[Phylobase-devl] unification of tree data slots

[Jim Regetz]

Peter Cowan wrote:
>> François Michonneau wrote:
>>>
>>> Finally, I think the Nnode slot was there to match the structure of
>>> phylo objects. But, it seems superfluous with the tests that S4  
>>> methods
>>> bring.
> 
> That's my recollection also, +1 for removing it.

The Nnode slot of phylo4 is now gone, along with most vestiges of it in 
the code, documentation, and geospiza.rda. Two minor exceptions:

1. There is a reference to an Nnode slot in multiPhylo-class.Rd. I 
didn't remove it because I'm not sure whether this necessarily refers to 
the same thing.

2. I removed the Nnode slot one-liner from phylobase.Rnw, but didn't 
regenerate the associated PDF. I actually see a couple of other things 
that need to be updated in that document after the recent updates to 
slot accessors (pretty much all having to do with the order of returned 
elements).

All for now,
Jim