Re: [Samtools-help] help with filterSamReads picard tools

[Alec W. <al...@br...>]

Hi Navin,

This program needs more memory if you ask it to sort the output in a different order than the input.  If you omit the SORT_ORDER argument, it will produce output in the same sort order as input, and should not use a large amount of memory.

-Alec

On Sep 17, 2013, at 5:43 PM, navin rustagi <rus...@ya...> wrote:

> Hi, 
> 
> I needed to know if the filterSamreads in picard tools required to store the whole bam file in memory to filter out the reads.
> 
> if yes is there a way to ask it to take less memory?
> 
> Regards, 
> Navin 
> 
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