[Biojava-l] OBDA and SeqDB

[Schreiber, Mark]

Hi -

So is there a plan to do a OBDASeqDB which would act like the BioSQLDB
in biojava but not require the underlying SQL schema.

Does OBDA actually place restrictions on the underlying schema? The
reason I ask is that our in house database doesn't match the BioSQL
schema closely enough for it to be useful but it would be nice to use
things developed in OBDA if we can.

Mark

> -----Original Message-----
> From: Jason Stajich [mailto:jason@cgt.mc.duke.edu] 
> Sent: Monday, 8 April 2002 10:31 a.m.
> To: Schreiber, Mark
> Cc: Keith James; BioJava List
> Subject: RE: [Biojava-l] FeatureHolder.containsFeature()
> 
> 
> On Mon, 8 Apr 2002, Schreiber, Mark wrote:
> 
> > Actually can some one inform me of the difference between 
> the BioSQL 
> > and the Open Bioinformatics Database Specification??
> >
> > Mark
> 
> BioSQL is a subset of OBDA - OBDA includes standards for 
> sequence retrieval from HTTP, local Flat files (Berkeley DB 
> indexed and a new index format), BioCORBA, and BioSQL.
> 
> If you have specific gripes or kudos for OBDA we should move 
> them over to open-bio-l@open-bio.org to try and be 
> cross-project friendly.
> 
> We hope to have a full fledged standard proposal put together 
> in the next few months, right now most things are split up in 
> different working docs - all available from the obf-common 
> CVS repository - see http://cvs.open-bio.org for info on downloading.
> 
> HTH.
> 
> -j
> 
> -- 
> Jason Stajich
> Duke University
> jason@cgt.mc.duke.edu
> 
> 
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