[MOBY] [MOBY-l] Objects used for discovery

[Ken Steube]

It didn't as of this last weekend...maybe we should discuss it on the
next teleconference so I can explain it more clearly.

Ken

-------------------------------------
Ken Steube            steube at sdsc.edu
San Diego Supercomputer Center @ UCSD
San Diego, California             USA

On 18 Mar 2003, Mark Wilkinson wrote:

> MOBY Central already works this way.
>
> M
>
>
> On Mon, 2003-03-17 at 13:05, Ken Steube wrote:
> > Hi all...there were two or three discussions during the meeting that I
> > have thought about, and I'm beginning to think we're going down a bad
> > road.  Let's try to flesh them out here.
> >
> > First topic:
> >
> > We had a brief discussion about input objects and their use for
> > discovery.
> >
> > The issue was:  given a sequence I want to be able to discover all I
> > can do with that sequence including BLASTing it, feature analysis, and
> > anything else anyone ever thinks of.  But then in order to simplify
> > the handling of inputs and outputs I suggested having a BLAST input
> > object which extends a sequence object to include the usual BLAST
> > parameters.  Feed it into any BLAST service and you'll have everything
> > needed to run BLAST (including your sequence).
> >
> > But now this issue arose:  If you try to discover with a BLAST object
> > will you get the same thing you'd get if you tried to discover with
> > just a sequence object?  Since you've specialized your sequence object
> > to include BLAST parameters you might miss some of the other services
> > that might be discovered.  But in my opinion by going from a sequence
> > to BLAST input you should have broadened the types of services you can
> > discover.  You still have the sequence and can discover feature
> > searches and anything else, but now you have other bits as well and
> > can whatever else is allowed with those bits such as BLASTing.
> >
> > I think we can really make MOBY discovery more powerful than the
> > current design.  All you have to do is to discover based on the BLAST
> > input object and all the objects that share an ISA or HASA
> > relationship with it. This is fairly simple do implement as long as
> > our discovery is a logical OR operation for input object types.
> >
> > Second topic:  later!
> >
> > Ken
> >
> > -------------------------------------
> > Ken Steube            steube at sdsc.edu
> > San Diego Supercomputer Center @ UCSD
> > San Diego, California             USA
> >
> > _______________________________________________
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> > moby-l at biomoby.org
> > http://biomoby.org/mailman/listinfo/moby-l
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