Hello, I am trying to obtain a GeneSetCollection (package GSEABase)
corresponding to an experiment using the hgu95a annotation.

When I use for example, the KEGG gene set collection, the mapping and
creation of the GeneSetCollection object takes place without issue:

gsc <- GeneSetCollection(eset, setType=KEGGCollection())

On the other hand when I enter:

> gsc <- GeneSetCollection(eset, setType=PfamCollection())

I get:

Error in `direction<-`(`*tmp*`, value = -1L) :
  changing the direction of an "IpiAnnDbMap" object is not supported

Similarly for:

> gsc <- GeneSetCollection(eset, setType=ChrlocCollection())

I get:

Error in `direction<-`(`*tmp*`, value = -1L) :
  changing the direction of an "AnnDbMap" object is not supported

Is there any help that anyone can give me for how to correct this issue?

Here is some version information, in case it matters:

platform       powerpc-apple-darwin8.11.1
arch           powerpc
os             darwin8.11.1
system         powerpc, darwin8.11.1
status
major          2
minor          8.0
year           2008
month          10
day            20
svn rev        46754
language       R
version.string R version 2.8.0 (2008-10-20)

Thanks,

James Wagner

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