Package: ORFik

Version: 1.2.1

Command: rm -rf ORFik.buildbin-libdir && mkdir ORFik.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ORFik_1.2.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ORFik.buildbin-libdir

StartedAt: 2019-04-16 04:29:20 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 04:30:36 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 76.0 seconds

RetCode: 0

Status:  OK

PackageFile: ORFik_1.2.1.tgz

PackageFileSize: 1013 KiB

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf ORFik.buildbin-libdir && mkdir ORFik.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ORFik_1.2.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ORFik.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=ORFik.buildbin-libdir ORFik_1.2.1.tar.gz'
>>>>>>> 

* installing *source* package ‘ORFik’ ...
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2 -c findORFsHelpers.cpp -o findORFsHelpers.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2 -c findOrfs.cpp -o findOrfs.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2 -c findOrfsFasta.cpp -o findOrfsFasta.o
clang++ -std=gnu++11 -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 ORFik.so RcppExports.o findORFsHelpers.o findOrfs.o findOrfsFasta.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.8-bioc/meat/ORFik.buildbin-libdir/ORFik/libs
** R
** 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 (ORFik)


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