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BioC 3.3: BUILD BIN report for chimera on morelia

This page was generated on 2015-10-20 14:21:15 -0400 (Tue, 20 Oct 2015).

Package 162/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
chimera 1.13.0
Raffaele A Calogero
Snapshot Date: 2015-10-19 20:20:06 -0400 (Mon, 19 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/chimera
Last Changed Rev: 109592 / Revision: 109765
Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015)
linux2.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
windows2.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: chimera
Version: 1.13.0
Command: rm -rf chimera.buildbin-libdir && mkdir chimera.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh chimera_1.13.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R chimera.buildbin-libdir
StartedAt: 2015-10-20 12:35:57 -0400 (Tue, 20 Oct 2015)
EndedAt: 2015-10-20 12:36:30 -0400 (Tue, 20 Oct 2015)
EllapsedTime: 33.3 seconds
RetCode: 0
Status:  OK 
PackageFile: chimera_1.13.0.tgz
PackageFileSize: 2.316 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf chimera.buildbin-libdir && mkdir chimera.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh chimera_1.13.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R chimera.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=chimera.buildbin-libdir chimera_1.13.0.tar.gz'
>>>>>>> 

* installing *source* package ‘chimera’ ...
** 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 StarParser.cpp -o StarParser.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 chimera.so StarParser.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.3-bioc/meat/chimera.buildbin-libdir/chimera/libs
** R
** inst
** preparing package for lazy loading
Now getting the GODb Object directly
Now getting the OrgDb Object directly
Now getting the TxDb Object directly
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Now getting the GODb Object directly
Now getting the OrgDb Object directly
Now getting the TxDb Object directly
* DONE (chimera)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgcc_s.1.dylib" "chimera.buildbin-libdir/chimera/libs//chimera.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgfortran.3.dylib" "chimera.buildbin-libdir/chimera/libs//chimera.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.5.2.dylib" "chimera.buildbin-libdir/chimera/libs//chimera.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.dylib" "chimera.buildbin-libdir/chimera/libs//chimera.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libquadmath.0.dylib" "chimera.buildbin-libdir/chimera/libs//chimera.so"