Back to Multiple platform build/check report for BioC 3.9
AB[C]DEFGHIJKLMNOPQRSTUVWXYZ

BUILD BIN report for clusterExperiment on celaya2

This page was generated on 2019-10-16 12:58:18 -0400 (Wed, 16 Oct 2019).

Package 292/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
clusterExperiment 2.4.4
Elizabeth Purdom
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/clusterExperiment
Branch: RELEASE_3_9
Last Commit: 7199648
Last Changed Date: 2019-06-07 14:39:55 -0400 (Fri, 07 Jun 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: clusterExperiment
Version: 2.4.4
Command: rm -rf clusterExperiment.buildbin-libdir && mkdir clusterExperiment.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh clusterExperiment_2.4.4.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R clusterExperiment.buildbin-libdir
StartedAt: 2019-10-16 08:21:28 -0400 (Wed, 16 Oct 2019)
EndedAt: 2019-10-16 08:23:06 -0400 (Wed, 16 Oct 2019)
EllapsedTime: 98.2 seconds
RetCode: 0
Status:  OK 
PackageFile: clusterExperiment_2.4.4.tgz
PackageFileSize: 10.88 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf clusterExperiment.buildbin-libdir && mkdir clusterExperiment.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh clusterExperiment_2.4.4.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R clusterExperiment.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=clusterExperiment.buildbin-libdir clusterExperiment_2.4.4.tar.gz'
>>>>>>> 

* installing *source* package ‘clusterExperiment’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -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/3.6/Resources/library/Rcpp/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c search_pairs.cpp -o search_pairs.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c subsampleLoop.cpp -o subsampleLoop.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 clusterExperiment.so RcppExports.o search_pairs.o subsampleLoop.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/clusterExperiment.buildbin-libdir/00LOCK-clusterExperiment/00new/clusterExperiment/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Found more than one class "Annotated" in cache; using the first, from namespace 'S4Vectors'
Also defined by ‘RNeXML’
Found more than one class "Annotated" in cache; using the first, from namespace 'S4Vectors'
Also defined by ‘RNeXML’
Found more than one class "Annotated" in cache; using the first, from namespace 'S4Vectors'
Also defined by ‘RNeXML’
Found more than one class "Annotated" in cache; using the first, from namespace 'S4Vectors'
Also defined by ‘RNeXML’
Found more than one class "Annotated" in cache; using the first, from namespace 'S4Vectors'
Also defined by ‘RNeXML’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (clusterExperiment)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgcc_s.1.dylib" "clusterExperiment.buildbin-libdir/clusterExperiment/libs//clusterExperiment.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "clusterExperiment.buildbin-libdir/clusterExperiment/libs//clusterExperiment.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.5.2.dylib" "clusterExperiment.buildbin-libdir/clusterExperiment/libs//clusterExperiment.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "clusterExperiment.buildbin-libdir/clusterExperiment/libs//clusterExperiment.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "clusterExperiment.buildbin-libdir/clusterExperiment/libs//clusterExperiment.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "clusterExperiment.buildbin-libdir/clusterExperiment/libs//clusterExperiment.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "clusterExperiment.buildbin-libdir/clusterExperiment/libs//clusterExperiment.so"