Package: GOstats

Version: 2.3.15

Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD build GOstats

RetCode: 1

Time: 32.2 seconds

Status: ERROR

PackageFile: None

* checking for file 'GOstats/DESCRIPTION' ... OK
* preparing 'GOstats':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
installing R.css in E:/biocbld/bbs-2.1-bioc/tmpdir/Rinst238477304


---------- Making package GOstats ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  installing inst files
  installing data files
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'GOstats'
     Formats: text html latex example chm 
  GOHyperG                          text    html    latex   example chm
  GOHyperGResult-class              text    html    latex           chm
  GOLeaves                          text    html    latex   example chm
  GOstats-defunct                   text    html    latex           chm
  GOstats-package                   text    html    latex           chm
  Ndists                            text    html    latex   example chm
  compCorrGraph                     text    html    latex   example chm
  compGdist                         text    html    latex   example chm
  hyperG2Affy                       text    html    latex   example chm
  hyperGTest                        text    html    latex           chm
  hyperGtable                       text    html    latex   example chm
  idx2dimnames                      text    html    latex   example chm
  makeGOGraph                       text    html    latex   example chm
  notConn                           text    html    latex   example chm
  oneGOGraph                        text    html    latex   example chm
  probeSetSummary                   text    html    latex           chm
  shortestPath                      text    html    latex   example chm
  simLL                             text    html    latex   example chm
  termGraphs                        text    html    latex           chm
  triadCensus                       text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702



Compiling e:\biocbld\bbs-2.1-bioc\meat\GOstats\chm\GOstats.chm





Compile time: 0 minutes, 1 second

21	Topics

78	Local links

0	Internet links

1	Graphic





Created e:\biocbld\bbs-2.1-bioc\meat\GOstats\chm\GOstats.chm, 53,404 bytes

Compression decreased file by 41,035 bytes.

  preparing package GOstats for lazy loading
Loading required package: graph
Loading required package: GO.db
Loading required package: AnnotationDbi
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: DBI
Loading required package: RSQLite
Loading required package: annotate
Loading required package: RBGL
Loading required package: Category
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
  adding MD5 sums

* DONE (GOstats)
* creating vignettes ... ERROR
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: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite

Attaching package: 'GO.db'


	The following object(s) are masked from package:hgu95av2.db :

	 db_conn,
	 db_file 

Loading required package: survival
Loading required package: splines
Loading required package: graph
Loading required package: RBGL
Loading required package: Category

Attaching package: 'Rgraphviz'


	The following object(s) are masked from package:annotate :

	 toFile 


Error: processing vignette 'GOstatsHyperG.Rnw' failed with diagnostics:
 chunk 6 (label=nsFiltering-noGO) 
Error in sqliteExecStatement(con, statement, bind.data) : 
  RS-DBI driver: (error in statement: near ",": syntax error)
In addition: Warning message:
In if (!is.na(L2Rlink@tagname)) L2Rlink@tagname :
  the condition has length > 1 and only the first element will be used
Execution halted