[BioSQL-l] Oracle support...

[Hilmar Lapp]

On Wednesday, July 30, 2003, at 04:34  PM, Len Trigg wrote:

> Hilmar Lapp wrote:
>> and whatever else we're going to develop for our Symgene platform.
>
> I've seen Symgene mentioned a few times but google only turns up sort
> of aside comments like this -- is there a comprehensive description of
> it somewhere? Is it a system that is going to be publicly available,
> or a commercial product, or only in-house at gnf? Where does BioSQL
> fit in to this?

Biosql is the underlying database (schema). Many pieces used to build 
Symgene are public already because they are open source components 
(biosql, bioperl, bioperl-db, jfreechart, to name a few). What is not 
public yet is primarily the Java middleware and webapp code that we've 
written, but it will be shortly. There also will be a public site for 
the webapp, but part of the data content may only be available in-house 
at GNF.

There's no comprehensive description yet, but we'll write one and 
publish it.

>
>
>> Sure, that's why it's very modular. The present one can be as low in
>> complexity as you can go already, it's maybe just not very well
>> documented how to do that. You can customize the build script to
>
> Maybe that should be the default configuration for the version that is
> in BioSQL CVS?

That's a good suggestion. ala keep it simple by default and allow 
complexity for the power users. Sure, why not.


>  i.e. have the different RDBMS schemas as close as
> possible. It's hard to see sometimes where the bounds of "BioSQL" lie
> -- I had been looking at it as primarily the standard database schema
> that the Bio* projects all access, but it looks like it is also
> coupled closely with the symgene project.
>

Symgene is coupled closely to biosql, not really vice versa, except if 
you will for the fact that that is my business reason for driving its 
development.

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