[BioC] problems with marray and gpr files

[Simo.rossi]

Hello Bioconductor mailing list,

    I have a problem:

I have to read and analyse .gpr files.

To read the files I used the following lines code:

galinfo<- read.Galfile(“GAL.txt”,path=datadir)

SigmaMir.layout <- galinfo$layout
SigmaMir.gnames <- galinfo$gnames

SigmaMir.targets=read.marrayInfo(file.path(datadir,”Targets.txt”))

Data<-read.GenePix(targets=SigmaMir.targets, path=datadir)

but I receive an error by R:
Error in if (skip > 0) readLines(file, skip) : 
  missing value where TRUE/FALSE needed


and if I made skip=FALSE in the parameters, I received the error: Error in
dim(data) <- dim : attempt to set an attribute on NULL.....in fact SKIP
shold be set NULL...

I tried to use limma package, but I received this error:Error in
`[.data.frame`(dat, , info.id) : undefined columns selected

when I try to read .gpr files...

I use R.6.0 .... is a problem of this version of R??

Please, help, thanx a lot! Simona

Simona Rossi
Research Intern
Experimental Therapeutics
The University of Texas M. D. Anderson Cancer Center
1515 Holcombe Blvd
Houston, TX 77030
phone: (713) 745-5791
fax: (713) 745-4528
e-mail: srossi at mdanderson.org
 
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