[Gusdev-gusdev] GUS And Bioperl

[Arnaud K. <ax...@sa...>]

Hi

Following the conference call, I've been working on setting up a demo 
about interfacing Bioperl and having GUS as a datasource. There are 
several ways for doing this.
* The first way is to implement the Bioperl-db interfaces to point at 
GUS instead of a BioSQL database. That involves to map the GUS 
relational design into the Bioperl one. It would be used in a read-only 
mode.
* A second way is to map Bioperl Objects into GUS objects and use the 
GUS objects API to access the database. That seems to involve less work  
as the mapping between the object layer and the relational layer as well 
as the DB connections would be delegated to the GUS layer. This code 
could be used for read and write access.

To do so, I've tried to use the GUS object layer, but it is actually 
embedded into the Plugin Framework which processes the initialisation 
step (DB connection, plugin registration...). How could I use the perl 
layer independently of the GusApplication framework ?

Thanks
Arnaud