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 |
* 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