Back to Multiple platform build/check report for BioC 3.9
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

BUILD BIN report for Biobase on celaya2

This page was generated on 2019-04-09 12:46:09 -0400 (Tue, 09 Apr 2019).

Package 136/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Biobase 2.43.1
Bioconductor Package Maintainer
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/Biobase
Branch: master
Last Commit: 528dca2
Last Changed Date: 2019-01-10 15:26:44 -0400 (Thu, 10 Jan 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
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: Biobase
Version: 2.43.1
Command: rm -rf Biobase.buildbin-libdir && mkdir Biobase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Biobase_2.43.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Biobase.buildbin-libdir
StartedAt: 2019-04-09 06:42:56 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 06:43:31 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 35.0 seconds
RetCode: 0
Status:  OK 
PackageFile: Biobase_2.43.1.tgz
PackageFileSize: 2.249 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf Biobase.buildbin-libdir && mkdir Biobase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Biobase_2.43.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Biobase.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=Biobase.buildbin-libdir Biobase_2.43.1.tar.gz'
>>>>>>> 

* installing *source* package ‘Biobase’ ...
** using staged installation
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c Rinit.c -o Rinit.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c anyMissing.c -o anyMissing.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c envir.c -o envir.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c matchpt.c -o matchpt.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c rowMedians.c -o rowMedians.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c sublist_extract.c -o sublist_extract.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 Biobase.so Rinit.o anyMissing.o envir.o matchpt.o rowMedians.o sublist_extract.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/Biobase.buildbin-libdir/00LOCK-Biobase/00new/Biobase/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** 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 (Biobase)


>>>>>>> 
>>>>>>> FIXING LINKS FOR Biobase.buildbin-libdir/Biobase/libs//Biobase.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" "Biobase.buildbin-libdir/Biobase/libs//Biobase.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "Biobase.buildbin-libdir/Biobase/libs//Biobase.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" "Biobase.buildbin-libdir/Biobase/libs//Biobase.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "Biobase.buildbin-libdir/Biobase/libs//Biobase.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "Biobase.buildbin-libdir/Biobase/libs//Biobase.so"