[BioRuby] My proper GSoC introduction

[Pjotr Prins]

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.

On Thu, Feb 16, 2012 at 11:28:03AM +0100, Marjan Povolni wrote:
> Hello once again,
> 
> My name is Marjan Povolni, I'm 27 years old and currently wrapping up my
> Masters in CS. My dissertation project will be done in a weeks time, but
> due to some bureaucracy requirements I won't be graduating until April. I
> saw that the requirement for GSoC is to be enrolled in an academic
> institution on April 23rd, so that fits me well.
> 
> I also have some 5 years of professional experience working for a local
> outsourcing company, working with lots of technologies. If someone's
> interested in details, you can take a look at my LinkedIn page:
> http://rs.linkedin.com/in/mpovolni. I'm very curious, want to learn new
> stuff and get better at what I'm doing, and that seemed always to be to the
> contrary of what was required of me at that company, so...
> 
> ...currently I'm switching to freelancing as a Rails developer and have an
> offer to be a TA and a Ph.D. student at the University of Novi Sad, at the
> systems lab, but that's starting in October. They're mainly doing research
> on operating systems, compilers and parallel programming, but as is the
> case for most labs in our country (Serbia), they have no funded projects,
> so I will be pretty much free to choose what I'm going to work on.
> Currently I'm looking into specializing in CUDA/OpenCL, and parallel
> algorithms and their use in bioinformatics.
> 
> Those are my plans, a GSoC project would be of great help to me, but even
> if it doesn't work out, I'm still determined to continue with them ;)
> 
> Best regards,
> Marjan
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