[Bioperl-l] Fwd: Re: alignment by TCoffee as a subroutine

Sergei Ryazansky dr.hogart at gmail.com
Wed Apr 30 13:39:35 EDT 2008


On Wed, 30 Apr 2008 21:11:56 +0400, Sergei Ryazansky <dr.hogart at gmail.com>  
wrote:

> Oh, sorry, you right - I too fast read you message. I do it slight later.
>
>> Hmm, maybe you were confused?  From my last email:
>>
>> "The best way to handle this is to file a bug report, attaching  
>> relevant data using the 'Create a new attachment' link (including  
>> either the full script or a shortened one which demonstrates the bug).  
>> Otherwise we're just shooting in the dark trying to diagnose the  
>> problem."
>>
>> http://bugzilla.open-bio.org/
>>
>> Anyone can work on fixing the issue there (so it'll probably get fixed  
>> faster).  The devs can also track progress on the problem via the dev  
>> mail list (bioperl-guts).  Diagnosing the bug may also reveal issues  
>> not just with Bio::Tools::Run::Alignment::TCoffee but also with other  
>> related modules.
>>
>> If needed I can post it to bugzilla, but it helps to submit the bug  
>> yourself (so you can receive posts on it's progress).
>>
>> chris
>>
>> On Apr 30, 2008, at 11:40 AM, Sergei Ryazansky wrote:
>>
>>> On Wed, 30 Apr 2008 20:25:06 +0400, Chris Fields <cjfields at uiuc.edu>  
>>> wrote:
>>>
>>> Chris, I have already sent file to Sendu and also I am attaching it  
>>> here. I have removed from it really unnecessary parts.
>>>
>>>> Sergei,
>>>>
>>>> I agree with Sendu; we can't diagnose this unless we either have the  
>>>> entire script of a minimal version of it demonstrating the bug.
>>>>
>>>> The best way to handle this is to file a bug report, attaching  
>>>> relevant data using the 'Create a new attachment' link (including  
>>>> either the full script or a shortened one which demonstrates the  
>>>> bug). Otherwise we're just shooting in the dark trying to diagnose  
>>>> the problem.
>>>>
>>>> http://bugzilla.open-bio.org/
>>>>
>>>> chris
>




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