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BioC 3.2: BUILD BIN report for limma on oaxaca

This page was generated on 2016-04-23 10:22:41 -0700 (Sat, 23 Apr 2016).

Package 564/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
limma 3.26.9
Gordon Smyth
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/limma
Last Changed Rev: 115092 / Revision: 116712
Last Changed Date: 2016-03-21 22:01:17 -0700 (Mon, 21 Mar 2016)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: limma
Version: 3.26.9
Command: rm -rf limma.buildbin-libdir && mkdir limma.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh limma_3.26.9.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R limma.buildbin-libdir
StartedAt: 2016-04-23 05:49:13 -0700 (Sat, 23 Apr 2016)
EndedAt: 2016-04-23 05:49:20 -0700 (Sat, 23 Apr 2016)
EllapsedTime: 7.3 seconds
RetCode: 0
Status:  OK 
PackageFile: limma_3.26.9.tgz
PackageFileSize: 1.964 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf limma.buildbin-libdir && mkdir limma.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh limma_3.26.9.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R limma.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=limma.buildbin-libdir limma_3.26.9.tar.gz'
>>>>>>> 

* installing *source* package ‘limma’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c normexp.c -o normexp.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c weighted_lowess.c -o weighted_lowess.o
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 limma.so normexp.o weighted_lowess.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/limma.buildbin-libdir/limma/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (limma)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "limma.buildbin-libdir/limma/libs//limma.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.3.dylib" "limma.buildbin-libdir/limma/libs//limma.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "limma.buildbin-libdir/limma/libs//limma.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "limma.buildbin-libdir/limma/libs//limma.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libquadmath.0.dylib" "limma.buildbin-libdir/limma/libs//limma.so"