Compressing temporary files

[inti]

Hi, Why are temporary files not compressed? It is due to impact of performance? would it be possible to add an option to opt for compressed output to reduce disk usage?

thanks in advance,

[cc2qe]

can you just clarify which module you're running. Do you mean for variant calling (speedseq var and speedseq somatic) or for alignment?

The temp VCF files for variant calling could be compressed, but they shouldn't be very big anyway

[inti]

I am running variant calling. I guess big depends on the system being used and the dataset being analysed. Compression would help on my case.

Thanks a a lot!

On Sep 21, 2016, at 3:01 PM, Colby Chiang [email protected] wrote:

can you just clarify which module you're running. Do you mean for variant calling (speedseq var and speedseq somatic) or for alignment?

The temp VCF files for variant calling could be compressed, but they shouldn't be very big anyway

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