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BioC 2.13: BUILD BIN report for Repitools on perceval

This page was generated on 2014-04-05 09:52:39 -0700 (Sat, 05 Apr 2014).

Package 593/750HostnameOS / ArchBUILDCHECKBUILD BIN
Repitools 1.8.6
Mark Robinson
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/Repitools
Last Changed Rev: 84306 / Revision: 88450
Last Changed Date: 2013-12-11 16:00:50 -0800 (Wed, 11 Dec 2013)
zin1 Linux (Ubuntu 12.04.4 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: Repitools
Version: 1.8.6
Command: rm -rf Repitools.buildbin-libdir && mkdir Repitools.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Repitools_1.8.6.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Repitools.buildbin-libdir
StartedAt: 2014-04-05 05:36:08 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 05:37:01 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 52.5 seconds
RetCode: 0
Status:  OK 
PackageFile: Repitools_1.8.6.tgz
PackageFileSize: 1.795 MiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=Repitools.buildbin-libdir Repitools_1.8.6.tar.gz'
>>>>>>> 

* installing *source* package ‘Repitools’ ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -D R_NO_REMAP -I. -fPIC  -mtune=core2 -g -O2 -Wall  -c const.c -o const.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -D R_NO_REMAP -I. -fPIC  -mtune=core2 -g -O2 -Wall  -c hyp2f1.c -o hyp2f1.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -D R_NO_REMAP -I. -fPIC  -mtune=core2 -g -O2 -Wall  -c mtherr.c -o mtherr.o
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 Repitools.so const.o hyp2f1.o mtherr.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.13-bioc/meat/Repitools.buildbin-libdir/Repitools/libs
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import by ‘parallel::clusterApply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterApplyLB’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterCall’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterEvalQ’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterExport’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterMap’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterSplit’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parApply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parCapply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parLapply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parLapplyLB’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parRapply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parSapply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parSapplyLB’ when loading ‘Repitools’
Warning: replacing previous import by ‘aroma.affymetrix::compare’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::detectCores’ when loading ‘Repitools’
in method for ‘.featureScores’ with signature ‘"AffymetrixCelSet","GRanges"’: no definition for class “AffymetrixCelSet”
in method for ‘regionStats’ with signature ‘"AffymetrixCelSet"’: no definition for class “AffymetrixCelSet”
Creating a new generic function for ‘writeWig’ in package ‘Repitools’
in method for ‘writeWig’ with signature ‘"AffymetrixCelSet"’: no definition for class “AffymetrixCelSet”
in method for ‘cpgBoxplots’ with signature ‘"AffymetrixCelSet"’: no definition for class “AffymetrixCelSet”
in method for ‘.blocksStats’ with signature ‘"AffymetrixCelSet","GRanges"’: no definition for class “AffymetrixCelSet”
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import by ‘parallel::clusterApply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterApplyLB’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterCall’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterEvalQ’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterExport’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterMap’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::clusterSplit’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parApply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parCapply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parLapply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parLapplyLB’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parRapply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parSapply’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::parSapplyLB’ when loading ‘Repitools’
Warning: replacing previous import by ‘aroma.affymetrix::compare’ when loading ‘Repitools’
Warning: replacing previous import by ‘parallel::detectCores’ when loading ‘Repitools’
* DONE (Repitools)


>>>>>>> 
>>>>>>> FIXING LINKS FOR Repitools.buildbin-libdir/Repitools/libs//Repitools.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" "Repitools.buildbin-libdir/Repitools/libs//Repitools.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "Repitools.buildbin-libdir/Repitools/libs//Repitools.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" "Repitools.buildbin-libdir/Repitools/libs//Repitools.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "Repitools.buildbin-libdir/Repitools/libs//Repitools.so"