[Biopython-dev] Interested in contributing to Biopython

Mahesh Gudapakkam mahesh.gudapakkam at gmail.com
Thu May 19 00:16:32 UTC 2016

Hi Peter

Thanks so much for welcoming me and for taking the time to guide me on
things I can start helping with.

Indeed, there are many tasks I can help with without working on the code
itself - it's also a fabulous (gentle) way to get oriented with the various

I'll get started and sure to reach out to you/group whenever I have

The first (possibly few) commits will be likely trivial - intentionally so,
just so that I get familiar with the workflow of making/committing a change
and seeing it through to deployment. Hoping it's not seen annoying or
inconvenient to folks involved.

Warm Regards

On Wed, May 18, 2016 at 5:53 PM, Peter Cock <p.j.a.cock at googlemail.com>

> Hi Mahesh,
> Saying hello on this mailing list is very appropriate. Welcome!
> Right now we've been busy with rebuilding the website using
> GitHub pages - you've found the repository for that - have a
> look at the issue tracker or just looking glitches in the website
> would  be a good way to immediately help out.
> (If this side of things happens to particularly interest you,
> then the websites for BioSQL, BioJava, and BioPerl have
> been though a similar migration - I'm currently doing BioDAS
> and there are a couple more to look at after that).
> On the testing side, Tiago has been looking at making it easier
> for us to make sure we're testing all our code with "soft" or
> optional dependencies. We're using TravisCI but haven't yet
> got that working under Mac OS X too - nor have we setup a
> similar system for Windows testing but such things exist.
> We do have a buildbot setup as well, testing.open-bio.org,
> but do need another volunteer with a Windows machine...
> API documentation wise, we're still using epydoc to build
> the API doc webpages from our docstrings, see:
> http://biopython.org/wiki/Building_a_release
> All our docstrings *should* now be valid restructured text.
> A next step would be to replac epydoc (and its ugly HTML
> output) with something like Sphinx, pandoc, or the hosted
> service readthedocs.org
> Rather than scaring you (and anyone else reading this), I'm
> trying to say there's lots of things that can be worked on
> even without working directly on the code itself - so I hope
> there's something that looks interesting that you'll try.
> And please do ask questions,
> Thanks!
> Peter
> On Wed, May 18, 2016 at 9:32 PM, Mahesh Gudapakkam
> <mahesh.gudapakkam at gmail.com> wrote:
> > Hi All,
> >
> > I have a feeling this may not be the right way to offer that I'd like to
> > help with contributing to Biopython but I am doing so per this text on
> your
> > website. (http://biopython.org/DIST/docs/tutorial/Tutorial.html#htoc319
> -
> >  The best place to express an interest is on the Biopython mailing lists
>> > just let us know you are interested in coding and what kind of stuff you
> > want to work on.)
> >
> > I am Web developer and UI/UX designer who is very interested in
> > Bioinformatics. Ideally I'd like to contribute to modules within
> Biopython
> > but I know that will take time and domain expertise. I will get there.
> >
> > However, I'd like to begin immediately by offering to help with the
> website,
> > documentation and unit tests.  At present, I am reviewing both Chapter 22
> > Where to go from here – contributing to Biopython as well as your github
> > repo for your website https://github.com/biopython/biopython.github.io.
> >
> > Please let me know if this is the right way to get involved with this
> > effort. My apologies if I did this the wrong way.
> >
> > Thanks
> > Mahesh Gudapakkam
> >
> >
> > _______________________________________________
> > Biopython-dev mailing list
> > Biopython-dev at mailman.open-bio.org
> > http://mailman.open-bio.org/mailman/listinfo/biopython-dev
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