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Package 83/234 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
GeneticsBase 1.2.0 Gregory Warnes Last Changed Date: 2007-10-02 17:41:09 -0700 Last Changed Rev: 27709 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | OK | OK | |
pitt | Mac OS X (10.4.10) | i386 | OK | [ OK ] | OK |
Package: GeneticsBase |
Version: 1.2.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check GeneticsBase_1.2.0.tar.gz |
RetCode: 0 |
Time: 126.4 seconds |
Status: OK |
CheckDir: GeneticsBase.Rcheck |
Warnings: 0 |
* checking for working latex ... OK * using log directory '/Users/biocbuild/bbs-2.1-bioc/meat/GeneticsBase.Rcheck' * using R version 2.6.0 (2007-10-03) * checking for file 'GeneticsBase/DESCRIPTION' ... OK * this is package 'GeneticsBase' version '1.2.0' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'GeneticsBase' can be installed ... OK * checking package directory ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the name space can be loaded with stated dependencies ... OK * checking for unstated dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking data for non-ASCII characters ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking for portable use of $BLAS_LIBS ... OK * creating GeneticsBase-Ex.R ... OK * checking examples ... OK * checking tests ... Running 'ExampleScript001.R' Running 'test.R' OK * checking package vignettes in 'inst/doc' ... OK * creating GeneticsBase-manual.tex ... OK * checking GeneticsBase-manual.tex ... OK
GeneticsBase.Rcheck/00install.out:
* Installing *source* package 'GeneticsBase' ... ** libs ** arch - i386 g++-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -fPIC -g -O2 -Wall -march=nocona -c LdMax.cpp -o LdMax.o g++-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -fPIC -g -O2 -Wall -march=nocona -c convert.cpp -o convert.o g++-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -fPIC -g -O2 -Wall -march=nocona -c getLDdist.cpp -o getLDdist.o g++-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -fPIC -g -O2 -Wall -march=nocona -c readGenes.ped.cpp -o readGenes.ped.o g++-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -fPIC -g -O2 -Wall -march=nocona -c register.cpp -o register.o g++-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o GeneticsBase.so LdMax.o convert.o getLDdist.o readGenes.ped.o register.o -F/Library/Frameworks/R.framework/.. -framework R ** arch - ppc g++-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -c LdMax.cpp -o LdMax.o g++-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -c convert.cpp -o convert.o g++-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -c getLDdist.cpp -o getLDdist.o g++-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -c readGenes.ped.cpp -o readGenes.ped.o g++-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -c register.cpp -o register.o g++-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o GeneticsBase.so LdMax.o convert.o getLDdist.o readGenes.ped.o register.o -F/Library/Frameworks/R.framework/.. -framework R ** R ** data ** inst ** preparing package for lazy loading Loading required package: combinat Attaching package: 'combinat' The following object(s) are masked from package:utils : combn Loading required package: xtable Loading required package: mvtnorm Loading required package: haplo.stats ** help >>> Building/Updating help pages for package 'GeneticsBase' Formats: text html latex example ALZH text html latex example Armitage text html latex example CAMP text html latex example HWE text html latex example HWE.chisq text html latex example HWE.exact text html latex example LD-class text html latex example LD text html latex example LDband-class text html latex example LDdist-class text html latex PGtables text html latex example PerlgenExample text html latex example PfizerExample text html latex example alleleCount text html latex example alleleLevels text html latex example alleleSummary text html latex example alleles text html latex example binsearch text html latex example callCodes text html latex example ci.balance text html latex example convert text html latex example decodeCallCodes text html latex example desMarkers text html latex example description text html latex example diseq text html latex example errorMetrics text html latex example extractAlleles text html latex example fastGrid text html latex example founderGeneSet text html latex example geneSet-class text html latex example geneSet2Ped text html latex example genotypeCoding text html latex example genotypeLevels text html latex example genotypeSummary text html latex example genotypes text html latex example gregorius text html latex example haplo.em.w text html latex example haplo.scan.w text html latex example haplo.score.slide.w text html latex example haplo.score.w text html latex example hapmapchr text html latex example homozygote text html latex example html text html latex example left text html latex example makeMarkerInfo text html latex example makeTransTable text html latex example makeTransTableList text html latex example markerInfo text html latex example markerNames text html latex example markerSummary text html latex example missingCodes text html latex example nallele text html latex example nmarker text html latex example notes text html latex example ped2geneSet text html latex phase text html latex example ploidy text html latex example print.LD text html latex example qtlex text html latex example read.pfizer text html latex example read.phe text html latex example readGenes text html latex example readGenes.ped text html latex example readGenes.perlegen text html latex example readGenes.pfizer text html latex example sampleInfo text html latex example studyInfo text html latex example transTables text html latex example xbat text html latex example ** building package indices ... Loading required package: methods Loading required package: combinat Attaching package: 'combinat' The following object(s) are masked from package:utils : combn Loading required package: xtable Loading required package: mvtnorm Loading required package: haplo.stats * DONE (GeneticsBase)