[Bioperl-l] bioperl-db troubles

[Jason Stajich]

On Tue, 30 Jul 2002, Hilmar Lapp wrote:

> If Bio::DB::Seq doesn't implement Bio::SeqI that's a bug.
>
> As for full support for SwissProt roundtripping, I'm not sure what the
> status is. Generally, there seem to be very few people left meanwhile
> whose use case is actually round-tripping, so if that's your primary
> goal, be prepared to patch the code. (Ewan? I thought swissprot
> round-tripping is tested and worked?)
>
> Which versions of bioperl and bioperl-db are you using? You need to
> use bioperl-live for the time being (developer's release to be out
> within the next days, otherwise use the CVS snapshot). Also,
> bioperl-db is actively changing; there's no stable release at this
> time (I believe; Jason?). Occasionally tests in CVS snapshots may even
> fail (right now they all pass).

There is a tagged branch for bioperl 072 which corresponds to the 0.1
release which worked for a certain subset of cases.   It uses Ewan's
original schema.

>
> I definitely don't want to discourage you from working with it, but
> please appreciate the fact that it's not of the same stability and
> code quality as bioperl itself.
>
> 	-hilmar
>