[BioC] Segfault in affy:rma() with custom chip

[Warnes, Gregory R]

> -----Original Message-----
> From: Ben Bolstad [mailto:bolstad at stat.berkeley.edu]
> Sent: Thursday, February 19, 2004 9:47 AM
> To: Warnes, Gregory R
> Subject: Re: [BioC] Segfault in affy:rma() with custom chip
> 
> 
> How many probes in a probeset (max)? 

What is the quickest way to check?

> ANd what version of the software
> are you using? 

We're using affy Version: 1.3.27 in production on R 1.8.1-patched.

> 
> there is no limit in the latest development versions, but the release
> version has a slight bug that limits you to 200.

That sounds like the problem.   I'll try the development version and see if
it runs.

-G

> 
> Ben
> 
> 
> 
> 
> 
> 
> 
> On Wed, 2004-02-18 at 20:08, Warnes, Gregory R wrote:
> > Hi All,
> > 
> > We have a custom Affy chip that has some very long 
> probesets (~300 probes).
> > When I try to use rma on this data, a segfault is thrown, 
> expresso() does
> > not exhibit this problem, but is of course, much slower.
> > 
> > Is there a built-in size restriction on the number of 
> probes in a probeset
> > somewhere within RMA?
> > 
> > -Greg
> > 
> > Gregory R. Warnes
> > Manager, Non-Clinical Statistics
> > Pfizer Global Research and Development
> > Tel: 860-715-3536
> > 
> > 
> > 
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> -- 
> Ben Bolstad <bolstad at stat.berkeley.edu>
> http://www.stat.berkeley.edu/~bolstad
> 
> 


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