[BioC] vector allocation error
fpepin at aei.ca
Fri Jun 23 20:00:16 CEST 2006
If you search in the mailing list archive
you'll see a fair number of posts about this problem.
You should look at the just.gcrma function instead. R tends to like
making unnecessary copies of large objects, so people have recoded those
functions (like gcrma) entirely in C which doesn't do that.
I don't know if it'll get you all the way to your 380 arrays. Some
people have suggest doing the normalization in different batches. As I
said the archives should tell you more about it.
On Fri, 2006-06-23 at 14:53 +0200, Ulrich Pfeffer wrote:
> when analyzing more than 25 Affymetrix HGU133plus2 arrays the analysis
> fails during background correction with GCRMA and the error message says
> "cannot allocate vector of 301.000kB ...."
> I got the message ot only from my PC but also form a more potent computer
> (Ml570 G2, 4 CPU XEON MP 2.5/1Mb,
> 16 Gb RAM, s.o. RH AS 4.0). It does not appear that the computer is using
> all the memory available.
> After my actual 30 arrays I must analyze 380, which problems will I face?
> Any help?
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
More information about the Bioconductor