[BioSQL-l] Re: [Bioperl-l] Bio::BioEntry

[Ewan Birney]

On Fri, 6 Sep 2002, Hilmar Lapp wrote:

> I'm thinking about creating a Bio::BioEntry object (no definitive 
> name yet) that would basically map to a bare-bones row in the 
> Bioentry table in BioSQL (you know that's where I'm coming from 
> presently don't you).
> 
> BioEntry would be different from PrimarySeq in not having a sequence 
> associated with it. Nonetheless, it would have a stable ID and live 
> in a namespace; it also has an optional description. Hence, 
> technically,
> 
> 	Bio::BioEntry is-a Bio::IdentifiableI
> 	Bio::BioEntry is-a Bio::DescribableI
> 
> and that's about it.
> 
> Note that I'm not describing an ontology term, there is no hierarchy 
> or whatever here.
> 
> I'm undecided yet whether or not this is really going to help me, 
> but as a preliminary poll, if anyone has thoughts on this please 
> share.


I can see the motivation, but it always worries me when people have just
these "bare bones" classes.

Is there any better solution. What do you have as BioEntries and not as
Bio::Seq's?



> 
> 	-hilmar
> --
> -------------------------------------------------------------
> Hilmar Lapp                            email: lapp at gnf.org
> GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
> -------------------------------------------------------------
> 
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l@bioperl.org
> http://bioperl.org/mailman/listinfo/bioperl-l
> 

-----------------------------------------------------------------
Ewan Birney. Mobile: +44 (0)7970 151230, Work: +44 1223 494420
<birney@ebi.ac.uk>. 
-----------------------------------------------------------------