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Package 105/294HostnameOS / ArchBUILDCHECKBUILD BIN
GeneSelector 1.2.0
Martin Slawski
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/GeneSelector
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: GeneSelector
Version: 1.2.0
Command: /home/biocbuild/bbs-2.3-bioc/R/bin/R CMD check --no-vignettes GeneSelector_1.2.0.tar.gz
StartedAt: 2009-04-18 15:30:21 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 15:31:17 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 55.8 seconds
RetCode: 0
Status: OK
CheckDir: GeneSelector.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.3-bioc/meat/GeneSelector.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: UTF-8
* checking for file 'GeneSelector/DESCRIPTION' ... OK
* this is package 'GeneSelector' 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 'GeneSelector' 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
RankingPermutation,matrix-numeric: no visible binding for global
  variable ‘test’
* 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
* creating GeneSelector-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating GeneSelector-manual.tex ... OK
* checking GeneSelector-manual.tex using pdflatex ... OK

GeneSelector.Rcheck/00install.out:

* Installing *source* package 'GeneSelector' ...
** R
** data
** 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)'.

Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
  In method for function "toplist": formal arguments in method and function do not appear in the same order
Warning in rematchDefinition(definition, fdef, mnames, fnames, signature) :
  Arguments of method and generic are not in the same order
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
  In method for function "toplist": formal arguments in method and function do not appear in the same order
Warning in rematchDefinition(definition, fdef, mnames, fnames, signature) :
  Arguments of method and generic are not in the same order
Warning in conformMethod(signature, mnames, fnames, f, fdef, definition) :
  In method for function "GenerateBootMatrix": formal arguments in method and function do not appear in the same order
Warning in rematchDefinition(definition, fdef, mnames, fnames, signature) :
  Arguments of method and generic are not in the same order
** help
 >>> Building/Updating help pages for package 'GeneSelector'
     Formats: text html latex example 
  AdjustPvalues                     text    html    latex   example
  AggregateBayes-methods            text    html    latex
  AggregateBayes                    text    html    latex   example
  AggregatePCA-methods              text    html    latex
  AggregatePCA                      text    html    latex
  AggregatePenalty-methods          text    html    latex
  AggregatePenalty                  text    html    latex
  AggregateSimple-methods           text    html    latex
  AggregateSimple                   text    html    latex   example
  AggregatedRanking-class           text    html    latex
  BootMatrix-class                  text    html    latex
  CombinedRanking-class             text    html    latex
  FoldMatrix-class                  text    html    latex
  GeneRanking-class                 text    html    latex
  GeneSelector-methods              text    html    latex
  GeneSelector-package              text    html    latex
  GeneSelector                      text    html    latex   example
  GenerateBootMatrix-methods        text    html    latex
  GenerateBootMatrix                text    html    latex   example
  GenerateFoldMatrix-methods        text    html    latex
  GenerateFoldMatrix                text    html    latex   example
  GetAlpha                          text    html    latex   example
  GetRepeatRanking-methods          text    html    latex
  GetRepeatRanking                  text    html    latex   example
  GetStabilityGLM-methods           text    html    latex
  GetStabilityGLM                   text    html    latex
  GetStabilityLm-methods            text    html    latex
  GetStabilityLm                    text    html    latex   example
  GetStabilityOverlap-methods       text    html    latex
  GetStabilityOverlap               text    html    latex   example
  GetStabilityPCA-methods           text    html    latex
  GetStabilityPCA                   text    html    latex
  HeatmapMethods-methods            text    html    latex
  HeatmapMethods                    text    html    latex   example
  PCAMethods-methods                text    html    latex
  PCAMethods                        text    html    latex
  PCAMethodsResult-class            text    html    latex
  RankingBaldiLong-methods          text    html    latex
  RankingBaldiLong                  text    html    latex   example
  RankingBstat-methods              text    html    latex
  RankingBstat                      text    html    latex   example
  RankingEbam-methods               text    html    latex
  RankingEbam                       text    html    latex   example
  RankingFC-methods                 text    html    latex
  RankingFC                         text    html    latex   example
  RankingFoxDimmic-methods          text    html    latex
  RankingFoxDimmic                  text    html    latex   example
  RankingGap-methods                text    html    latex
  RankingGap                        text    html    latex   example
  RankingLimma-methods              text    html    latex
  RankingLimma                      text    html    latex   example
  RankingPermutation-methods        text    html    latex
  RankingPermutation                text    html    latex   example
  RankingSam-methods                text    html    latex
  RankingSam                        text    html    latex   example
  RankingShrinkageT-methods         text    html    latex
  RankingShrinkageT                 text    html    latex   example
  RankingSoftthresholdT-methods     text    html    latex
  RankingSoftthresholdT             text    html    latex   example
  RankingTstat-methods              text    html    latex
  RankingTstat                      text    html    latex   example
  RankingWelchT-methods             text    html    latex
  RankingWelchT                     text    html    latex   example
  RankingWilcEbam-methods           text    html    latex
  RankingWilcEbam                   text    html    latex   example
  RankingWilcoxon-methods           text    html    latex
  RankingWilcoxon                   text    html    latex   example
  RecoveryScore                     text    html    latex   example
  RepeatRanking-class               text    html    latex
  StabilityGLM-class                text    html    latex
  StabilityLm-class                 text    html    latex
  StabilityOverlap-class            text    html    latex
  StabilityPCA-class                text    html    latex
  internals                         text    html    latex
  join-methods                      text    html    latex
  join                              text    html    latex
  plot,AggregatedRanking            text    html    latex
  plot,CombinedRanking              text    html    latex
  plot,RepeatRanking                text    html    latex
  plot,StabilityLm                  text    html    latex
  plot,StabilityOverlap             text    html    latex
  samplingcontrol                   text    html    latex
  summary,GeneRanking               text    html    latex
  summary,StabilityOverlap          text    html    latex
  toplist-methods                   text    html    latex
  toydata                           text    html    latex   example
  variance,RepeatRanking            text    html    latex
** building package indices ...
* DONE (GeneSelector)