cpp -o util.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/include"   -fPIC  -g -O2 -Wall -fasm-blocks -c writer.cpp -o writer.o
g++ -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o DiffBind.so bam.o bamReader.o bamWriter.o bed.o bedReader.o croi_func.o croi_main.o interval.o intervalNode.o intervalSet.o intervalSetSplit.o intervalTree.o intervalTreeSplit.o mergeOne.o reader.o sequence.o util.o writer.o /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/x86_64/libbam.a /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/x86_64/libbcf.a /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rsamtools/usrlib/x86_64/libtabix.a -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.9-bioc/meat/DiffBind.buildbin-libdir/DiffBind/libs/x86_64

* DONE (DiffBind)


>>>>>>> 
>>>>>>> FIXING LINKS FOR DiffBind.buildbin-libdir/DiffBind/libs/x86_64/DiffBind.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/x86_64/DiffBind.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/x86_64/DiffBind.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/x86_64/DiffBind.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "DiffBind.buildbin-libdir/DiffBind/libs/x86_64/DiffBind.so"