[BioSQL-l] adding non-positional features via bioperl to a biosql database

[Hilmar Lapp]

On Feb 10, 2009, at 6:25 PM, James Procter wrote:

> BioSQL and BioJava also do this just fine, but whilst BioPerl allows  
> features with
> a '0' start position to be persisted, it then cannot work with the
> feature after it's been recovered from the DB. This looks like a bug  
> to me.


I think the fact that it doesn't raise an error speaks much more to  
the fact that 1-based coordinates aren't fully enforced than that a  
coordinate of 0 is fully supported. If the coordinate is undef you  
probably get the same translation to '.' in GFF, and the fact that you  
get that also for 0 is probably simply due to 0 and undef both  
evaluating to false in Perl if in an if clause.

	-hilmar
-- 
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: Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :
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