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| Package 158/214 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
puma1.2.0Richard PearsonLast Changed Date: 2007-04-24 11:21:48 -0700 Last Changed Rev: 24214 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
| wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
| churchill | Solaris 2.9 | sparc | OK | OK | ||
| lemming | Windows Server 2003 (32-bit) | x64 | OK | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | OK | OK | |
| derby | Mac OS X (10.4.9) | i686 | OK | [ OK ] |
| Package: puma |
| Version: 1.2.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check puma_1.2.0.tar.gz |
| RetCode: 0 |
| Time: 396.9 seconds |
| Status: OK |
| CheckDir: puma.Rcheck |
| Warnings: 0 |
* checking for working latex ... OK * using log directory '/Users/biocbuild/bbs-2.0-bioc/meat/puma.Rcheck' * using R version 2.5.0 (2007-04-23) * checking for file 'puma/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'puma' version '1.2.0' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'puma' 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 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 for CRLF line endings in C/C++/Fortran sources/headers ... OK * checking for portable use of $BLAS_LIBS ... OK * creating puma-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating puma-manual.tex ... OK * checking puma-manual.tex ... OK
puma.Rcheck/00install.out:
* Installing *source* package 'puma' ...
** libs
** arch - i386
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 -std=gnu99 -march=nocona -c cregistration.c -o cregistration.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 -std=gnu99 -march=nocona -c donlp2.c -o donlp2.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 -std=gnu99 -march=nocona -c multimgmos.c -o multimgmos.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 -std=gnu99 -march=nocona -c newx.c -o newx.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 -std=gnu99 -march=nocona -c pplr_c.c -o pplr_c.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 -std=gnu99 -march=nocona -c pumaclust_c.c -o pumaclust_c.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 -std=gnu99 -march=nocona -c user_eval.c -o user_eval.o
gcc-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 puma.so cregistration.o donlp2.o multimgmos.o newx.o pplr_c.o pumaclust_c.o user_eval.o -F/Library/Frameworks/R.framework/.. -framework R
** arch - ppc
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 -c cregistration.c -o cregistration.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 -c donlp2.c -o donlp2.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 -c multimgmos.c -o multimgmos.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 -c newx.c -o newx.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 -c pplr_c.c -o pplr_c.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 -c pumaclust_c.c -o pumaclust_c.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 -c user_eval.c -o user_eval.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o puma.so cregistration.o donlp2.o multimgmos.o newx.o pplr_c.o pumaclust_c.o user_eval.o -F/Library/Frameworks/R.framework/.. -framework R
** R
** data
** demo
** 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: affy
Loading required package: affyio
Loading required package: limma
Loading required package: annotate
Loading required package: ROCR
Loading required package: gplots
Loading required package: gtools
Loading required package: gdata
Attaching package: 'gdata'
The following object(s) are masked from package:Biobase :
combine
Attaching package: 'gplots'
The following object(s) are masked from package:stats :
lowess
** help
>>> Building/Updating help pages for package 'puma'
Formats: text html latex example
Clust.exampleE text html latex
Clust.exampleStd text html latex
bcomb text html latex example
calculateLimma text html latex example
clusterApplyLBDots text html latex
clusterNormE text html latex example
clusterNormVar text html latex example
compareLimmapumaDE text html latex
createContrastMatrix text html latex example
createDesignMatrix text html latex example
create_eset_r text html latex
erfc text html latex example
exampleE text html latex
exampleStd text html latex
exprReslt-class text html latex example
hgu95aphis text html latex
justmgMOS text html latex example
justmmgMOS text html latex example
legend2 text html latex example
license.puma text html latex example
matrixDistance text html latex example
mgmos text html latex example
mmgmos text html latex example
normalisation.gs text html latex example
numOfFactorsToUse text html latex example
orig_pplr text html latex example
plot-methods text html latex example
plotErrorBars text html latex example
plotHistTwoClasses text html latex example
plotROC text html latex example
plotWhiskers text html latex
pplr text html latex example
pplrUnsorted text html latex
puma-package text html latex example
pumaComb text html latex example
pumaDE text html latex example
pumaDEUnsorted text html latex
pumaFull text html latex example
pumaNormalize text html latex example
pumaPCA text html latex example
pumaPCAExpectations-class text html latex
pumaPCAModel-class text html latex
pumaPCARes-class text html latex
pumaclust text html latex example
** building package indices ...
* DONE (puma)