Package: CNPBayes

Version: 1.13.5

Command: rm -rf CNPBayes.buildbin-libdir && mkdir CNPBayes.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CNPBayes_1.13.5.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CNPBayes.buildbin-libdir

StartedAt: 2019-04-09 05:00:51 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 05:03:28 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 156.4 seconds

RetCode: 0

Status:  OK

PackageFile: CNPBayes_1.13.5.tgz

PackageFileSize: 5.531 MiB

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### Running command:
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###   rm -rf CNPBayes.buildbin-libdir && mkdir CNPBayes.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CNPBayes_1.13.5.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CNPBayes.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=CNPBayes.buildbin-libdir CNPBayes_1.13.5.tar.gz'
>>>>>>> 

* installing *source* package ‘CNPBayes’ ...
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c miscfunctions.cpp -o miscfunctions.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c multibatch.cpp -o multibatch.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c multibatch_pooledvar.cpp -o multibatch_pooledvar.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c multibatch_reduced.cpp -o multibatch_reduced.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c pooledvar_reduced.cpp -o pooledvar_reduced.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c triomodel.cpp -o triomodel.o
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 CNPBayes.so RcppExports.o miscfunctions.o multibatch.o multibatch_pooledvar.o multibatch_reduced.o pooledvar_reduced.o triomodel.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-3.9-bioc/meat/CNPBayes.buildbin-libdir/CNPBayes/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘alpha’ in package ‘CNPBayes’
in method for ‘convergence’ with signature ‘"MultiBatchList"’: no definition for class “MultiBatchList”
Creating a generic function from function ‘sigma’ in package ‘CNPBayes’
Note: wrong number of arguments to '/' 
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (CNPBayes)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgcc_s.1.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.5.2.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"