Package: BioQC

Version: 1.8.0

Command: rm -rf BioQC.buildbin-libdir && mkdir BioQC.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BioQC_1.8.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R BioQC.buildbin-libdir

StartedAt: 2018-10-17 00:59:34 -0400 (Wed, 17 Oct 2018)

EndedAt: 2018-10-17 01:00:46 -0400 (Wed, 17 Oct 2018)

EllapsedTime: 71.3 seconds

RetCode: 0

Status:  OK

PackageFile: BioQC_1.8.0.tgz

PackageFileSize: 323.6 KiB

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### Running command:
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###   rm -rf BioQC.buildbin-libdir && mkdir BioQC.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BioQC_1.8.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R BioQC.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=BioQC.buildbin-libdir BioQC_1.8.0.tar.gz'
>>>>>>> 

* installing *source* package ‘BioQC’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG `/Library/Frameworks/R.framework/Resources/bin/Rscript -e 'Rcpp:::CxxFlags()'`  -I/usr/local/include   -fPIC  -Wall -g -O2  -c gini.c -o gini.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG `/Library/Frameworks/R.framework/Resources/bin/Rscript -e 'Rcpp:::CxxFlags()'`  -I/usr/local/include   -fPIC  -Wall -g -O2  -c init.c -o init.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG `/Library/Frameworks/R.framework/Resources/bin/Rscript -e 'Rcpp:::CxxFlags()'`  -I/usr/local/include   -fPIC  -Wall -g -O2  -c read_gmt.cpp -o read_gmt.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG `/Library/Frameworks/R.framework/Resources/bin/Rscript -e 'Rcpp:::CxxFlags()'`  -I/usr/local/include   -fPIC  -Wall -g -O2  -c stat_rank.c -o stat_rank.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG `/Library/Frameworks/R.framework/Resources/bin/Rscript -e 'Rcpp:::CxxFlags()'`  -I/usr/local/include   -fPIC  -Wall -g -O2  -c wmw_test.c -o wmw_test.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 BioQC.so gini.o init.o read_gmt.o stat_rank.o wmw_test.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/BioQC.buildbin-libdir/BioQC/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 (BioQC)


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