[Biojava-l] [GSoC] GSoC 2014 with OBF and JSBML

[P. Troshin]

+biojava-l

Hi Guys,


Since JSBML is a pure Java project and it
provides functionality not available in BioJava I do not see why it cannot
be packed as a BioJava module. In that case, yes, I think the project
should be using biojava mailing list as well as any project specific
mailing list the mentors see fit.

Using BioJava section to write down JSBML project idea seems fully
justified. Over the years we have developed parsers for various files
within BioJava community, so its not something totally new to BioJava.



Similarly, if any Bio Scala project idea appears on the horizon, it could
be affiliated with BioJava taking the interoperability of the two languages
into account. We just need to make sure any new project extends BioJava in
some way and provides some bindings into BioJava object model.


Regards,
Peter


On 3 March 2014 07:29, Eric Talevich <eric.talevich at gmail.com> wrote:

> Folks,
>
> Now that the Open Bioinformatics Foundation is serving as a mentoring org
> for GSoC 2014, we've had some recent discussions on how auxilliary projects
> (i.e. not the Bio* libraries) can participate and how these potential
> projects will be handled administratively for GSoC.
>
> JSBML contributed several solid project ideas and we're seeing interest
> from potential students already. In our application to Google, OBF treated
> JSBML as being affiliated with BioJava, which seemed like a safe way to
> ensure students would have access to the OBF infrastructure and other
> mentors if needed.  However, JSBML also can provide the necessary
> infrastructure, namely an active developer community and a mailing list
> where a student can discuss their work with the core developers.
>
> The question: For GSoC 2014, should we keep the connection between BioJava
> and JSBML, or would it be better to officially bring the JSBML project
> within OBF's scope?
>
> This decides two things, in practice:
>
> 1. Should GSoC students accepted to work on JSBML send their weekly updates
> to the mailing list for BioJava developers, JSBML developers, or both?
>
> 2. On the OBF Ideas page [1], should we list the JSBML ideas in the BioJava
> and Cross-Project sections, alongside the contact info for BioJava and OBF,
> or in a separate JSBML section, with JSBML's contact info?
>
> For further reading, see the unratified document describing the
> relationship between OBF and the various member projects [2] and a recent
> thread on this topic [3]. In short, we're flexible, but we'd like to
> understand each project's goals in order to ensure everyone's needs are
> met.
>
>
> Looking forward to hearing your thoughts,
> Eric
>
> [1] http://www.open-bio.org/wiki/Google_Summer_of_Code_2014_Ideas
> [2]
>
> https://github.com/OBF/obf-docs/blob/unratified-drafts/Affiliated-Project-Policy.md
> [3] http://lists.open-bio.org/pipermail/gsoc/2014/000264.html
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