[Biopython-dev] [Bug 2860] Writing GenBank files should output features in position order

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

http://bugzilla.open-bio.org/show_bug.cgi?id=2860





------- Comment #2 from n.j.loman at bham.ac.uk  2009-06-19 09:19 EST -------
Well yes, I realise that this is only a standard by convention. My assumption
when dealing with such matters is that if NCBI/GenBank does it, it is probably
right.

My impression is that "source" is always the first qualifier, then it is sorted
by location with "gene" features followed by "CDS" features by convention.

I guess it is acceptable for the user to deal with the order in the absence of
a published standard for GenBank files. But I think it would be equally
acceptable to code the GenBank outputter to enforce those rules.

(I know that script fragment would give weird output, it was just illustrative
of the position issue.)


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