[Biopython] Could Bio.SeqIO write EMBL file?

[Anne Pajon]

Hi Peter,

I've tested the PR line with dbxrefs and it works fine, thanks.

I've sent you a request for improving the writing of the references by  
adding the RG line.

I've CC the list again... sorry for not having done so for two replies.

Kind regards,
Anne.

On 5 Mar 2010, at 16:14, Peter wrote:

> On Fri, Mar 5, 2010 at 4:02 PM, Anne Pajon <ap12 at sanger.ac.uk> wrote:
>>
>> On 5 Mar 2010, at 15:13, Peter wrote:
>>
>>> On Fri, Mar 5, 2010 at 2:24 PM, Anne Pajon <ap12 at sanger.ac.uk>  
>>> wrote:
>>>>>
>>>>> In the case of PR (project lines) I think we must be ignoring  
>>>>> them at
>>>>> the moment, but to match the GenBank parser the information should
>>>>> be stored in the SeqRecord dbxrefs list not the annotations  
>>>>> dictionary.
>>>>
>>>> Would be great to have a place where to store the PR line.
>>>
>>> Perhaps I was unclear - we do have a place to store the PR line, the
>>> SeqRecord's dbxrefs list (following how the GenBank parser stores
>>> the project information).
>>
>> Sorry I did not understood that. Great if I could do it with  
>> dbxrefs. I'll
>> try right now then.
>>
>>>
>>> Getting the EMBL parser to do the same was trivial, although this
>>> does make doing the output a tiny bit more complex. See github.
>>>
>>
>> I will have a look.
>
> I meant I just did this and checked in the change to github ;)
>
> Thanks for the example - I'll take a look.
>
> Regarding the mailing list, you probably just clicked on "reply"
> rather than "reply all" so it came to just me.
>
> Thanks,
>
> Peter

--
Dr Anne Pajon - Pathogen Genomics, Team 81
Sanger Institute, Wellcome Trust Genome Campus, Hinxton
Cambridge CB10 1SA, United Kingdom
+44 (0)1223 494 798 (office) | +44 (0)7958 511 353 (mobile)



-- 
 The Wellcome Trust Sanger Institute is operated by Genome Research 
 Limited, a charity registered in England with number 1021457 and a 
 company registered in England with number 2742969, whose registered 
 office is 215 Euston Road, London, NW1 2BE.