[Biocorba-l] Biocorba-0.2.0 - A proposal

[Brad Chapman]

[my confusion about the sub_seqfeatures flag]

Matthew:
> The idea is that features may contain child features. 
> If you ask the sequence for all features with
> recursion, then you will get back an iterator over all features, 
> child features, child-child features... 
> Basicaly, the recurse flag lets you chose the granularity
> that you pull back, rather than forcing you to always get
> everything.

Thanks for the explanation, I think I'm on the same page as you guys now:

if sub_seqfeatures == True:
    Features have sub_SeqFeatures so you access features through 
    multiple levels

elif sub_seqfeatures == False:
    All features are flattened to be top level features.
  
> If the recurse flag was dropped, then the
> apropreate default would be to return all top-level features, 
> and for the client to look inside them if it wants.

Agreed. I'd like to place my vote for dropping the flag entirely, and
always having sub_SeqFeatures (ie. sub_seqfeatures is always true). I
think this is much nicer than flattened features, and also saves
implementors from having to implement both flattened and non-flattened 
features. What do other people think about this?

Brad