Package: methylKit

Version: 1.4.1

Command: rm -rf methylKit.buildbin-libdir && mkdir methylKit.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh methylKit_1.4.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R methylKit.buildbin-libdir

StartedAt: 2018-04-12 11:49:00 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 11:49:37 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 37.5 seconds

RetCode: 0

Status:  OK

PackageFile: methylKit_1.4.1.tgz

PackageFileSize: 1.995 MiB

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### Running command:
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###   rm -rf methylKit.buildbin-libdir && mkdir methylKit.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh methylKit_1.4.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R methylKit.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=methylKit.buildbin-libdir methylKit_1.4.1.tar.gz'
>>>>>>> 

* installing *source* package ‘methylKit’ ...
** libs
clang++ -std=gnu++11 -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/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/zlibbioc/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/3.4/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/zlibbioc/include" -I/usr/local/include   -fPIC  -Wall -g -O2 -c methCall.cpp -o methCall.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 methylKit.so RcppExports.o methCall.o /Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rhtslib/lib/libhts.a -lz -pthread -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
clang-4.0: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument]
installing to /Users/biocbuild/bbs-3.6-bioc/meat/methylKit.buildbin-libdir/methylKit/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 (methylKit)


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