Package: mgsa

Version: 1.32.0

Command: rm -rf mgsa.buildbin-libdir && mkdir mgsa.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh mgsa_1.32.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R mgsa.buildbin-libdir

StartedAt: 2019-10-16 08:57:01 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 08:57:13 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 12.3 seconds

RetCode: 0

Status:  OK

PackageFile: mgsa_1.32.0.tgz

PackageFileSize: 487.6 KiB

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### Running command:
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###   rm -rf mgsa.buildbin-libdir && mkdir mgsa.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh mgsa_1.32.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R mgsa.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=mgsa.buildbin-libdir mgsa_1.32.0.tar.gz'
>>>>>>> 

* installing *source* package ‘mgsa’ ...
** using staged installation
configure: creating ./config.status
config.status: creating src/Makevars
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -I. -fopenmp -fPIC  -Wall -g -O2  -c mgsa-core.c -o mgsa-core.o
mgsa-core.c:796:13: warning: unused function 'print_context' [-Wunused-function]
static void print_context(struct context *cn)
            ^
1 warning generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -I. -fopenmp -fPIC  -Wall -g -O2  -c mgsa.c -o mgsa.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -I. -fopenmp -fPIC  -Wall -g -O2  -c mt.c -o mt.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 mgsa.so mgsa-core.o mgsa.o mt.o -fopenmp -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/mgsa.buildbin-libdir/00LOCK-mgsa/00new/mgsa/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (mgsa)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgcc_s.1.dylib" "mgsa.buildbin-libdir/mgsa/libs//mgsa.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "mgsa.buildbin-libdir/mgsa/libs//mgsa.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.5.2.dylib" "mgsa.buildbin-libdir/mgsa/libs//mgsa.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "mgsa.buildbin-libdir/mgsa/libs//mgsa.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "mgsa.buildbin-libdir/mgsa/libs//mgsa.so"