[Biopython] Could Bio.SeqIO write EMBL file?

Peter biopython at maubp.freeserve.co.uk
Tue Jan 12 12:33:35 UTC 2010


On Tue, Jan 12, 2010 at 10:27 AM, Peter <biopython at maubp.freeserve.co.uk> wrote:
> On Mon, Jan 11, 2010 at 5:32 PM, Anne Pajon <ap12 at sanger.ac.uk> wrote:
>> Here is the diff between the EMBL output from Bio.SeqIO and the genbank
>> output from Bio.SeqIO converted with the EMBOSS tool to an EMBL file:
>>
>> ...
>>
>> The main differences are on line breaks.
>
> I hadn't yet done a comparison against EMBOSS (what version do you
> have), but yes, it looks like I am wrapping the feature tables using a
> shorter line length - we should check that, and it would be easy to
> adjust in Bio/SeqIO/InsdcIO.py

The spec is pretty clear than the feature lines should be up to 80
characters. The premature wrapping was because I had been
testing length < 80 instead of <= 80, which is now fixed in git.

Peter



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