[BioSQL-l] Web front-ends to BioSQL

Leighton Pritchard lpritc at scri.ac.uk
Tue Feb 3 04:50:12 EST 2009


On 30/01/2009 19:57, "Gudmundur A. Thorisson" <gthorisson at gmail.com> wrote:

> We use Catalyst MVC framework for our project (http://
> www.hgvbaseg2p.org). Very good stuff, we combine it with the
> DBIx::Class ORM and Template Toolkit as the templating engine. Totally
> recommended.

Just my twopenn'orth...

We're using a mixture of Biopython, Turbogears and SQLAlchemy here to
provide a web interface to BioSQL.  We have a specific use-case (viewing
comparative genomic data) which is read only, for now.

I agree with Mark and Hilmar in general - a consistent, generic API could
benefit and make easier a wide range of possible web-based interactions with
the database.  I think that this would be particularly useful for
webservice-based db updates, as an interface that's well-tested by the
community is potentially more robust than a home-rolled solution.

There are cases (such as ours) where additional tables have been grafted
onto BioSQL for local use where such an API would likely also need to be
extended for consistency.  For this and other reasons people may still be
motivated to use one of the several other options available on their own
projects.  This doesn't negate the worth of a common web API, though.

L.

-- 
Dr Leighton Pritchard MRSC
D131, Plant Pathology Programme, SCRI
Errol Road, Invergowrie, Perth and Kinross, Scotland, DD2 5DA
e:lpritc at scri.ac.uk       w:http://www.scri.ac.uk/staff/leightonpritchard
gpg/pgp: 0xFEFC205C       tel:+44(0)1382 562731 x2405


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