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BioC 2.13: BUILD BIN report for externalVector on perceval

This page was generated on 2013-10-08 08:37:51 -0700 (Tue, 08 Oct 2013).

Package 229/730HostnameOS / ArchBUILDCHECKBUILD BIN
externalVector 1.27.0
Bioconductor Package Maintainer
Snapshot Date: 2013-10-07 16:20:53 -0700 (Mon, 07 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/externalVector
Last Changed Rev: 75270 / Revision: 81258
Last Changed Date: 2013-04-03 15:06:11 -0700 (Wed, 03 Apr 2013)
zin1 Linux (Ubuntu 12.04.2 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK [ OK ]

Summary

Package: externalVector
Version: 1.27.0
Command: rm -rf externalVector.buildbin-libdir && mkdir externalVector.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh externalVector_1.27.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R externalVector.buildbin-libdir
StartedAt: 2013-10-08 07:13:32 -0700 (Tue, 08 Oct 2013)
EndedAt: 2013-10-08 07:13:45 -0700 (Tue, 08 Oct 2013)
EllapsedTime: 13.3 seconds
RetCode: 0
Status:  OK 
PackageFile: externalVector_1.27.0.tgz
PackageFileSize: 464 KiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=externalVector.buildbin-libdir externalVector_1.27.0.tar.gz'
>>>>>>> 

* installing *source* package 'externalVector' ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c allocator.c -o allocator.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c arraySummary.c -o arraySummary.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c coerce.c -o coerce.o
coerce.c: In function 'ComplexFromString':
coerce.c:213: warning: initialization from incompatible pointer type
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c externalVector.c -o externalVector.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c groups.c -o groups.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c math.c -o math.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c slice.c -o slice.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c storage.c -o storage.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c subscript.c -o subscript.o
subscript.c: In function 'SubscriptList':
subscript.c:422: warning: assignment from incompatible pointer type
subscript.c:464: warning: assignment from incompatible pointer type
subscript.c:478: warning: assignment from incompatible pointer type
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o externalVector.so allocator.o arraySummary.o coerce.o externalVector.o groups.o math.o slice.o storage.o subscript.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.13-bioc/meat/externalVector.buildbin-libdir/externalVector/libs
** R
** preparing package for lazy loading
Creating a new generic function for 'setNames' in package 'externalVector'
Creating a generic function for 'match' from package 'base' in package 'externalVector'
Creating a generic function for 'as.vector' from package 'base' in package 'externalVector'
Creating a generic function for 'as.single' from package 'base' in package 'externalVector'
Creating a generic function for 'as.list' from package 'base' in package 'externalVector'
Creating a generic function for 'as.matrix' from package 'base' in package 'externalVector'
Creating a generic function for 'as.data.frame' from package 'base' in package 'externalVector'
Creating a generic function for 'colSums' from package 'base' in package 'externalVector'
Creating a generic function for 'colMeans' from package 'base' in package 'externalVector'
Creating a generic function for 'rowSums' from package 'base' in package 'externalVector'
Creating a generic function for 'rowMeans' from package 'base' in package 'externalVector'
Creating a generic function for 'apply' from package 'base' in package 'externalVector'
Creating a generic function for 'lapply' from package 'base' in package 'externalVector'
Creating a generic function for 'sapply' from package 'base' in package 'externalVector'
Creating a generic function for 'mean' from package 'base' in package 'externalVector'
Creating a generic function for 'median' from package 'stats' in package 'externalVector'
Creating a new generic function for 'var' in package 'externalVector'
Creating a new generic function for 'cov' in package 'externalVector'
Creating a new generic function for 'cor' in package 'externalVector'
Creating a generic function for 'cov2cor' from package 'stats' in package 'externalVector'
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (externalVector)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgcc_s.1.dylib" "externalVector.buildbin-libdir/externalVector/libs//externalVector.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "externalVector.buildbin-libdir/externalVector/libs//externalVector.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.5.2.dylib" "externalVector.buildbin-libdir/externalVector/libs//externalVector.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "externalVector.buildbin-libdir/externalVector/libs//externalVector.so"