Hi benilton,

Thanks for the update.
I tried running the provided solution, got to the part where the cel files were loaded, but then rma method failed with the following error:

pp0 = rma(raw)
Error in (function (classes, fdef, mtable)  :
  unable to find an inherited method for function 'probeNames' for signature '"HTAFeatureSet"'

What am I missing?

sessionInfo()
R version 3.1.0 (2014-04-10)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
[1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] parallel  stats     graphics  grDevices utils     datasets  methods
[8] base

other attached packages:
[1] pd.hta.2.0_3.8.0       RSQLite_0.11.4         DBI_0.2-7
 [4] annotationTools_1.39.0 affy_1.43.2            oligo_1.29.0
 [7] Biostrings_2.33.6      XVector_0.5.6          IRanges_1.99.13
[10] S4Vectors_0.0.6        Biobase_2.25.0         oligoClasses_1.27.1
[13] BiocGenerics_0.11.2    BiocInstaller_1.15.3

loaded via a namespace (and not attached):
[1] affxparser_1.37.0     affyio_1.33.0         bit_1.1-12
 [4] codetools_0.2-8       ff_2.2-13             foreach_1.4.2
 [7] GenomeInfoDb_1.1.4    GenomicRanges_1.17.13 iterators_1.0.7
[10] preprocessCore_1.27.0 splines_3.1.0         stats4_3.1.0
[13] tools_3.1.0           zlibbioc_1.11.1

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