[Biopython-dev] MUMmer

[Bartek Wilczynski]

Hi Marcin,

On Thu, Apr 30, 2009 at 5:23 PM, Marcin Swiatek
<marcin.swiatek at mail.mcgill.ca> wrote:
> Hello,
>
>
>
> I use this stuff only myself, in work on bacterial genomes, but I would
> be more than willing to contribute it to the project. It may be rough
> around the edges at the moment, but I think I could easily give it the
> necessary polish if there is interest in having it included.
>
Contributions are always welome

>
>
> Should that be the case, could one of the project leads point me in the
> right direction, please? How should I go about the submission?
>
>
I don't think I qualify as a lead, but nonetheless I think I can help here.

I think that the best way to submit your code currently is to create a
branch (fork) of
biopython on github and submit your changes there and then notify
people on biopython-dev
that there is new code to review. You can also submit an enhancement
bug to bugzilla.

There are a couple of wiki pages which might be of interest  to you:
- http://biopython.org/wiki/Contributing
- http://biopython.org/wiki/GitUsage

If you have any questions or problems during the process, ask on the list.

As for the code, I'm not sure, but maybe instead of returning a pair
of sequences, an alignment object might be a better choice?

You might want to also check out a recent code on application wrappers:
http://lists.open-bio.org/pipermail/biopython-dev/2009-April/005766.html

cheers
  Bartek