[Bioc-devel] lumi annotations

Hi all,

I am developing a package with intention to use data from several
microarray platforms and the related annotations in a portable manner.

Given an ExpressionSet "eset", I have been using constructs like

library(annotate)
m <- getAnnMap('SYMBOL', annotation(eset))
s <- get(featureNames(eset)[1], m)

which seems portable and works fine on Affymetrix data I have used so far.

Turning to Illumina and lumi package the same does not work anymore:
------------------------------------------------------------

library(lumi)
data(example.lumi)
m <- getAnnMap('SYMBOL', annotation(example.lumi))

Error: getAnnMap: package lumiHumanV1 not available

biocLite('lumiHumanV1.db')

Using R version 2.12.0, biocinstall version 2.7.4.
Installing Bioconductor version 2.7 packages:
[1] "lumiHumanV1.db"
Please wait...

Warning message:
In getDependencies(pkgs, dependencies, available, lib) :
  package ?lumiHumanV1.db? is not available
------------------------------------------------------------

Is this just a bug in the example.lumi object, or is it simply wrong to
assume that the same mechanism should work with lumi at all?

Antti