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IMPORTANT NOTE: R was configured with --enable-strict-barrier on lamb1 |
Package 82/247 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
genefilter1.15.10Biocore Team c/o BioC user listLast Changed Date: 2007-08-20 09:33:20 -0700 Last Changed Rev: 26527 | 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: genefilter |
Version: 1.15.10 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check genefilter_1.15.10.tar.gz |
RetCode: 0 |
Time: 99.9 seconds |
Status: OK |
CheckDir: genefilter.Rcheck |
Warnings: 0 |
* checking for working latex ... OK * using log directory '/Users/biocbuild/bbs-2.1-bioc/meat/genefilter.Rcheck' * using R version 2.6.0 Under development (unstable) (2007-08-10 r42465) * checking for file 'genefilter/DESCRIPTION' ... OK * this is package 'genefilter' version '1.15.10' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'genefilter' 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 ... NOTE eSetFilter : buildGUI: no visible binding for '<<-' assignment to 'END' eSetFilter : buildGUI : finish: no visible binding for '<<-' assignment to 'END' eSetFilter : buildGUI: no visible binding for global variable 'END' * 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 genefilter-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating genefilter-manual.tex ... OK * checking genefilter-manual.tex ... OK
genefilter.Rcheck/00install.out:
* Installing *source* package 'genefilter' ... ** 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 half_range_mode.cpp -o half_range_mode.o gcc-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 -D__NO_MATH_INLINES -fPIC -g -O2 -Wall -std=gnu99 -march=nocona -c init.c -o init.o gcc-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 -D__NO_MATH_INLINES -fPIC -g -O2 -Wall -std=gnu99 -march=nocona -c nd.c -o nd.o nd.c: In function 'gf_dist_binary': nd.c:242: warning: unused variable 'w2' nd.c:242: warning: unused variable 'w1' gcc-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 -D__NO_MATH_INLINES -fPIC -g -O2 -Wall -std=gnu99 -march=nocona -c pAUC.c -o pAUC.o pAUC.c: In function 'pAUC_c': pAUC.c:75: warning: operation on 'ta' may be undefined pAUC.c:78: warning: operation on 'ta' may be undefined pAUC.c:81: warning: operation on 'ta' may be undefined pAUC.c: In function 'pAUC': pAUC.c:141: warning: suggest parentheses around comparison in operand of | pAUC.c:123: warning: unused variable 'i' pAUC.c: In function 'pAUC_c': pAUC.c:22: warning: 'ysum' may be used uninitialized in this function pAUC.c:22: warning: 'xsum' may be used uninitialized in this function gcc-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 -D__NO_MATH_INLINES -fPIC -g -O2 -Wall -std=gnu99 -march=nocona -c rowPAUCs.c -o rowPAUCs.o rowPAUCs.c: In function 'ROCpAUC_c': rowPAUCs.c:96: warning: operation on 'ta' may be undefined rowPAUCs.c:99: warning: operation on 'ta' may be undefined rowPAUCs.c:102: warning: operation on 'ta' may be undefined gcc-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 -D__NO_MATH_INLINES -fPIC -g -O2 -Wall -std=gnu99 -march=nocona -c rowttests.c -o rowttests.o gfortran-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -fPIC -g -O2 -Wall -march=nocona -c ttest.f -o ttest.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 genefilter.so half_range_mode.o init.o nd.o pAUC.o rowPAUCs.o rowttests.o ttest.o -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.1 -lgfortran -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 half_range_mode.cpp -o half_range_mode.o gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -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 init.c -o init.o gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -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 nd.c -o nd.o nd.c: In function 'gf_dist_binary': nd.c:242: warning: unused variable 'w2' nd.c:242: warning: unused variable 'w1' gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -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 pAUC.c -o pAUC.o pAUC.c: In function 'pAUC_c': pAUC.c:75: warning: operation on 'ta' may be undefined pAUC.c:78: warning: operation on 'ta' may be undefined pAUC.c:81: warning: operation on 'ta' may be undefined pAUC.c: In function 'pAUC': pAUC.c:141: warning: suggest parentheses around comparison in operand of | pAUC.c:123: warning: unused variable 'i' pAUC.c: In function 'pAUC_c': pAUC.c:22: warning: 'ysum' may be used uninitialized in this function pAUC.c:22: warning: 'xsum' may be used uninitialized in this function gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -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 rowPAUCs.c -o rowPAUCs.o rowPAUCs.c: In function 'ROCpAUC_c': rowPAUCs.c:96: warning: operation on 'ta' may be undefined rowPAUCs.c:99: warning: operation on 'ta' may be undefined rowPAUCs.c:102: warning: operation on 'ta' may be undefined gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -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 rowttests.c -o rowttests.o gfortran-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -fPIC -g -O2 -Wall -c ttest.f -o ttest.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 genefilter.so half_range_mode.o init.o nd.o pAUC.o rowPAUCs.o rowttests.o ttest.o -L/usr/local/lib/gcc/powerpc-apple-darwin8/4.2.1 -lgfortran -lSystemStubs -F/Library/Frameworks/R.framework/.. -framework R ** R ** data ** moving datasets to lazyload DB ** inst ** preparing package for lazy loading Loading required package: Biobase Loading required package: tools Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Loading required package: survival Loading required package: splines Creating a new generic function for "plot" in "genefilter" ** help >>> Building/Updating help pages for package 'genefilter' Formats: text html latex example Anova text html latex example allNA text html latex example coxfilter text html latex example cv text html latex example dist2 text html latex example eSetFilter text html latex example filterfun text html latex example findLargest text html latex example gapFilter text html latex example genefilter text html latex example genefinder text html latex example genescale text html latex example half.range.mode text html latex example kOverA text html latex example maxA text html latex example nsFilter text html latex example pOverA text html latex example rowFtests text html latex example rowROC-class text html latex example rowSds text html latex example rowpAUCs text html latex example shorth text html latex example tdata text html latex example ttest text html latex example ** building package indices ... * DONE (genefilter)