[BioC] gcrma problem

[James W. MacDonald]

Wenqiong Chen wrote:
> Hi, list:
> I encountered the following problem when I was running gcrma:
> 
> 
>>gcrma.m600<-gcrma(Scoe.m600.exp)
> 
> Computing affinities.Error in compute.affinities(cdfName(object),
> verbose = verbose) : 
>         NAs are not allowed in subscripted assignments
> 
> How can I find out where the problem occurred?

First, you could tell us what versions of R, gcrma, etc you are using, 
as well as what type of chip. If it is a non-standard chip, where did 
you get the cdfenv?

Second, if you are trying to debug yourself, you can start with a 
traceback() after you get the error, which should help pinpoint where 
things went wrong. You can then step through the offending function 
using debug().

HTH,

Jim



> Thanks,
> wenqiong
> 
> 
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-- 
James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623