[Biojava-dev] Entrez Gene

[Michael Heuer]

A separate module plus adapter layer(s) sounds good to me.

   michael

On Mon, Feb 24, 2014 at 12:17 PM, Andreas Prlic <andreas at sdsc.edu> wrote:
> Hi,
>
> Erik McKee has suggested that he could contribute a data schema that would
> represent large parts of Entrez Gene. In total these would be ~190 classes
> that were auto-generated using jaxb.
>
> It would be great to have more support for working with genomics data and I
> am excited about such a contribution. The main question is how we could
> organize such a major code addition. We already have a -genome and
> -sequencing module. However since this is auto-generated code, we could
> bundle this as an independent module and then just add a conversion layer
> on top that, which would allow to convert data to biojava-core specific
> classes.
>
> Another question is if Maven should generate the code from the schema at
> build time, or if want the final code. My feeling is that it would probably
> be better to keep the final code in git, but keep instructions for how to
> re-generate it.
>
> Any thoughts from other people on this?
>
> Andreas
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