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BUILD BIN report for matter on celaya2

This page was generated on 2019-04-09 13:17:05 -0400 (Tue, 09 Apr 2019).

Package 912/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
matter 1.9.10
Kylie A. Bemis
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/matter
Branch: master
Last Commit: cd238d2
Last Changed Date: 2019-02-13 16:56:07 -0400 (Wed, 13 Feb 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK 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  OK [ OK ]UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: matter
Version: 1.9.10
Command: rm -rf matter.buildbin-libdir && mkdir matter.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh matter_1.9.10.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R matter.buildbin-libdir
StartedAt: 2019-04-09 07:19:12 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 07:20:26 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 74.3 seconds
RetCode: 0
Status:  OK 
PackageFile: matter_1.9.10.tgz
PackageFileSize: 3.16 MiB

Command output

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###
### Running command:
###
###   rm -rf matter.buildbin-libdir && mkdir matter.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh matter_1.9.10.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R matter.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=matter.buildbin-libdir matter_1.9.10.tar.gz'
>>>>>>> 

* installing *source* package ‘matter’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c bsearch.cpp -o bsearch.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c init.cpp -o init.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c matter.cpp -o matter.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -fPIC  -Wall -g -O2  -c utils.cpp -o utils.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 matter.so bsearch.o init.o matter.o utils.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/matter.buildbin-libdir/00LOCK-matter/00new/matter/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘apply’ in package ‘matter’
Creating a new generic function for ‘scale’ in package ‘matter’
Creating a new generic function for ‘biglm’ in package ‘matter’
** 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 (matter)


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