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BioC 3.2: BUILD BIN report for CNPBayes on perceval

This page was generated on 2015-10-20 16:12:53 -0400 (Tue, 20 Oct 2015).

Package 198/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CNPBayes 1.0.0
Jacob Carey
Snapshot Date: 2015-10-19 19:24:09 -0400 (Mon, 19 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/CNPBayes
Last Changed Rev: 109589 / Revision: 109762
Last Changed Date: 2015-10-13 15:36:05 -0400 (Tue, 13 Oct 2015)
linux1.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  ERROR 
windows1.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  ERROR  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  ERROR [ OK ]
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  ERROR  OK 

Summary

Package: CNPBayes
Version: 1.0.0
Command: rm -rf CNPBayes.buildbin-libdir && mkdir CNPBayes.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CNPBayes_1.0.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CNPBayes.buildbin-libdir
StartedAt: 2015-10-20 13:21:11 -0400 (Tue, 20 Oct 2015)
EndedAt: 2015-10-20 13:22:45 -0400 (Tue, 20 Oct 2015)
EllapsedTime: 93.6 seconds
RetCode: 0
Status:  OK 
PackageFile: CNPBayes_1.0.0.tgz
PackageFileSize: 1.816 MiB

Command output

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###
### Running command:
###
###   rm -rf CNPBayes.buildbin-libdir && mkdir CNPBayes.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CNPBayes_1.0.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CNPBayes.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=CNPBayes.buildbin-libdir CNPBayes_1.0.0.tar.gz'
>>>>>>> 

* installing *source* package ‘CNPBayes’ ...
** libs
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 miscfunctions.cpp -o miscfunctions.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 reduced_pooledvariance.cpp -o reduced_pooledvariance.o
reduced_pooledvariance.cpp: In function ‘Rcpp::NumericVector full_theta_pooled(Rcpp::S4)’:
reduced_pooledvariance.cpp:46: warning: unused variable ‘prod’
reduced_pooledvariance.cpp: In function ‘Rcpp::S4 reduced_sigma_pooled(Rcpp::S4)’:
reduced_pooledvariance.cpp:86: warning: unused variable ‘K’
reduced_pooledvariance.cpp: In function ‘Rcpp::S4 reduced_pi_pooled(Rcpp::S4)’:
reduced_pooledvariance.cpp:242: warning: unused variable ‘K’
reduced_pooledvariance.cpp: In function ‘Rcpp::S4 reduced_mu_pooled(Rcpp::S4)’:
reduced_pooledvariance.cpp:331: warning: unused variable ‘K’
reduced_pooledvariance.cpp: In function ‘Rcpp::NumericVector p_nu0_reduced_pooled(Rcpp::S4)’:
reduced_pooledvariance.cpp:618: warning: unused variable ‘N’
reduced_pooledvariance.cpp: In function ‘Rcpp::S4 reduced_s20_pooled(Rcpp::S4)’:
reduced_pooledvariance.cpp:683: warning: unused variable ‘K’
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 singlebatch_pooledvar.cpp -o singlebatch_pooledvar.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 update.cpp -o update.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 updates_batch.cpp -o updates_batch.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 updates_marginal.cpp -o updates_marginal.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 updates_reduced_batch.cpp -o updates_reduced_batch.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 updates_reduced_marginal.cpp -o updates_reduced_marginal.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 CNPBayes.so RcppExports.o miscfunctions.o reduced_pooledvariance.o singlebatch_pooledvar.o update.o updates_batch.o updates_marginal.o updates_reduced_batch.o updates_reduced_marginal.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3/x86_64 -L/usr/local/lib/x86_64 -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3 -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/CNPBayes.buildbin-libdir/CNPBayes/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (CNPBayes)


>>>>>>> 
>>>>>>> FIXING LINKS FOR CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.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" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.2.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.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" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "CNPBayes.buildbin-libdir/CNPBayes/libs//CNPBayes.so"