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BioC 3.2: BUILD BIN report for R3CPET on perceval

This page was generated on 2015-11-10 14:49:50 -0800 (Tue, 10 Nov 2015).

Package 831/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
R3CPET 1.2.0
Mohamed Nadhir Djekidel
Snapshot Date: 2015-11-09 16:24:09 -0800 (Mon, 09 Nov 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/R3CPET
Last Changed Rev: 109589 / Revision: 110496
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: R3CPET
Version: 1.2.0
Command: rm -rf R3CPET.buildbin-libdir && mkdir R3CPET.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh R3CPET_1.2.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R R3CPET.buildbin-libdir
StartedAt: 2015-11-10 11:39:42 -0800 (Tue, 10 Nov 2015)
EndedAt: 2015-11-10 11:40:37 -0800 (Tue, 10 Nov 2015)
EllapsedTime: 55.8 seconds
RetCode: 0
Status:  OK 
PackageFile: R3CPET_1.2.0.tgz
PackageFileSize: 4.944 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf R3CPET.buildbin-libdir && mkdir R3CPET.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh R3CPET_1.2.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R R3CPET.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=R3CPET.buildbin-libdir R3CPET_1.2.0.tar.gz'
>>>>>>> 

* installing *source* package ‘R3CPET’ ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c R3CPET_init.c -o R3CPET_init.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c RcppExports.cpp -o RcppExports.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c corpus.cpp -o corpus.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c main.cpp -o main.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c state.cpp -o state.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c stirln.cpp -o stirln.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c utils.cpp -o utils.o
llvm-g++-4.2 -arch x86_64 -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 -L/usr/local/lib -o R3CPET.so R3CPET_init.o RcppExports.o corpus.o main.o state.o stirln.o utils.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/R3CPET.buildbin-libdir/R3CPET/libs
** R
** data
** inst
** preparing package for lazy loading
No methods found in "GenomicRanges" for requests: seqlengths
No methods found in "GenomicRanges" for requests: keepSeqlevels
No methods found in "GenomicRanges" for requests: seqlevels
No methods found in "GenomicRanges" for requests: seqlengths<-
NOTE: arguments in definition for validity method for class 'ChromMaintainers' changed from (x) to (object)
NOTE: arguments in definition for validity method for class 'HLDAResult' changed from (x) to (object)
NOTE: arguments in definition for validity method for class 'NetworkCollection' changed from (x) to (object)
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
No methods found in "GenomicRanges" for requests: seqlengths
No methods found in "GenomicRanges" for requests: keepSeqlevels
No methods found in "GenomicRanges" for requests: seqlevels
No methods found in "GenomicRanges" for requests: seqlengths<-
* DONE (R3CPET)


>>>>>>> 
>>>>>>> FIXING LINKS FOR R3CPET.buildbin-libdir/R3CPET/libs//R3CPET.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "R3CPET.buildbin-libdir/R3CPET/libs//R3CPET.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.2.dylib" "R3CPET.buildbin-libdir/R3CPET/libs//R3CPET.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "R3CPET.buildbin-libdir/R3CPET/libs//R3CPET.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "R3CPET.buildbin-libdir/R3CPET/libs//R3CPET.so"