[BioRuby] R: contribute to Bioruby

[Raoul Bonnal]

Dear Emanuele,
Now we are working on:
1) creating a plugin system, something more dynamic than gem for experimenting new code and include external bindings like BioLib (cross OpenBio* projects for high performance algorithms in BioInformatics)
2) using the ActiveRDF library to query sparql, I'd like to define a "smart" way to use the sparql language. I need some time to write down a prototype I have in my mind. I think that you have already heard something about Semantic Web in you consultant experience
3) Support EMBOSS suite dynamically, reading .acd configuration files
4) How to create charts or fancy graphics from data (we need a cross platform way)?
5) samtool ?
6) update BioSQL support to latest revision

please add other ideas below.

I'm currently working on 1), and 2)

--
Raoul J.P. Bonnal
Life Science Informatics
Integrative Biology Program
Fondazione INGM
Via F. Sforza 28
20122 Milano, IT
phone: +39 02 006 623  26
fax: +39 02 006 623 46
http://www.ingm.it


> -----Messaggio originale-----
> Da: bioruby-bounces at lists.open-bio.org [mailto:bioruby-
> bounces at lists.open-bio.org] Per conto di Emanuele Orlando
> Inviato: giovedì 15 luglio 2010 14:30
> A: BioRuby ML
> Oggetto: Re: [BioRuby] contribute to Bioruby
> 
> Hi,
> 
> any news to my questions? :)
> 
> Best regards,
> 
> --
> Emanuele Orlando
> http://www.emanueleorlando.com
> 
> On Thu, Jul 8, 2010 at 11:46 AM, Emanuele Orlando <
> emanuele.orlando at gmail.com> wrote:
> 
> > Thanks to all for the precious links.
> > I didn't know chemruby and now i've some questions :)
> > Its mailing list is empty. If i want discuss about programming/design
> of
> > chemruby, where do i mail? On bioruby list with a specific tag
> (example
> > [CHEMRUBY]) or i use chemruby list?
> > At the beginning who has contributed for Chemruby?
> > Priority where focused?
> >
> > Thanks
> > Emanuele
> >
> > --
> > Emanuele Orlando
> > http://www.emanueleorlando.com
> > http://it.linkedin.com/in/kooru
> >
> >
> >   On Wed, Jul 7, 2010 at 10:42 PM, Toshiaki Katayama <ktym at hgc.jp>
> wrote:
> >
> >> Hi,
> >>
> >> This explanation by Jan may be useful when you try GitHub.
> >>
> >> http://saaientist.blogspot.com/2008/06/bioruby-with-git-how-would-
> that-work.html
> >>
> >> Toshiaki
> >>
> >> On 2010/07/08, at 3:36, Pjotr Prins wrote:
> >>
> >> > Welcome Emanuele,
> >> >
> >> > On Wed, Jul 07, 2010 at 08:00:58PM +0200, Emanuele Orlando wrote:
> >> >> Dear Bioruby,
> >> >>
> >> >> This is my first mail to the group.
> >> >> My name is Emanuele Orlando, i'm graduate in Computation
> Chemistry and
> >> from
> >> >> three years i'm working as IT consultant.
> >> >> As others i love ruby and i would be happy to contribute to the
> >> development
> >> >> of bioruby. How can i make some contributions?
> >> >
> >> > Choose a topic to work on. You can simply get a free account on
> >> > github.com and clone the repository. Start coding - when it works
> we
> >> > can easily merge it in to the main tree.
> >> >
> >> > If you want to discuss programming and design, just mail this
> list.
> >> >
> >> > Pj.
> >>  > _______________________________________________
> >> > BioRuby Project - http://www.bioruby.org/
> >> > BioRuby mailing list
> >> > BioRuby at lists.open-bio.org
> >> > http://lists.open-bio.org/mailman/listinfo/bioruby
> >>
> >>
> >> _______________________________________________
> >> BioRuby Project - http://www.bioruby.org/
> >> BioRuby mailing list
> >> BioRuby at lists.open-bio.org
> >> http://lists.open-bio.org/mailman/listinfo/bioruby
> >>
> >
> >
> >
> >
> _______________________________________________
> BioRuby Project - http://www.bioruby.org/
> BioRuby mailing list
> BioRuby at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioruby