[Bioperl-l] Bio::Species, Bio::Taxonomy::Node overhaul

Hilmar Lapp hlapp at gmx.net
Sat Aug 12 09:55:55 EDT 2006

Just to confirm - you have posted your summary email enumerating the  
changes on the wiki? Also, did you add a (brief!) list of the changes  
to the Changes file?

Thanks for the work.


On Aug 12, 2006, at 8:06 AM, Sendu Bala wrote:

> Sendu Bala wrote:
>> After the initial round of changes to Taxonomy described at
>> http://bugzilla.open-bio.org/show_bug.cgi?id=2047 (now committed),
>> further changes will allow for the transition of Bio::Species to
>> Bio::Taxonomy::Node (renamed to Bio::Taxon), and for Taxon to be  
>> fully
>> usable without external database access.
>> In brief: rename Bio::Taxonomy::Node to Bio::Taxon, make Bio::Taxon
>> implement Bio::Tree::NodeI, make Bio::Species a Bio::Taxon, remove  
>> all
>> Bio::Species-related-backward-compatible methods from Bio::Taxon,  
>> create
>> Bio::DB::Taxonomy::list, update Bio::SeqIO::genbank et al.
> These changes have now been committed.
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: Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :

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