[BioC] help on reading Agilent 44k 2 colour

[Alberto Goldoni]

Dear all,
i'm newbie in reading agilent 44k arrays.
this is my targets file:

"SlideNumber"    "FileNameCy3"    "FileNameCy5"    "Cy3"    "Cy5"
1    "prova01.txt"    "prova02.txt"    "WT"    "Mutant"
2    "prova03.txt"    "prova04.txt"    "WT"    "Mutant"
3    "prova05.txt"    "prova06.txt"    "WT"    "Mutant"

but readin in the limma user guide i'm not able to read the 6 chip

 > library("limma")
 > targets <- readTargets()
 > targets
   SlideNumber FileNameCy3 FileNameCy5 Cy3    Cy5
1           1 prova01.txt prova02.txt  WT Mutant
2           2 prova03.txt prova04.txt  WT Mutant
3           3 prova05.txt prova06.txt  WT Mutant
 > files <- targets[,c("FileNameCy3","FileNameCy5")]
 > files
   FileNameCy3 FileNameCy5
1 prova01.txt prova02.txt
2 prova03.txt prova04.txt
3 prova05.txt prova06.txt
 > RG <- read.maimages(files, source="imagene")
Read header information
Error in read.imagene(files = files, path = path, ext = ext, names = 
names,  :
   Can't find Field Dimensions in ImaGene header
In addition: Warning message:
In readImaGeneHeader(fullname) : End of file encountered before End Header


i know that "imagene" is not correct because i have used agilent 
Microarray Scanner (G2565CA) so i have the 6 txt files like the one that 
i have attached in the mail.

is there anyone that can help me in reading this kind of microarrays?

Best regards.

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Alberto Goldoni, PhD
IT Lan Manager
Medical Genetics Unit
S. Orsola-Malpighi Hospital
Via Massarenti n.9, Pad 11
40100 Bologna, Italy
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