[BioC] Second pass at gcrma error

[Dave Jacoby]

I've struggled with makeProbePackage for a while now, working with my
Probe, and getting nothing.
Any attempt to use the probe packages I made would end up with
//"Computing affinitiesError: length(prlen) == 1 is not TRUE".

//That would be using this as a script:

---------------------8<-----------------------------------------
library(matchprobes)

filename <- system.file( "extdata" , "AFLAVUSa520391F_probeseqs.txt" )
outdir   <- '.'
species  <- 'Aspergillus_flavus'
me       <- "Dave Jacoby <jacoby at purdue.edu>"
makeProbePackage( "AFLAVUSa520391F" ,
                  datafile   = filename ,
                  outdir     = outdir ,
                  species    = species ,
                  maintainer = me ,
                  version    = '0.0.1' ,
                  force      = TRUE )
---------------------8<-----------------------------------------

But there's a one-line fix that I've found. Replacing

    filename <- system.file( "extdata" , "AFLAVUSa520391F_probeseqs.txt" )

with

    filename <- list.files( pattern = "probeseqs.txt" )

gave me a working probe package for the first time. I hope this helps
somebody.

-- 
David Jacoby    jacoby at purdue.edu
  Purdue Genomics Facility
  S049, WSLR building
  Phone: hah!