[Bioperl-l] out of memory issue

Smithies, Russell Russell.Smithies at agresearch.co.nz
Wed Apr 28 17:02:15 EDT 2010


You mean why would you want to do that on a Mac?

;-)

--Russell

> -----Original Message-----
> From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-
> bounces at lists.open-bio.org] On Behalf Of Andreas Kahari
> Sent: Thursday, 29 April 2010 3:50 a.m.
> To: shalabh sharma
> Cc: bioperl-l
> Subject: Re: [Bioperl-l] out of memory issue
> 
> On Wed, Apr 28, 2010 at 10:13:11AM -0400, shalabh sharma wrote:
> > Hi All,
> >        I am trying to make a hash of 38 Million ids but every time i get
> the
> > following message :
> 
> Why would you want to do that?  What is the application and would you
> be able to solve it by either re-ordering the things you doing or doing
> things in batches?
> 
> 
> Andreas
> 
> >
> > perl(191) malloc: *** mmap(size=16777216) failed (error code=12)
> > *** error: can't allocate region
> > *** set a breakpoint in malloc_error_break to debug
> > Out of memory!
> >
> > I am working on MacOX 10.5.8 with 4GB of memory.
> >
> > I would really appreciate if anyone can help me out.
> >
> > Thanks
> > Shalabh
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
> >
> 
> --
> Andreas Kähäri, Ensembl Software Developer
> European Bioinformatics Institute (EMBL-EBI)
> Wellcome Trust Genome Campus, Hinxton
> Cambridge CB10 1SD, United Kingdom
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l
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