[Bioperl-l] out of memory issue

Andreas Kahari ak at ebi.ac.uk
Wed Apr 28 11:49:50 EDT 2010


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
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> 

-- 
Andreas Kähäri, Ensembl Software Developer
European Bioinformatics Institute (EMBL-EBI)
Wellcome Trust Genome Campus, Hinxton
Cambridge CB10 1SD, United Kingdom


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