[BioC] Max Cel Files

[Isaac Neuhaus]

Rafa: Now I am puzzled because I built 64-bit R and I have over 50 gigs of RAM so
I am sure I am not running out of memory. Is there a way to run R under debugger
so I can find what is the problem with my files.
Thankx.
Isaac


"Rafael A. Irizarry" wrote:

> ive done 184. it used a lot of RAM though. how much RAM do you have? for
> the next version there will be a method that only uses PMs. this reduces
> the data by 50%. im attaching a function that might help you with a  work
> around... if you can get more RAM you can try
>
> 1-reading in using read.celfile
> 2-keeping only the pms using 'pmormm'
> 3-using a version of the attached function to get expression.
>
> hope this helps,
> rafael
> On Mon, 6 May 2002, Isaac Neuhaus wrote:
>
> > Have anybody processed more than 64 cel files. I have an experiment with
> > 66 cel files and when it start processing file number 65 the function
> > ReadAffy dies. Apparently is dying in this line:
> >
> > aux <-
> > as.vector(read.celfile(CELfiles[i],compress=compress.cel,sd=FALSE)$intensity)
> >
> > I have tried some combinations of the 64 files just to make sure that
> > there is no corruption in one of the cel files and it works just fine...
> > up to to 64.
> >
> > Any suggestions?
> >
> > Isaac
> >
> > _______________________________________________
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> > Bioconductor@stat.math.ethz.ch
> > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
> >
>
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