Package: aCGH

Version: 1.65.1

Command: rm -rf aCGH.buildbin-libdir && mkdir aCGH.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh aCGH_1.65.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R aCGH.buildbin-libdir

StartedAt: 2020-01-16 10:23:31 -0500 (Thu, 16 Jan 2020)

EndedAt: 2020-01-16 10:23:57 -0500 (Thu, 16 Jan 2020)

EllapsedTime: 25.3 seconds

RetCode: 0

Status:  OK

PackageFile: aCGH_1.65.1.tgz

PackageFileSize: 2.393 MiB

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf aCGH.buildbin-libdir && mkdir aCGH.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh aCGH_1.65.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R aCGH.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=aCGH.buildbin-libdir aCGH_1.65.1.tar.gz'
>>>>>>> 

* installing *source* package ‘aCGH’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSEDOUBLE -g3  -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c hmm.cpp -o hmm.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 aCGH.so hmm.o -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/aCGH.buildbin-libdir/00LOCK-aCGH/00new/aCGH/libs
** R
** data
** demo
** 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 (aCGH)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgcc_s.1.dylib" "aCGH.buildbin-libdir/aCGH/libs//aCGH.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.3.dylib" "aCGH.buildbin-libdir/aCGH/libs//aCGH.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.5.2.dylib" "aCGH.buildbin-libdir/aCGH/libs//aCGH.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.dylib" "aCGH.buildbin-libdir/aCGH/libs//aCGH.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "aCGH.buildbin-libdir/aCGH/libs//aCGH.so"