[Biopython-dev] [Bug 2999] SeqIO.parse() or record.format("genbank") converts input sequence to uppercase or

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2999


biopython-bugzilla at maubp.freeserve.co.uk changed:

           What    |Removed                     |Added
----------------------------------------------------------------------------
             Status|NEW                         |RESOLVED
         Resolution|                            |FIXED




------- Comment #2 from biopython-bugzilla at maubp.freeserve.co.uk  2011-01-26 09:07 EST -------
(In reply to comment #1)
> In many file formats (e.g. FASTA) mixed case is allowed and useful.
> 
> The sequence in a GenBank file is (by convention) always lower case,
> but for historical reasons Biopython converts this to upper case on
> parsing (not sure why, but changing it would risk breaking existing
> scripts).
> 
> However, I think we should convert to lower case on writing GenBank
> output.
> 

Done:
https://github.com/biopython/biopython/commit/1f860f445d99794ef3747f7a90d73ac4b4a78a00

Marking as fixed.


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