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BUILD BIN report for genoset on celaya2

This page was generated on 2020-01-16 13:33:27 -0500 (Thu, 16 Jan 2020).

Package 687/1818HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
genoset 1.43.0
Peter M. Haverty
Snapshot Date: 2020-01-15 16:46:30 -0500 (Wed, 15 Jan 2020)
URL: https://git.bioconductor.org/packages/genoset
Branch: master
Last Commit: df8eb30
Last Changed Date: 2019-10-29 13:35:27 -0500 (Tue, 29 Oct 2019)
malbec2 Linux (Ubuntu 18.04.3 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: genoset
Version: 1.43.0
Command: rm -rf genoset.buildbin-libdir && mkdir genoset.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh genoset_1.43.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R genoset.buildbin-libdir
StartedAt: 2020-01-16 11:00:06 -0500 (Thu, 16 Jan 2020)
EndedAt: 2020-01-16 11:00:55 -0500 (Thu, 16 Jan 2020)
EllapsedTime: 48.8 seconds
RetCode: 0
Status:  OK 
PackageFile: genoset_1.43.0.tgz
PackageFileSize: 1.386 MiB

Command output

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###
### Running command:
###
###   rm -rf genoset.buildbin-libdir && mkdir genoset.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh genoset_1.43.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R genoset.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=genoset.buildbin-libdir genoset_1.43.0.tar.gz'
>>>>>>> 

* installing *source* package ‘genoset’ ...
** using staged installation
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c bounds.c -o bounds.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c init.c -o init.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c rangeSummaries.c -o rangeSummaries.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c utils.c -o utils.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 genoset.so bounds.o init.o rangeSummaries.o utils.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/genoset.buildbin-libdir/00LOCK-genoset/00new/genoset/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
From .checkSubclasses(): subclass "GenomicPos" of class "GenomicRanges" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x7f99ce214900>, where2=<environment: namespace:genoset>]
From .checkSubclasses(): subclass "UnstitchedGPos" of class "GenomicRanges" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x7f99ce214900>, where2=<environment: namespace:genoset>]
From .checkSubclasses(): subclass "StitchedGPos" of class "GenomicRanges" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x7f99ce214900>, where2=<environment: namespace:genoset>]
From .checkSubclasses(): subclass "UnstitchedGPos" of class "GenomicRanges" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x7f99ce214900>, where2=<environment: namespace:genoset>]
From .checkSubclasses(): subclass "StitchedGPos" of class "GenomicRanges" is not local and is not updated for new inheritance information currently; 
[where=<environment: 0x7f99ce214900>, where2=<environment: namespace:genoset>]
** 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 (genoset)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgcc_s.1.dylib" "genoset.buildbin-libdir/genoset/libs//genoset.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.3.dylib" "genoset.buildbin-libdir/genoset/libs//genoset.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.5.2.dylib" "genoset.buildbin-libdir/genoset/libs//genoset.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.dylib" "genoset.buildbin-libdir/genoset/libs//genoset.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "genoset.buildbin-libdir/genoset/libs//genoset.so"