Package: biovizBase

Version: 1.28.2

Command: rm -rf biovizBase.buildbin-libdir && mkdir biovizBase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh biovizBase_1.28.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R biovizBase.buildbin-libdir

StartedAt: 2018-10-17 01:00:13 -0400 (Wed, 17 Oct 2018)

EndedAt: 2018-10-17 01:01:09 -0400 (Wed, 17 Oct 2018)

EllapsedTime: 56.0 seconds

RetCode: 0

Status:  OK

PackageFile: biovizBase_1.28.2.tgz

PackageFileSize: 2.648 MiB

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf biovizBase.buildbin-libdir && mkdir biovizBase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh biovizBase_1.28.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R biovizBase.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=biovizBase.buildbin-libdir biovizBase_1.28.2.tar.gz'
>>>>>>> 

* installing *source* package ‘biovizBase’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c R_init_biovizBase.c -o R_init_biovizBase.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c bin_offsets.c -o bin_offsets.o
bin_offsets.c:57:15: warning: passing 'Rbyte *' (aka 'unsigned char *') to parameter of type 'const char *' converts between pointers to integer types with different sign [-Wpointer-sign]
  if (strncmp(b, "BAI\1", 4))
              ^
/usr/include/string.h:84:26: note: passing argument to parameter here
int      strncmp(const char *, const char *, size_t);
                             ^
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 biovizBase.so R_init_biovizBase.o bin_offsets.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/biovizBase.buildbin-libdir/biovizBase/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (biovizBase)


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