[BioC] Out of memory during ReadAffy

[Laurent Buffat]

Thanks isaac and laurent for your answers.

My system is based on a Intel P4 (32 bit) with 2Go Ram & 2Go Swap,
It's a Linux 2.4.18-3 compiled as 32 bit, and Redhat 7.3
R is compiled as 32 bit.

I have no other user process runing during the analysis.

I have somes questions :

- Does it's help if I rebuild R with a 64 bit option without rebuild the
kernel and increase the swap ? (I don't think so)
- Does it's help if I rebuild R and linux with 64 bit without changing the
computer ? (I don't think so ...)
- If I need to change the computer (32 -> 64 bits), I'm looking for a
"cheaper" configuration with linux, R,
 (and of course BioConductor, affy, ;-). Do you have somes recomendations ?


TIA,

L. Buffat

-----Message d'origine-----
De : isaac.neuhaus@bms.com [mailto:isaac.neuhaus@bms.com]
Envoyé : jeudi 27 février 2003 19:18
À : Laurent Buffat
Cc : bioconductor@stat.math.ethz.ch
Objet : Re: [BioC] Out of memory during ReadAffy


I don't know what system you are running but if you can build 64 bit R that
is
not a problem. I have run 254 HG-U95Av2 chips whit out a problem.

Isaac

Laurent Buffat wrote:

> Hi,
>
> I'm trying to analyze 120 arrays (Affy 133A chip) simultaneously, but I
get
> an allocation error with R during ReadAffy
>
> My computer has 2 GO of Ram and 2 Go of swap.
>
> Do you think it is possible?
> Has anyone of you already tried (succesfully ;-) ) to analyze at the same
> time a lot of chips (more than 100)?
>
> TIA
>
> Laurent Buffat.
>
> //////////////
>
> Laurent Buffat MD, PhD
> It-Omics
> Parc Eurasanté
> 885, avenue Eugène Avinée
> 59120 Loos
> Tél : 33 (0)3 20 16 40 56
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@stat.math.ethz.ch
> http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor