[BioC] Error with AnnBuilder ABPkgBuilder

[Sylvain Pradervand]

Hi,

I am having a problem with AnnBuilder:

Error in "[.data.frame"(annotation, , 1:3) : 
        undefined columns selected

The code that generate this error is below:

> myBase <- "ProbeIdToLL.txt"
> myBaseType <- "ll"
> myDir <- tempdir()
> mySrcUrls <- getSrcUrl("all", "Mus musculus")
> ABPkgBuilder(baseName = myBase, srcUrls = mySrcUrls, baseMapType =
myBaseType, pkgName = "agilentOligo", pkgPath = myDir, organism = "Mus
musculus", version = "1.1.0", author = list(author = "sylvain",
maintainer = "sylvain at sdsc.edu"), fromWeb = TRUE)

Error in "[.data.frame"(annotation, , 1:3) : 
        undefined columns selected
In addition: Warning message:
Built for UCSC is not valid! in: getUCSCBuilt(organism)

> sessionInfo()
R version 2.2.0, 2005-10-06, i386-pc-mingw32 

attached base packages:
[1] "tools"     "methods"   "stats"     "graphics"  "grDevices" "utils"
"datasets"  "base"     

other attached packages:
        GO AnnBuilder   annotate        XML    Biobase 
  "1.10.0"    "1.8.0"    "1.8.0"   "0.99-5"    "1.8.0"


Thanks.

Sylvain