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Package 276/294HostnameOS / ArchBUILDCHECKBUILD BIN
stam 1.10.0
Claudio Lottaz
Bioconductor Changelog
Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/stam
Last Changed Rev: 34811 / Revision: 38965
Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008)
wilson2 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.6) / i386  OK [ OK ] OK 
Package: stam
Version: 1.10.0
Command: /Library/Frameworks/R.framework/Versions/2.8/Resources/bin/R CMD check --no-vignettes stam_1.10.0.tar.gz
StartedAt: 2009-04-18 18:29:33 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 18:30:52 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 79.0 seconds
RetCode: 0
Status: OK
CheckDir: stam.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.3-bioc/meat/stam.Rcheck'
* using R version 2.8.1 Patched (2009-03-18 r48200)
* using session charset: ASCII
* checking for file 'stam/DESCRIPTION' ... OK
* this is package 'stam' version '1.10.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'stam' 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 stam-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating stam-manual.tex ... OK
* checking stam-manual.tex using pdflatex ... OK

stam.Rcheck/00install.out:

* Installing *source* package 'stam' ...
** libs
** arch - i386
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386  -I/usr/local/include    -fPIC  -g -O2 -Wall -c util.c -o util.o
gcc-4.2 -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names  -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o stam.so util.o   -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c util.c -o util.o
gcc-4.2 -arch ppc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names  -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o stam.so util.o   -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc64
gcc-4.2 -arch ppc64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/ppc64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c util.c -o util.o
gcc-4.2 -arch ppc64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names  -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o stam.so util.o   -L/Library/Frameworks/R.framework/Versions/2.8/Resources/lib/ppc64 -lR -dylib_file libRblas.dylib:/Library/Frameworks/R.framework/Versions/2.8/Resources/lib/ppc64/libRblas.dylib -Wl,-framework -Wl,CoreFoundation
** arch - x86_64
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/x86_64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c util.c -o util.o
gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names  -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o stam.so util.o   -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** data
** inst
** preparing package for lazy loading
Loading required package: GO.db
Loading required package: AnnotationDbi
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: DBI
Loading required package: pamr
Loading required package: cluster
Loading required package: survival
Loading required package: splines
Loading required package: annaffy
Loading required package: KEGG.db
** help
 >>> Building/Updating help pages for package 'stam'
     Formats: text html latex example 
  golubTrain.cv                     text    html    latex
  golubTrain.fit                    text    html    latex
  image.stamPrediction              text    html    latex
  plot.stamCV                       text    html    latex
  plot.stamFit                      text    html    latex
  plot.stamPrediction               text    html    latex
  stam-internal                     text    html    latex
  stam.cv                           text    html    latex   example
  stam.evaluate                     text    html    latex   example
  stam.fit                          text    html    latex   example
  stam.graph.plot                   text    html    latex
  stam.net                          text    html    latex   example
  stam.predict                      text    html    latex   example
  stam.rgb.colors                   text    html    latex   example
  stam.serve                        text    html    latex   example
  stam.writeHTML                    text    html    latex   example
  stamCV-class                      text    html    latex
  stamEval-class                    text    html    latex
  stamFit-class                     text    html    latex
  stamINode-class                   text    html    latex
  stamLeaf-class                    text    html    latex
  stamNet-class                     text    html    latex
  stamNode-class                    text    html    latex
  stamPrediction-class              text    html    latex
** building package indices ...
Loading required package: methods
Loading required package: utils
Welcome to Structured Analysis of Microarrays

* DONE (stam)