[Open-bio-l] seq namespace method

[Ewan Birney]

On Mon, 8 Jul 2002, Hilmar Lapp wrote:

> According to BioSQL, sequences (bioentries) live in a namespace, e.g., the name of the databank that maintains and/or serves them.
>
> None of the Bio:: seq objects/interfaces have a method for that.
>
> I propose to add one, specifically to the lowest level Bio::PrimarySeqI (bioentries are pretty general, and a namespace is needed for /any and all/ bioentries). To me, the namespace doesn't have to do much with whether this seq is going to be stored in BioSQL or not. A sequence with an accession number has (implicitly or explicitly) a namespace in which this accession number is valid. PrimarySeqI has an accession.
>
> Anyone has other suggestions, objections?

Sounds pretty sane.


>
> 	-hilmar
> --
> -------------------------------------------------------------
> Hilmar Lapp                            email: lapp at gnf.org
> GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
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