[Genome] needLargeMem: Out of memory

[Galt Barber]

It means you are out of memory.
 #define ENOMEM 12

Which genome are you trying to load?
How big is it?
Are you running stand-alone blat? or gfServer/gfClient?
What does your command-line look like?

Typically when people don't have enough RAM,
we advise them to split the database of the genome
by chromosome, and do one blat run per chrom.

One then needs to use utilities like
pslReps or pslCDnaFilter
to combine the resulting psl result files.

-Galt


On Tue, 15 Apr 2008, Helder Nakaya wrote:

> Hi,
>
> I'm new on this list and maybe this is not a novel question.
>
> I have instaled the blatSrc34 on my laptop (UBUNTU, system type:
> 32-bit, processor: Intel(R) Core2 Duo CPU, T7250, 2GHz) with 2038MB
> (RAM).
>
> When I try to run BLAT, it gives me this error message:
> "needLargeMem: Out of memory - request size 158821425 bytes, errno: 12"
>
> I would like to know if someone has also had this problem and how do I solve it.
>
> I think I need to allocate dynamic memory in memalloc.c program but I
> don't know how to do this.
>
> Cheers,
>
> Helder
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