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Package 258/609HostnameOS / ArchBUILDCHECKBUILD BIN
girafe 1.10.1
J. Toedling
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/girafe
Last Changed Rev: 74335 / Revision: 74773
Last Changed Date: 2013-03-14 09:51:18 -0700 (Thu, 14 Mar 2013)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  WARNINGS 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  WARNINGS  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  WARNINGS [ OK ]

Summary

Package: girafe
Version: 1.10.1
Command: rm -rf girafe.buildbin-libdir && mkdir girafe.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh girafe_1.10.1.tar.gz /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R girafe.buildbin-libdir
StartedAt: 2013-03-25 01:54:09 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 01:54:39 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 29.2 seconds
RetCode: 0
Status:  OK 
PackageFile: girafe_1.10.1.tgz
PackageFileSize: 1.547 MiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=girafe.buildbin-libdir girafe_1.10.1.tar.gz'
>>>>>>> 

* installing *source* package 'girafe' ...
** libs
*** arch - i386
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -fasm-blocks  -c coverage.cpp -o coverage.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic  -c girafe_init.c -o girafe_init.o
In file included from girafe_init.c:8:
/Library/Frameworks/R.framework/Resources/include/R_ext/RConverters.h:32:2: warning: #warning is a GCC extension
/Library/Frameworks/R.framework/Resources/include/R_ext/RConverters.h:32:2: warning: #warning "R_ext/RConverters.h was deprecated in R 2.15.1 and will be removed in R 3.0.0"
g++ -arch i386 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o girafe.so coverage.o girafe_init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.11-bioc/meat/girafe.buildbin-libdir/girafe/libs/i386
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import 'coerce' when loading 'intervals'
Warning: replacing previous import 'initialize' when loading 'intervals'
Creating a generic function for 'hist' from package 'graphics' in package 'girafe'
Creating a generic function for 'sample' from package 'base' in package 'girafe'
** help
*** installing help indices
** building package indices
** installing vignettes
   'girafe.Rnw' 
** testing if installed package can be loaded
Warning: replacing previous import 'coerce' when loading 'intervals'
Warning: replacing previous import 'initialize' when loading 'intervals'

* DONE (girafe)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgcc_s.1.dylib" "girafe.buildbin-libdir/girafe/libs/i386/girafe.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgfortran.2.dylib" "girafe.buildbin-libdir/girafe/libs/i386/girafe.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.5.2.dylib" "girafe.buildbin-libdir/girafe/libs/i386/girafe.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.dylib" "girafe.buildbin-libdir/girafe/libs/i386/girafe.so"


>>>>>>> 
>>>>>>> INSTALLATION OF x86_64 LIBS WITH 'R_ARCH=/x86_64 R CMD INSTALL --preclean --no-multiarch --no-test-load --library=girafe.buildbin-libdir --libs-only girafe_1.10.1.tar.gz'
>>>>>>> 

* installing *source* package 'girafe' ...
** libs
*** arch - x86_64
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -fasm-blocks  -c coverage.cpp -o coverage.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic  -c girafe_init.c -o girafe_init.o
In file included from girafe_init.c:8:
/Library/Frameworks/R.framework/Resources/include/R_ext/RConverters.h:32:2: warning: #warning is a GCC extension
/Library/Frameworks/R.framework/Resources/include/R_ext/RConverters.h:32:2: warning: #warning "R_ext/RConverters.h was deprecated in R 2.15.1 and will be removed in R 3.0.0"
g++ -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o girafe.so coverage.o girafe_init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.11-bioc/meat/girafe.buildbin-libdir/girafe/libs/x86_64

* DONE (girafe)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgcc_s.1.dylib" "girafe.buildbin-libdir/girafe/libs/x86_64/girafe.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgfortran.2.dylib" "girafe.buildbin-libdir/girafe/libs/x86_64/girafe.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.5.2.dylib" "girafe.buildbin-libdir/girafe/libs/x86_64/girafe.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.dylib" "girafe.buildbin-libdir/girafe/libs/x86_64/girafe.so"