[BioC] hgu133_plus_2?

Carl-Magnus Högerkorp carl-magnus.hogerkorp at immun.lth.se
Tue Jan 25 15:26:25 CET 2005


Hi!

New to this list and to Bioconductor, I apologize if bringing up old
matters, but I need a solution to my problem, which is:

When trying to load a set of 30 x (hgu133_plus_2) .cel files, this message
pops up:

> rawBcells<-ReadAffy()
Error: cannot allocate vector of size 317553 Kb
In addition: Warning message:
Reached total allocation of 1022Mb: see help(memory.size)

Obviously there is a shortage of memory as I interpret it.
So, any suggestions on how I should address this, since I want to run gcrma,
normalizations and clustering etc on this set?

The next problem arising is when trying to run separate files with gcrma:

> raw0001<-ReadAffy("B cells P-00.01.CEL")
> grma0001<-gcrma(raw0001)
Computing affinities.Done.
Adjusting for optical effect.Done.
Error in model.frame(formula, rownames, variables, varnames, extras,
extranames,  :
        variable lengths differ

is gcrma unable to read (hgu133_plus_2).cel files?
The library for hgu133_plus_2 is loaded OK.

Thanks!

Carl-Magnus



More information about the Bioconductor mailing list