[BioC] Continued problems with pdInfoBuilder

Harry Mangalam harry.mangalam at uci.edu
Tue Nov 18 01:00:14 CET 2008


Like Rob Dunne previously, I'm trying to use pdInfoBuilder to generate 
a pkg for the RaGene-1_0-st-v1 series, but am getting the same error 
that he was finally able to resolve.  Unlike him, I am not.

R version 2.6.2 (2008-02-08) (from Ubuntu 8.04.1 deb)
pdInfoBuilder 1.6.0
> library(pdInfoBuilder)
> pgfFile <- "RaGene-1_0-st-v1.r3.pgf"
> clfFile <- "RaGene-1_0-st-v1.r3.clf"
> transFile <- " RaGene-1_0-st-v1.na26.rn4.transcript.csv"
> probeFile <- "RaGene-1_0-st-v1.probe.tab"
> pkg <- new("AffyGenePDInfoPkgSeed", author = "hjm", email 
= "harry.mangalam at uci.edu", version = "0.0.1", genomebuild = "Mon Nov 
17 14:23:44 PST 2008",biocViews = "Rat Gene 1.0 ST Array", pgfFile = 
pgfFile, clfFile = clfFile, transFile = transFile, probeFile = 
probeFile)
Error in getClass(Class, where = topenv(parent.frame())) :
  "AffyGenePDInfoPkgSeed" is not a defined class

Is this a version mismatch or am I missing something more obvious?

-- 
Harry Mangalam - Research Computing, NACS, E2148, Engineering Gateway, 
UC Irvine 92697  949 824-0084(o), 949 285-4487(c)
---
Good judgment comes from experience; 
Experience comes from bad judgment. [F. Brooks.]



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