[BioRuby] My proper GSoC introduction

[Raoul Bonnal]

We can create a gem/plugins which downloads and compiles the lib in a
sandbox, biongs works in that way.  In case the machine is a biolinux we can
skip the sandbox.




On 16/02/12 12.33, "Peter Cock" <p.j.a.cock at googlemail.com> wrote:

> On Thu, Feb 16, 2012 at 11:00 AM, Pjotr Prins <pjotr.public14 at thebird.nl>
> wrote:
>> Hi Marjan,
>> 
>> Thanks for the intro.
>> 
>> Looks to me we ought to set you a right challenge :). With you in mind
>> we are going to propose to write the worlds fastest GFF3/GTF parser
>> using parallel D actors, and provide bindings for Ruby (and later
>> Python). The parser ought to iterate through the data files, possibly
>> handling information back through a simple filter.
>> 
>> How does that sound? Parsing GFF3/GTF in seconds, rather than hours.
>> 
>> Would be a true open-bio Bio* project. Peter, you like this?
>> 
>> Pj.
> 
> We'd want Brad involved for Biopython + GFF, but it certainly
> sounds like an interesting project. The D dependency might
> make for some interesting build dependencies, but that is a
> different matter.
> 
> Peter
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