[Bioperl-l] RE: bioperl-db - changes (Chris Mungall)

[Brian Desany]

I don't see these changes when I do "cvs -n -q update" or "cvs status" or go
to WebCVS - is there normally some kind of a delay or is there some other
cvs command I need to use to find out which files have been changed? Do I
need to specify a particular branch maybe?

Thanks,
-Brian.

>
> I have committed some code to bioperl-db
>
> * Fuzzy Locations are now handled, using the location_qualifier_value
> table added to the biosql-schema during the hackathon.
>
> * Optimisations - all the features and locations for a
> sequence entry are
> now fetched in a few SQL calls rather than a number of calls
> proportional
> to the number of features.
>
> * Tidying - a lot of mysqlisms removed or pushed up to the BaseAdaptor
> layer, to allow for easier postgres support. Added a few
> generic ease of
> use methods to BaseAdaptor to more clearly expose the logic in the
> individual adaptor layer.
>
> * DBTestHarness now no longer uses the copy of the schema in the
> bioperl-db directory. Instead it checks
> ../biosql-schema/sql/biosqldb-mysql.sql - hmmm, this won't
> necessarily fit
> with the cvs re-organisation. How should we do this? An env
> var seems a
> bit nasty.
>
> ---
> Chris
>