Re: [Treesoft-devel] [Treesoft-treefam] Invalid NHX format in TF102048 from API

[Jean-Karim H. <jk...@sa...>]

Hi Sebastien,

Is the API not working because of this ?
I believe that the API produces a correct tree and that the database is
possibly wrong: the database tree should have an empty [&&NHX] (this was
the case in previous versions of Treefam). Having [&&NHX] makes the
nodes consistent and I think this doesn't violate the specifications of
the format. 

This is down to the interpretation of the format: Should a node with no
information get an empty [&&NHX] or nothing ? 
What do other treefamers think ?

J-K


On Fri, 2008-09-05 at 11:18 +0200, Sebastien Moretti wrote:
> Hi,
> It seems that API produces an invalid HNX tree for TF102048 family.
> 
>  From the database (TreeFam6), the tree looks proper.
> Here is a view:
> ... 
> T=8090:G=ENSORLG00000004203]):1.7):0.070715[&&NHX:S=Percomorpha:D=N:B=23]):0.104119[&&NHX
> ...
> 
> There is no NHX information for the 1.7 branch long.
> Nevertheless, the API returns this:
> ... 
> T=8090:G=ENSORLG00000004203]):1.7[&&NHX]):0.070715[&&NHX:S=Percomorpha:D=N:B=23]):0.104119[&&NHX
> ...
> 
> 
> 1.7[&&NHX]  instead of  1.7
> 
> How to fix this ?
> Thanks
>