[emboss-dev] Specifying sequence lists for seqret
pmr at ebi.ac.uk
Thu Jul 29 12:28:33 UTC 2010
On 29/07/10 12:47, Rimvydas Naktinis wrote:
> I'm developing EMBOSS integration into Chipster project
> (chipster.csc.fi). I was wondering if there's a way to specify sequence
> list (for example, when calling seqret) without creating any extra files?
> I know there's a way to do it like this:
>> seqret @sequencelist
>> seqret list:sequencelist
> But what I would need would look something like:
>> seqret "swiss:CASA1_RABIT,swiss:CASA1_HUMAN"
> I've looked into USA format specification and it seems that there is
> actually no way to do it without creating some temporary file. Or am I
> missing something?
We can add that as an option ... but there is a very real danger that
the command line will be too long.
How many sequences will be on the command line (normal use, and worst case)?
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