Package: BicARE

Version: 1.42.0

Command: rm -rf BicARE.buildbin-libdir && mkdir BicARE.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BicARE_1.42.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R BicARE.buildbin-libdir

StartedAt: 2019-10-16 08:13:00 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 08:13:33 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 32.4 seconds

RetCode: 0

Status:  OK

PackageFile: BicARE_1.42.0.tgz

PackageFileSize: 423.1 KiB

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf BicARE.buildbin-libdir && mkdir BicARE.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BicARE_1.42.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R BicARE.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=BicARE.buildbin-libdir BicARE_1.42.0.tar.gz'
>>>>>>> 

* installing *source* package ‘BicARE’ ...
** using staged installation
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c BicARE.c -o BicARE.o
BicARE.c:439:12: warning: unused variable 'invk' [-Wunused-variable]
    double invk = 1/(double)*k;
           ^
1 warning generated.
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 BicARE.so BicARE.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/BicARE.buildbin-libdir/00LOCK-BicARE/00new/BicARE/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 (BicARE)


>>>>>>> 
>>>>>>> FIXING LINKS FOR BicARE.buildbin-libdir/BicARE/libs//BicARE.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" "BicARE.buildbin-libdir/BicARE/libs//BicARE.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "BicARE.buildbin-libdir/BicARE/libs//BicARE.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" "BicARE.buildbin-libdir/BicARE/libs//BicARE.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "BicARE.buildbin-libdir/BicARE/libs//BicARE.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "BicARE.buildbin-libdir/BicARE/libs//BicARE.so"