[rmaexpress_help] Re: RMAExpress still crashes after 1.0 beta 8
- From: Alex Feltus <yaqona2@xxxxxxxxx>
- To: rmaexpress_help@xxxxxxxxxxxxx
- Date: Mon, 3 Mar 2008 07:42:37 -0800 (PST)
Ben:
Thanks. I have lowered the number of arrays that I am
inputting. Even as low as 460 arrays, I get a
segmentation fault at the Background Adjustment stage.
Data loads OK. Data Structures load OK.
This is a different array platform than U133 Plus 2.0.
It is GEO Accession GPL192.
I would like to monitor with a debugger. How can I do
this if I don't have a C/C++ debugger?
Thanks,
Alex
--- Ben Bolstad <bmb@xxxxxxxxxxxxx> wrote:
> I have run it up to 2500 HGU-133 Plus 2.0 arrays in
> recent testing
> without it exploding at my end. The cause of the
> crash that was fixed in
> 1.0 beta 8 was that i was using a 32 bit integer to
> index data
> (basically the previous situation was causing an
> overflow condition),
> this has been changed to indexing data via
> row/column style coordinates.
> Making the fix allowed me to go right up to 2500
> with out problem (I
> don't have to many more CEL files of this type lying
> around right now,
> though I suppose I could look for more on GEO).
>
> If you could give me the backtrace from a debugger
> it would be somewhat
> useful for narrowing down the problem. If I
> understand you correctly it
> is seg-faulting somewhere between reading the data
> and doing anything
> else?
>
> Best,
>
> Ben
>
>
>
> On Sun, 2008-03-02 at 20:51 -0800, Alex Feltus
> wrote:
> > Hey:
> >
> > I have been able to normalize hundreds of arrays
> with
> > RMAExpress 1.0 beta 8 compiled from source on an
> > Ubuntu 7.10 system with 8 Xeon cores and 16GB RAM.
> >
> > However, I am unable to normalize a set of 2887
> > arrays. They appear to load but then I get a
> > segmentation fault. Your beta 8 bug fix (- Fix a
> > potential crash situation in extremely large
> datasets
> > (eg would crash at approximately 1578 HGU-133 plus
> 2.0
> > CEL files)) sounds like my problem, but maybe the
> > extra arrays kill it?
> >
> > Thanks,
> > Alex
> >
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