Package: CNVtools

Version: 1.74.0

Command: rm -rf CNVtools.buildbin-libdir && mkdir CNVtools.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CNVtools_1.74.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CNVtools.buildbin-libdir

StartedAt: 2018-10-17 01:07:39 -0400 (Wed, 17 Oct 2018)

EndedAt: 2018-10-17 01:08:28 -0400 (Wed, 17 Oct 2018)

EllapsedTime: 48.8 seconds

RetCode: 0

Status:  OK

PackageFile: CNVtools_1.74.0.tgz

PackageFileSize: 923.5 KiB

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf CNVtools.buildbin-libdir && mkdir CNVtools.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CNVtools_1.74.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CNVtools.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=CNVtools.buildbin-libdir CNVtools_1.74.0.tar.gz'
>>>>>>> 

* installing *source* package ‘CNVtools’ ...
** libs
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c fitmodel.cpp -o fitmodel.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c glm_test.cpp -o glm_test.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c mla.cpp -o mla.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c routine.cpp -o routine.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c zeroin.c -o zeroin.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 CNVtools.so fitmodel.o glm_test.o mla.o routine.o zeroin.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/CNVtools.buildbin-libdir/CNVtools/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
* DONE (CNVtools)


>>>>>>> 
>>>>>>> FIXING LINKS FOR CNVtools.buildbin-libdir/CNVtools/libs//CNVtools.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" "CNVtools.buildbin-libdir/CNVtools/libs//CNVtools.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib" "CNVtools.buildbin-libdir/CNVtools/libs//CNVtools.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" "CNVtools.buildbin-libdir/CNVtools/libs//CNVtools.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.dylib" "CNVtools.buildbin-libdir/CNVtools/libs//CNVtools.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib" "CNVtools.buildbin-libdir/CNVtools/libs//CNVtools.so"