Package: GeneMeta

Version: 1.9.0

Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD check GeneMeta_1.9.0.tar.gz

RetCode: 1

Time: 117.8 seconds

Status: ERROR

CheckDir: GeneMeta.Rcheck

Warnings: NA

* checking for working latex ... OK
* using log directory '/extra/loc/biocbuild/bbs-2.1-bioc/meat/GeneMeta.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-06-03 r41797)
* checking for file 'GeneMeta/DESCRIPTION' ... OK
* this is package 'GeneMeta' version '1.9.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GeneMeta' 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 GeneMeta-Ex.R ... OK
* checking examples ... ERROR
Running examples in 'GeneMeta-Ex.R' failed.
The error most likely occurred in:

> ### * zscore
> 
> flush(stderr()); flush(stdout())
> 
> ### Name: zScores
> ### Title: Tools for Meta-analysis of gene expression data.
> ### Aliases: zScores multExpFDR zScoreFDR zScorePermuted
> ### Keywords: manip
> 
> ### ** Examples
> 
> data(Nevins)
> ##Splitting 
> thestatus  <- Nevins$ER.status
> group1     <- which(thestatus=="pos")
> group2     <- which(thestatus=="neg")
> rrr        <- c(sample(group1, floor(length(group1)/2)),
+                 sample(group2,ceiling(length(group2)/2)))
Error in sample(group1, floor(length(group1)/2)) : invalid 'x' argument
Execution halted

* Installing *source* package 'GeneMeta' ...
** R
** data
** inst
** preparing package 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: genefilter
Loading required package: survival
Loading required package: splines
** help
Note: unmatched right brace in 'tau' on or after line 9
 >>> Building/Updating help pages for package 'GeneMeta'
     Formats: text html latex example 
  CountPlot                         text    html    latex   example
  Nevins                            text    html    latex   example
  dstar                             text    html    latex   example
  f.Q                               text    html    latex   example
  tau                               text    html    latex   example
  zscore                            text    html    latex   example
** building package indices ...
* DONE (GeneMeta)