Package: Linnorm

Version: 2.2.0

Command: rm -rf Linnorm.buildbin-libdir && mkdir Linnorm.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Linnorm_2.2.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Linnorm.buildbin-libdir

StartedAt: 2018-04-12 11:44:39 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 11:45:01 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 22.5 seconds

RetCode: 0

Status:  OK

PackageFile: Linnorm_2.2.0.tgz

PackageFileSize: 4.17 MiB

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### Running command:
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###   rm -rf Linnorm.buildbin-libdir && mkdir Linnorm.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Linnorm_2.2.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Linnorm.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=Linnorm.buildbin-libdir Linnorm_2.2.0.tar.gz'
>>>>>>> 

* installing *source* package ‘Linnorm’ ...
** libs
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/RcppArmadillo/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c Misc.cpp -o Misc.o
In file included from Misc.cpp:18:
In file included from /Library/Frameworks/R.framework/Versions/3.4/Resources/library/RcppArmadillo/include/RcppArmadillo.h:31:
In file included from /Library/Frameworks/R.framework/Versions/3.4/Resources/library/RcppArmadillo/include/RcppArmadilloForward.h:26:
In file included from /Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include/RcppCommon.h:138:
/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include/Rcpp/exceptions.h:106:53: warning: all paths through this function will call itself [-Winfinite-recursion]
    inline void warning(const std::string& message) {        // #nocov start
                                                    ^
1 warning generated.
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 Linnorm.so Misc.o -std=c++11 -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 -DARMA_64BIT_WORD=1 -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.6-bioc/meat/Linnorm.buildbin-libdir/Linnorm/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Linnorm)


>>>>>>> 
>>>>>>> FIXING LINKS FOR Linnorm.buildbin-libdir/Linnorm/libs//Linnorm.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" "Linnorm.buildbin-libdir/Linnorm/libs//Linnorm.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "Linnorm.buildbin-libdir/Linnorm/libs//Linnorm.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" "Linnorm.buildbin-libdir/Linnorm/libs//Linnorm.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.dylib" "Linnorm.buildbin-libdir/Linnorm/libs//Linnorm.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "Linnorm.buildbin-libdir/Linnorm/libs//Linnorm.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "Linnorm.buildbin-libdir/Linnorm/libs//Linnorm.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "Linnorm.buildbin-libdir/Linnorm/libs//Linnorm.so"