Package: cisPath

Version: 1.27.0

Command: rm -rf cisPath.buildbin-libdir && mkdir cisPath.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh cisPath_1.27.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R cisPath.buildbin-libdir

StartedAt: 2020-01-16 10:38:39 -0500 (Thu, 16 Jan 2020)

EndedAt: 2020-01-16 10:39:07 -0500 (Thu, 16 Jan 2020)

EllapsedTime: 28.1 seconds

RetCode: 0

Status:  OK

PackageFile: cisPath_1.27.0.tgz

PackageFileSize: 1016 KiB

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### Running command:
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###   rm -rf cisPath.buildbin-libdir && mkdir cisPath.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh cisPath_1.27.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R cisPath.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=cisPath.buildbin-libdir cisPath_1.27.0.tar.gz'
>>>>>>> 

* installing *source* package ‘cisPath’ ...
** using staged installation
** libs
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 cisPath.cpp -o cisPath.o
cisPath.cpp:945:14: warning: explicitly assigning value of variable of type 'std::__1::string' (aka 'basic_string<char, char_traits<char>, allocator<char> >') to itself [-Wself-assign-overloaded]
        Name = Name;
        ~~~~ ^ ~~~~
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 cisPath.so cisPath.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/cisPath.buildbin-libdir/00LOCK-cisPath/00new/cisPath/libs
** R
** 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 (cisPath)


>>>>>>> 
>>>>>>> FIXING LINKS FOR cisPath.buildbin-libdir/cisPath/libs//cisPath.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" "cisPath.buildbin-libdir/cisPath/libs//cisPath.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.3.dylib" "cisPath.buildbin-libdir/cisPath/libs//cisPath.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" "cisPath.buildbin-libdir/cisPath/libs//cisPath.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.dylib" "cisPath.buildbin-libdir/cisPath/libs//cisPath.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "cisPath.buildbin-libdir/cisPath/libs//cisPath.so"