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Package 239/251HostnameOS / ArchBUILDCHECKBUILD BIN
topGO 1.5.0
Adrian Alexa
Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/topGO
Last Changed Rev: 27716 / Revision: 29143
Last Changed Date: 2007-10-02 18:16:39 -0700 (Tue, 02 Oct 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK  WARNINGS 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  WARNINGS 
wellington Linux (openSUSE 10.3) / i686  OK  WARNINGS 
liverpool Windows Server 2003 R2 (32-bit) / x64 [ ERROR ] skipped  skipped 
lemming Windows Server 2003 (32-bit) / x64  ERROR  skipped  skipped 
Package: topGO
Version: 1.5.0
Command: E:\biocbld\bbs-2.2-bioc\R\bin\R.exe CMD build topGO
StartedAt: 2007-12-11 03:43:17 -0700 (Tue, 11 Dec 2007)
EndedAt: 2007-12-11 03:44:34 -0700 (Tue, 11 Dec 2007)
EllapsedTime: 77.7 seconds
RetCode: 1
Status: ERROR
PackageFile: None
PackageFileSize: NA

Command output

* checking for file 'topGO/DESCRIPTION' ... OK
* preparing 'topGO':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
installing R.css in E:/biocbld/bbs-2.2-bioc/tmpdir/Rinst380841119


---------- Making package topGO ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  installing inst files
  installing data files
  preparing package topGO for lazy loading
Loading required package: graph
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: GO
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: SparseM
Creating a new generic function for "print" in "topGO"
  installing man source files
  installing indices
  not zipping data
  installing help
Note: removing empty section \details
Note: removing empty section \details
Note: removing empty section \value
Note: removing empty section \value
Note: removing empty section \description
Note: removing empty section \seealso
Note: removing empty section \description
Note: removing empty section \seealso
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \section{Methods}
Note: removing empty section \section{Methods}
 >>> Building/Updating help pages for package 'topGO'
     Formats: text html latex example chm 
  GOFisherTest                      text    html    latex           chm
  GOKSTest                          text    html    latex           chm
  GOdata                            text    html    latex   example chm
  annFUN.hgu                        text    html    latex   example chm
  buildGOgraph.topology             text    html    latex           chm
  buildLevels                       text    html    latex   example chm
  classicCount-class                text    html    latex   example chm
  classicScore-class                text    html    latex   example chm
  elimCount-class                   text    html    latex   example chm
  elimScore-class                   text    html    latex   example chm
  getPvalues                        text    html    latex   example chm
  getSigGroups                      text    html    latex   example chm
  groupGOTerms                      text    html    latex           chm
  groupStats-class                  text    html    latex   example chm
  inducedGraph                      text    html    latex   example chm
  mapGenes2GOgraph                  text    html    latex   example chm
  printGenes-methods                text    html    latex           chm
  printGraph-methods                text    html    latex   example chm
  reverseArch                       text    html    latex   example chm
  topGO-package                     text    html    latex           chm
  topGOdata-class                   text    html    latex   example chm
  topGOresult-class                 text    html    latex           chm
  weightCount-class                 text    html    latex   example chm
  weightScore-class                 text    html    latex           chm
Microsoft HTML Help Compiler 4.74.8702



Compiling e:\biocbld\bbs-2.2-bioc\meat\topGO\chm\topGO.chm





Compile time: 0 minutes, 1 second

25	Topics

325	Local links

0	Internet links

1	Graphic





Created e:\biocbld\bbs-2.2-bioc\meat\topGO\chm\topGO.chm, 42,580 bytes

Compression decreased file by 105,413 bytes.

  adding MD5 sums

* DONE (topGO)
* creating vignettes ... ERROR
Loading required package: graph
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)'.

Loading required package: GO
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: SparseM
Loading required package: survival
Loading required package: splines
Loading required package: multtest
Loading required package: xtable
Loading required package: Rgraphviz

Error: processing vignette 'topGO.Rnw' failed with diagnostics:
 chunk 34 
Error in showSigOfNodes(GOdata, score(resultFis), firstTerms = 5, useInfo = "all") : 
  package Rgraphviz is required
In addition: Warning messages:
1: Use GenTable() 
2: In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'Rgraphviz'
Execution halted