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Package 31/319HostnameOS / ArchBUILDCHECKBUILD BIN
ArrayTools 1.4.0
Arthur Li
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/ArrayTools
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 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 (10.5.8) / i386  OK  OK  OK 
Package: ArrayTools
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes ArrayTools_1.4.0.tar.gz
StartedAt: 2009-10-20 16:56:03 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 16:57:27 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 83.7 seconds
RetCode: 0
Status: OK
CheckDir: ArrayTools.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/ArrayTools.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49419)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'ArrayTools/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ArrayTools' version '1.4.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'ArrayTools' 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
preProcessGeneST: no visible binding for global variable
  ‘hugene10stCONTROL’
preProcessGeneST: no visible binding for global variable
  ‘mogene10stCONTROL’
regress: no visible global function definition for ‘permute.1’
regress: no visible binding for global variable ‘design’
* checking Rd files ... OK
* checking Rd files against version 2 parser ... 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 examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

ArrayTools.Rcheck/00install.out:

* Installing *source* package ‘ArrayTools’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Creating a new generic function for "summary" in "ArrayTools"
** help
*** installing help indices
 >>> Building/Updating help pages for package 'ArrayTools'
     Formats: text html latex example 
  Output2HTML                       text    html    latex   example
  QC                                text    html    latex   example
  Sort                              text    html    latex   example
  adjustment                        text    html    latex
  contrastMatrix-class              text    html    latex   example
  createExpressionSet               text    html    latex   example
  createGSEAFiles                   text    html    latex   example
  createIndex                       text    html    latex   example
  createIngenuityFile               text    html    latex   example
  designMatrix-class                text    html    latex   example
  eSetExample                       text    html    latex   example
  exprsExample                      text    html    latex   example
  geneFilter                        text    html    latex   example
  getAdjP                           text    html    latex
  getAnnotation                     text    html    latex
  getCompare1                       text    html    latex
  getCompare2                       text    html    latex
  getContrast                       text    html    latex
  getCovariates                     text    html    latex
  getDesign                         text    html    latex
  getF                              text    html    latex
  getFC                             text    html    latex
  getFCCutoff                       text    html    latex
  getFilterMethod                   text    html    latex
  getID                             text    html    latex
  getIndex                          text    html    latex
  getIntIndex                       text    html    latex
  getInteraction                    text    html    latex
  getLength                         text    html    latex
  getLevel                          text    html    latex
  getNormalizationMethod            text    html    latex
  getP                              text    html    latex
  getPCutoff                        text    html    latex
  getTarget                         text    html    latex
  hugene10stCONTROL                 text    html    latex
  interactionResult-class           text    html    latex   example
  mogene10stCONTROL                 text    html    latex
  output.cls                        text    html    latex
  output.gct                        text    html    latex
  output.ing                        text    html    latex
  pDataExample                      text    html    latex   example
  postInteraction                   text    html    latex   example
  preProcess3prime                  text    html    latex   example
  preProcessGeneST                  text    html    latex   example
  qa3prime                          text    html    latex   example
  qaGeneST                          text    html    latex   example
  regress                           text    html    latex   example
  regressResult-class               text    html    latex   example
  regressionMethod                  text    html    latex
  selectSigGene                     text    html    latex   example
  selectSigGeneInt                  text    html    latex   example
** building package indices ...
* DONE (ArrayTools)