[rmaexpress_help] Re: RMAExpress still crashes after 1.0 beta 8

  • From: Ben Bolstad <bmb@xxxxxxxxxxxxx>
  • To: rmaexpress_help@xxxxxxxxxxxxx
  • Date: Mon, 03 Mar 2008 08:07:15 -0800

At least for the one dataset of this type, that I currently have
accessible, consisting of only 24 arrays every thing processes fine with
out complaint or crashing.

What values are you using in your Buffer settings? Do you have ample
disk space in the location you are trying to use for your temporary
space?

Ben



On Mon, 2008-03-03 at 07:53 -0800, Ben Bolstad wrote:
> Ok, that makes more sense since the first one you gave me did not seem
> to be an Affymetrix array type. I know that things worked with
> Arabidopsis ATH1 Arrays in the past, though I have not tested with this
> array type in quite awhile.
> 
> Ben
> 
> 
> 
> On Mon, 2008-03-03 at 07:46 -0800, Alex Feltus wrote:
> > My mistake.  The GEO accession for the array I am
> > using is GPL198.
> > 
> > Alex
> > 
> > --- Alex Feltus <yaqona2@xxxxxxxxx> 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
> > > 
> > > --
> > > Alex Feltus, Ph.D.
> > > Assistant Professor
> > > Clemson University
> > > Department of Genetics & Biochemistry
> > > Biosystems Research Complex Rm 302C
> > > 51 New Cherry Street
> > > Clemson, SC 29634
> > > 864-656-3231 (office) - (864) 656-6879 (fax)
> > >
> > http://www.clemson.edu/genbiochem/faculty/afeltus.html
> > > 
> > > 
> > >      
> > >
> > ____________________________________________________________________________________
> > > Looking for last minute shopping deals?  
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> > >
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> > > 
> > 
> > 
> > --
> > Alex Feltus, Ph.D.
> > Assistant Professor
> > Clemson University
> > Department of Genetics & Biochemistry
> > Biosystems Research Complex Rm 302C
> > 51 New Cherry Street
> > Clemson, SC 29634
> > 864-656-3231 (office) - (864) 656-6879 (fax)
> > http://www.clemson.edu/genbiochem/faculty/afeltus.html
> > 
> > 
> >       
> > ____________________________________________________________________________________
> > Never miss a thing.  Make Yahoo your home page. 
> > http://www.yahoo.com/r/hs
> > 
> 
> 


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