Package: fastseg

Version: 1.33.0

Command: rm -rf fastseg.buildbin-libdir && mkdir fastseg.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh fastseg_1.33.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R fastseg.buildbin-libdir

StartedAt: 2020-01-16 10:53:21 -0500 (Thu, 16 Jan 2020)

EndedAt: 2020-01-16 10:53:44 -0500 (Thu, 16 Jan 2020)

EllapsedTime: 22.9 seconds

RetCode: 0

Status:  OK

PackageFile: fastseg_1.33.0.tgz

PackageFileSize: 557.4 KiB

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### Running command:
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###   rm -rf fastseg.buildbin-libdir && mkdir fastseg.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh fastseg_1.33.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R fastseg.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=fastseg.buildbin-libdir fastseg_1.33.0.tar.gz'
>>>>>>> 

* installing *source* package ‘fastseg’ ...
** 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 R_init_fastseg.c -o R_init_fastseg.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c segment.cpp -o segment.o
segment.cpp:65:9: warning: unused variable 'Rf_beta' [-Wunused-variable]
        double beta,nn;
               ^
/Library/Frameworks/R.framework/Resources/include/Rmath.h:212:15: note: expanded from macro 'beta'
#define beta            Rf_beta
                        ^
1 warning generated.
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c segmentCyberT.cpp -o segmentCyberT.o
segmentCyberT.cpp:63:50: warning: unused variable 'Rf_beta' [-Wunused-variable]
        double newStatisticBptLeft,newStatisticBptRight,beta,nn;
                                                        ^
/Library/Frameworks/R.framework/Resources/include/Rmath.h:212:15: note: expanded from macro 'beta'
#define beta            Rf_beta
                        ^
1 warning generated.
clang++ -std=gnu++11 -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 fastseg.so R_init_fastseg.o segment.o segmentCyberT.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/fastseg.buildbin-libdir/00LOCK-fastseg/00new/fastseg/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 (fastseg)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgcc_s.1.dylib" "fastseg.buildbin-libdir/fastseg/libs//fastseg.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.3.dylib" "fastseg.buildbin-libdir/fastseg/libs//fastseg.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.5.2.dylib" "fastseg.buildbin-libdir/fastseg/libs//fastseg.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.dylib" "fastseg.buildbin-libdir/fastseg/libs//fastseg.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "fastseg.buildbin-libdir/fastseg/libs//fastseg.so"