[Bioperl-l] Re: SeqIO::swiss.pm + "gsequence"

[Hilmar Lapp]

Ewan Birney wrote:
> 
> Hmmm. I vote that... well ... I don't like processing emty sequences into
> a fasta file, but I susepct we should be tolerant of reading them.
> 
> It is dangerously close to an error in my view (writing an empty
> sequence).
> 

Depends on how you look at it. A file containing BLASTable sequences with
an entry with no sequence probably is an error, and doesn't make sense.
But I think a Fasta-formatted file as a means of serializing sequences
between programs within a pipeline can contain empty sequences without
this being an error.

	Hilmar

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Hilmar Lapp                                email: hlapp@gmx.net
NFI Vienna, IFD/Bioinformatics             phone: +43 1 86634 631
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