Package: affy

Version: 1.60.0

Command: rm -rf affy.buildbin-libdir && mkdir affy.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh affy_1.60.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R affy.buildbin-libdir

StartedAt: 2019-04-16 03:38:49 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 03:39:32 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 42.7 seconds

RetCode: 0

Status:  OK

PackageFile: affy_1.60.0.tgz

PackageFileSize: 1.567 MiB

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### Running command:
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###   rm -rf affy.buildbin-libdir && mkdir affy.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh affy_1.60.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R affy.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=affy.buildbin-libdir affy_1.60.0.tar.gz'
>>>>>>> 

* installing *source* package ‘affy’ ...
creating cache ./config.cache
checking how to run the C preprocessor... cc -E
checking for main in -lz... yes
checking for zlib.h... yes
checking if zlib version >= 1.1.3... yes
updating cache ./config.cache
creating ./config.status
creating src/Makevars
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/preprocessCore/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c chipbackground.c -o chipbackground.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/preprocessCore/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c getall_locations.c -o getall_locations.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/preprocessCore/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c mas5calls.c -o mas5calls.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/preprocessCore/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c rma2.c -o rma2.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/preprocessCore/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c rma_common.c -o rma_common.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 affy.so chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.8-bioc/meat/affy.buildbin-libdir/affy/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
* DONE (affy)


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