BioC 3.5: BUILD BIN report for scran on veracruz2

Package: scran

Version: 1.4.5

Command: rm -rf scran.buildbin-libdir && mkdir scran.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh scran_1.4.5.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R scran.buildbin-libdir

StartedAt: 2017-10-18 11:31:24 -0400 (Wed, 18 Oct 2017)

EndedAt: 2017-10-18 11:31:50 -0400 (Wed, 18 Oct 2017)

EllapsedTime: 26.3 seconds

RetCode: 0

Status:  OK

PackageFile: scran_1.4.5.tgz

PackageFileSize: 700.2 KiB

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### Running command:
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###   rm -rf scran.buildbin-libdir && mkdir scran.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh scran_1.4.5.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R scran.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=scran.buildbin-libdir scran_1.4.5.tar.gz'
>>>>>>> 

* installing *source* package ‘scran’ ...
** libs
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c build_snn.cpp -o build_snn.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c compute_CV2.cpp -o compute_CV2.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c compute_cordist.cpp -o compute_cordist.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c compute_rho.cpp -o compute_rho.o
compute_rho.cpp:421:31: warning: unused variable 'temp_abs_rho' [-Wunused-variable]
        double temp_combined, temp_abs_rho;
                              ^
1 warning generated.
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c estimate_variance.cpp -o estimate_variance.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c forge_system.cpp -o forge_system.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c init.cpp -o init.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c matrix_info.cpp -o matrix_info.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c overlap_exprs.cpp -o overlap_exprs.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c run_dormqr.cpp -o run_dormqr.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c shuffle_scores.cpp -o shuffle_scores.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 scran.so build_snn.o compute_CV2.o compute_cordist.o compute_rho.o estimate_variance.o forge_system.o init.o matrix_info.o overlap_exprs.o run_dormqr.o shuffle_scores.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.5-bioc/meat/scran.buildbin-libdir/scran/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (scran)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgcc_s.1.dylib" "scran.buildbin-libdir/scran/libs//scran.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "scran.buildbin-libdir/scran/libs//scran.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.5.2.dylib" "scran.buildbin-libdir/scran/libs//scran.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.dylib" "scran.buildbin-libdir/scran/libs//scran.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "scran.buildbin-libdir/scran/libs//scran.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "scran.buildbin-libdir/scran/libs//scran.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "scran.buildbin-libdir/scran/libs//scran.so"