Fields, Christopher J | 16 Jul 20:05 2013

Re: Bio::FeatureIO::faldo

Chris (m),

It's merged in; you can technically make commits directly or to a branch as you are in the list of developers,
so no forking is necessary.  

Re: FeatureIO, it will be a separate release series from bioperl core (it's not on CPAN on it's own as of yet,
though it likely will be in the next month or two).

chris (f)

On Jul 11, 2013, at 4:27 PM, Chris Mungall <cjmungall <at> lbl.gov> wrote:

> Hi all,
> 
> I wrote a bioperl module for generating RDF/turtle for features using the FALDO model [1]
> 
> I think this is the first time I've contributed code to bioperl since the brave new world of github - I
suppose as I am a developer I could have added it straight in but I forked and made a pull request
> 
> 	https://github.com/bioperl/Bio-FeatureIO/pull/2
> 
> Is this the correct protocol?
> 
> There's a bit more work to do - mapping all the various GFF attributes to the desired properties is
something that requires broader discussion in the GFF3/FALDO communities.
> 
> The sensible thing to do would be to compare the output with Rob Hoehndorf's Groovy GFF3 to FALDO converter
- I confess I haven't done this yet.
> 
> For the FALDO folks, this allows a wider range of formats to be converted to FALDO, and makes it easier to use
FALDO from within existing bioperl based architectures.
> 
> Cheers
> Chris
> 
> [1] https://github.com/JervenBolleman/FALDO
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Gmane