[BioSQL-l] _removeSequence

[Hilmar Lapp]

As for documentation of the schema, there is an ERD (in PDF format) and 
a schema-overview.txt in the biosql-schema/doc directory.

I'll also be adding a version of the Biojava-in-anger document revised 
by Richard Holland, but that only deals with installation so won't help 
you much once you're beyond that point.

As to what goes where with respect to which part of the entries in 
which datasource goes to which tables in the biosql schema, that's a 
more involved question because data sources are different already, and 
because Biojava and Bioperl do things mostly different and incompatible 
right now, and because the exact mapping is not written down somewhere 
explicitly but more or less implicit from the way the bioperl SeqIO 
parsers work and how the bioperl RichSeq object (which is the object 
returned by most bioperl parsers) stores attributes as annotation. 
Richard, Mark, and I discussed this in Singapore a week ago and how the 
situation can be improved.

	-hilmar

On Jun 21, 2005, at 3:30 AM, Martina wrote:

> Well -  I'm not familiar with the BioSQL structure because BioJava did 
> it all for me. But if I have to, I'll look into it. The best 
> documentation are the comments in the *.sql file? Or how do I find out 
> where things go into?
>
> Martina
>
> Hilmar Lapp wrote:
>
>> Note though that Term_Relationship is for storing 
>> subject-predicate-object triples of terms, so I'm not sure why you 
>> want to use it for storing/associating annotation. Maybe you meant 
>> bioentry_qualifier_value?
>
>
-- 
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Hilmar Lapp                            email: lapp at gnf.org
GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
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