[Bioperl-l] out of memory issue

Mark A. Jensen maj at fortinbras.us
Wed Apr 28 11:30:12 EDT 2010


could try a tied hash to an on-disk db
see
perldoc perltie

----- Original Message ----- 
From: "shalabh sharma" <shalabh.sharma7 at gmail.com>
To: "bioperl-l" <Bioperl-l at lists.open-bio.org>
Sent: Wednesday, April 28, 2010 10:13 AM
Subject: [Bioperl-l] out of memory issue


> Hi All,
>       I am trying to make a hash of 38 Million ids but every time i get the
> following message :
> 
> 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
> 
>


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