[Bioperl-l] Bio::SeqFeature::Annotated API change

Chris Fields cjfields at uiuc.edu
Fri Oct 26 23:39:09 EDT 2007

On Oct 26, 2007, at 6:47 PM, Sendu Bala wrote:

> Hilmar Lapp wrote:
>> On Oct 26, 2007, at 10:48 AM, Sendu Bala wrote:
>>> Would there be any problem with having source() return a string,
>>> but still allow access to the OntologyTerm object via
>>> get_Annotations('source')? (Ditto with type?)
>> Do I interpret your second email that you abandoned this plan? I.e.,
>> source() and type() return objects? I think that's the right way.
>> (Otherwise source() is redundant with source_tag().)
> Yes, I abandoned the above plan. I've left source() as a  
> SimpleValue, at
> least until issues with DB::Store are resolved wrt ontologies (it  
> stores
> the entire ontology for each feature in the database, increasing  
> storage
> requirments > 800x).

Do you mean SeqFeature::Store or OntologyStore (I'm guessing the  


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