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

[Sebastien M. <Seb...@un...>]

> Hi Sebastien,
> 
> Is the API not working because of this ?

The API works for this family.
But it should cause some problems with some tree viewers.

> 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

-- 
Sébastien Moretti
SIB EMBnet, Quartier Sorge - Genopode
CH-1015 Lausanne, Switzerland
Tel.: +41 (21) 692 4056/4221