Package: girafe

Version: 1.32.0

Command: rm -rf girafe.buildbin-libdir && mkdir girafe.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh girafe_1.32.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R girafe.buildbin-libdir

StartedAt: 2018-10-17 01:25:46 -0400 (Wed, 17 Oct 2018)

EndedAt: 2018-10-17 01:26:41 -0400 (Wed, 17 Oct 2018)

EllapsedTime: 54.8 seconds

RetCode: 0

Status:  OK

PackageFile: girafe_1.32.0.tgz

PackageFileSize: 2.097 MiB

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### Running command:
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###   rm -rf girafe.buildbin-libdir && mkdir girafe.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh girafe_1.32.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R girafe.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=girafe.buildbin-libdir girafe_1.32.0.tar.gz'
>>>>>>> 

* installing *source* package ‘girafe’ ...
** libs
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c coverage.cpp -o coverage.o
coverage.cpp:2:17: warning: using directive refers to implicitly-defined namespace 'std'
using namespace std;
                ^
1 warning generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c girafe_init.c -o girafe_init.o
clang++ -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 -o girafe.so coverage.o girafe_init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/girafe.buildbin-libdir/girafe/libs
** R
** inst
** byte-compile and prepare package for lazy loading
No methods found in package ‘IRanges’ for request: ‘sort’ when loading ‘girafe’
Creating a generic function for ‘sample’ from package ‘base’ in package ‘girafe’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
No methods found in package ‘IRanges’ for request: ‘sort’ when loading ‘girafe’
* DONE (girafe)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgcc_s.1.dylib" "girafe.buildbin-libdir/girafe/libs//girafe.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib" "girafe.buildbin-libdir/girafe/libs//girafe.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.5.2.dylib" "girafe.buildbin-libdir/girafe/libs//girafe.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.dylib" "girafe.buildbin-libdir/girafe/libs//girafe.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib" "girafe.buildbin-libdir/girafe/libs//girafe.so"