[ensembl-dev] $protein_tree_adaptor->fetch_all_roots

[Sébastien Moretti]

I have commented the warn line in Bio/LocatableSeq.pm
Output is clearer now !

Thanks
Best regards
Sébastien

> It is around for a while as far as I can remember.
> I always try to use the most up-to-date BioPerl version.
>
> It does not appear for all MSAs.
>
>
> A way to turn this message off ?
>
> Sébastien
>
>> Hi Sébastien
>>
>> I also have the same warning on my computer, but have never seen any
>> problem in the output. I assume it happens because I am not using
>> BioPerl 1.2.3 but a more recent version, but I've never looked into
>> that. Do you see this warning only for the most recent releases ? or has
>> it been around for a while ?
>>
>> Best,
>> Matthieu
>>
>> On 11/01/12 11:19, Sébastien Moretti wrote:
>>> Hi Matthieu
>>>
>>> get_tagvalue works now after adding the
>>> ensembl_compara_65.protein_tree_attr table.
>>> Thanks
>>>
>>>
>>> Also while extracting trees and related MSAs I get sometimes this kind
>>> of message:
>>> --------------------- WARNING ---------------------
>>> MSG: In sequence ENSOANP00000021545 residue count gives end value 390.
>>> Overriding value [3051] with value 390 for Bio::LocatableSeq::end().
>>>
>>> I guess this is harmless, isn't it ?
>>> What does it mean exactly ?
>>>
>>> Best regards
>>> Sébastien

-- 
Sébastien Moretti
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