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Package 20/260HostnameOS / ArchBUILDCHECKBUILD BIN
annotate 1.18.0
Biocore Team c/o BioC user list
Snapshot Date: 2008-10-16 00:10:09 -0700 (Thu, 16 Oct 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/annotate
Last Changed Rev: 31430 / Revision: 34573
Last Changed Date: 2008-04-29 16:50:18 -0700 (Tue, 29 Apr 2008)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  OK  ERROR 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
Package: annotate
Version: 1.18.0
Command: E:\biocbld\bbs-2.2-bioc\R\bin\R.exe CMD check annotate_1.18.0.tar.gz
StartedAt: 2008-10-16 05:01:53 -0700 (Thu, 16 Oct 2008)
EndedAt: 2008-10-16 05:06:57 -0700 (Thu, 16 Oct 2008)
EllapsedTime: 303.7 seconds
RetCode: 0
Status: OK
CheckDir: annotate.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-bioc/meat/annotate.Rcheck'
* using R version 2.7.2 (2008-08-25)
* using session charset: ISO8859-1
* checking for file 'annotate/DESCRIPTION' ... OK
* this is package 'annotate' version '1.18.0'
* checking package name space information ... OK
* 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 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 using pdflatex ... OK

annotate.Rcheck/00install.out:

installing R.css in E:/biocbld/bbs-2.2-bioc/meat/annotate.Rcheck


---------- Making package annotate ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  installing inst files
  installing data files
  preparing package annotate 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: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: xtable
  installing man source files
  installing indices
  not zipping data
  installing help
Note: removing empty section \value
Note: removing empty section \value
Note: removing empty section \seealso
Note: removing empty section \seealso
Note: removing empty section \details
Note: removing empty section \note
Note: removing empty section \details
Note: removing empty section \note
Note: removing empty section \details
Note: removing empty section \details
Note: removing empty section \references
Note: removing empty section \seealso
Note: removing empty section \references
Note: removing empty section \seealso
 >>> Building/Updating help pages for package 'annotate'
     Formats: text html latex example chm 
  ACCNUMStats                       text    html    latex   example chm
  GO2heatmap                        text    html    latex   example chm
  GOmnplot                          text    html    latex   example chm
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  UniGeneQuery                      text    html    latex   example chm
  accessionToUID                    text    html    latex   example chm
  annPkgName                        text    html    latex   example chm
  aqListGOIDs                       text    html    latex   example chm
  buildChromLocation                text    html    latex   example chm
  buildPubMedAbst                   text    html    latex   example chm
  chrCats                           text    html    latex   example chm
  chromLocation-class               text    html    latex   example chm
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  dropECode                         text    html    latex   example chm
  filterGOByOntology                text    html    latex   example chm
  findNeighbors                     text    html    latex   example chm
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  genelocator                       text    html    latex   example chm
  getAnnMap                         text    html    latex   example chm
  getEvidence                       text    html    latex   example chm
  getGOTerm                         text    html    latex   example chm
  getOntology                       text    html    latex   example chm
  getPMInfo                         text    html    latex   example chm
  getSYMBOL                         text    html    latex   example chm
  getSeq4Acc                        text    html    latex   example chm
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  mapOrgs                           text    html    latex           chm
  neighborGeneFinder                text    html    latex   example chm
  p2LL                              text    html    latex   example chm
  pm.abstGrep                       text    html    latex   example chm
  pm.getabst                        text    html    latex   example chm
  pm.titles                         text    html    latex   example chm
  pmAbst2HTML                       text    html    latex   example chm
  pmid2MIAME                        text    html    latex   example chm
  pmidQuery                         text    html    latex   example chm
  probesByLL                        text    html    latex   example chm
  pubMedAbst-class                  text    html    latex   example chm
  pubmed                            text    html    latex   example chm
  readGEOAnn                        text    html    latex   example chm
  serializeEnv                      text    html    latex   example chm
  usedChromGenes                    text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.2-bioc\meat\annotate.Rcheck\00_pkg_src\annotate\chm\annotate.chm


Compile time: 0 minutes, 1 second
56	Topics
279	Local links
5	Internet links
1	Graphic


Created e:\biocbld\bbs-2.2-bioc\meat\annotate.Rcheck\00_pkg_src\annotate\chm\annotate.chm, 89,295 bytes
Compression decreased file by 130,209 bytes.
  adding MD5 sums

* DONE (annotate)