Package: seqCNA

Version: 1.29.0

Command: rm -rf seqCNA.buildbin-libdir && mkdir seqCNA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh seqCNA_1.29.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R seqCNA.buildbin-libdir

StartedAt: 2019-04-09 07:45:45 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 07:45:59 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 13.3 seconds

RetCode: 0

Status:  OK

PackageFile: seqCNA_1.29.0.tgz

PackageFileSize: 1.286 MiB

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### Running command:
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###   rm -rf seqCNA.buildbin-libdir && mkdir seqCNA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh seqCNA_1.29.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R seqCNA.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=seqCNA.buildbin-libdir seqCNA_1.29.0.tar.gz'
>>>>>>> 

* installing *source* package ‘seqCNA’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c seqCNA.cpp -o seqCNA.o
seqCNA.cpp:107:15: warning: comparison of unsigned expression < 0 is always false [-Wtautological-compare]
                                        if (index<0) goto next;
                                            ˜˜˜˜˜^˜
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 seqCNA.so seqCNA.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/seqCNA.buildbin-libdir/00LOCK-seqCNA/00new/seqCNA/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 (seqCNA)


>>>>>>> 
>>>>>>> FIXING LINKS FOR seqCNA.buildbin-libdir/seqCNA/libs//seqCNA.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" "seqCNA.buildbin-libdir/seqCNA/libs//seqCNA.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "seqCNA.buildbin-libdir/seqCNA/libs//seqCNA.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" "seqCNA.buildbin-libdir/seqCNA/libs//seqCNA.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "seqCNA.buildbin-libdir/seqCNA/libs//seqCNA.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "seqCNA.buildbin-libdir/seqCNA/libs//seqCNA.so"