[Bioperl-l] Bio::SeqFeature::Annotated status

Chris Fields cjfields at uiuc.edu
Mon Aug 27 13:13:13 EDT 2007


What is the current status on maintenance of  
Bio::SeqFeature::Annotated?  From what I gather (based on the code  
and past mail list posts) the intent of the module seems to be to  
store any SeqFeature-specific data (tags, score, source, primary_tag,  
etc) in a Bio::AnnotationCollectionI as strongly typed data.  However  
there are several inconsistencies, such as objects being returned  
when a string is expected (score(), source()).

Also, several methods appear half-implemented, aren't consistent with  
SeqFeatureI API or similar methods in other SeqFeatureI's, and there  
are no docs explaining what is expected.
If no one speaks up on it, I'll do my best with maintaining it  
myself, but don't expect the API to stay as it is.

chris


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