Package: annotate

Version: 1.14.1

Command: /loc/biocbuild/bbs-2.0-bioc/R/bin/R CMD check annotate_1.14.1.tar.gz

RetCode: 0

Time: 651.9 seconds

Status: OK

CheckDir: annotate.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory '/extra/loc/biocbuild/bbs-2.0-bioc/meat/annotate.Rcheck'
* using R version 2.5.1 (2007-06-27)
* checking for file 'annotate/DESCRIPTION' ... OK
* this is package 'annotate' version '1.14.1'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'annotate' 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
* creating annotate-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating annotate-manual.tex ... OK
* checking annotate-manual.tex ... OK

* Installing *source* package 'annotate' ...
** R
** data
** inst
** save image
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)'.

** help
 >>> Building/Updating help pages for package 'annotate'
     Formats: text html latex example 
  ACCNUMStats                       text    html    latex   example
  GO2heatmap                        text    html    latex   example
  GOTerms-class                     text    html    latex   example
  GOmnplot                          text    html    latex   example
  HTMLPage-class                    text    html    latex   example
  LL2homology                       text    html    latex   example
  PMIDAmat                          text    html    latex   example
  PWAmat                            text    html    latex   example
  UniGeneQuery                      text    html    latex   example
  accessionToUID                    text    html    latex   example
  annPkgName                        text    html    latex   example
  aqListGOIDs                       text    html    latex   example
  buildChromLocation                text    html    latex   example
  buildPubMedAbst                   text    html    latex   example
  chrCats                           text    html    latex   example
  chromLocation-class               text    html    latex   example
  compatibleVersions                text    html    latex   example
  dropECode                         text    html    latex   example
  filterGOByOntology                text    html    latex   example
  findNeighbors                     text    html    latex   example
  genbank                           text    html    latex   example
  genelocator                       text    html    latex   example
  getAnnMap                         text    html    latex   example
  getEvidence                       text    html    latex   example
  getGOTerm                         text    html    latex   example
  getOntology                       text    html    latex   example
  getPMInfo                         text    html    latex   example
  getSYMBOL                         text    html    latex   example
  getSeq4Acc                        text    html    latex   example
  getTDRows                         text    html    latex
  hasGOannote                       text    html    latex   example
  hgByChroms                        text    html    latex   example
  hgCLengths                        text    html    latex   example
  hgu95AProbLocs                    text    html    latex
  hgu95Achroloc                     text    html    latex   example
  hgu95Achrom                       text    html    latex   example
  hgu95All                          text    html    latex   example
  hgu95Asym                         text    html    latex   example
  homoData-class                    text    html    latex   example
  htmlpage                          text    html    latex   example
  installDataPackage                text    html    latex   example
  locuslinkById                     text    html    latex   example
  locuslinkQuery                    text    html    latex   example
  makeAnchor                        text    html    latex   example
  neighborGeneFinder                text    html    latex   example
  p2LL                              text    html    latex   example
  pm.abstGrep                       text    html    latex   example
  pm.getabst                        text    html    latex   example
  pm.titles                         text    html    latex   example
  pmAbst2HTML                       text    html    latex   example
  pmid2MIAME                        text    html    latex   example
  pmidQuery                         text    html    latex   example
  probesByLL                        text    html    latex   example
  pubMedAbst-class                  text    html    latex   example
  pubmed                            text    html    latex   example
  readGEOAnn                        text    html    latex   example
  serializeEnv                      text    html    latex   example
  usedChromGenes                    text    html    latex   example
** building package indices ...
* DONE (annotate)