[ensembl-dev] $protein_tree_adaptor->fetch_all_roots

[Sébastien Moretti]

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

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Sébastien Moretti
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