[Biojava-l] A question about NexusFile and NewickTreeString

[Tiago Antão]

Just submitted a patch.

2009/12/18 Richard Holland <holland at eaglegenomics.com>:
> You could be right - it could be just the other problem.
>
> cheers,
> Richard
>
> On 18 Dec 2009, at 12:04, Tiago Antão wrote:
>
>> 2009/12/15 Richard Holland <holland at eaglegenomics.com>:
>>> Tiago - your new code doesn't seem to be coping with the insertion of a newline at random points in the Tree string. I think you might need to modify your tokenize() method to handle this better? Could you also add a unit test using this particular tree.
>>
>> Do you have any case that exposes this bug? I am trying with this:
>>
>> #NEXUS
>>
>> Begin TREES;
>>       tree test1 =
>> (
>> 1
>> ,
>> 2
>> )
>> ;
>>
>> End;
>>
>> And it works out fine and dandy.
>> Maybe the bug that you are spotting is really not a newline problem
>> but an instance of the other bug (ie node name that happens after a
>> newline and seems as a newline bug)?
>
> --
> Richard Holland, BSc MBCS
> Operations and Delivery Director, Eagle Genomics Ltd
> T: +44 (0)1223 654481 ext 3 | E: holland at eaglegenomics.com
> http://www.eaglegenomics.com/
>
>



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