[GenABEL-dev] OmicABEL: DatABEL double format

[Diego Fabregat Traver]

Hi everyone,

On 01/05/13, Yurii Aulchenko  <yurii.aulchenko at gmail.com> wrote:

> I think the conversion would be a quick way out, but I also think that OmicABEL should allow for FLOAT input - otherwise people will end up tripling their existing FLOAT-based files storage. And this is really not a trivial amount of disk space to waste (talking of terabytes).
> 
> Diego, do you think this could be something relatively easily solvable?

Adding support for multiple input/output datatypes is indeed one of the items in OmicABEL's ToDo list. It will require some changes in the design, possibly trying to build on top of the filevector library. I'm not sure how difficult it will be, especially if we don't want this feature to have a strong impact on performance.

Unfortunately, I'm right now writing my dissertation, which takes up all my time, and cannot work on this issue yet.

Diego

> 
> YA 
> 
> 
> On Wed, Apr 24, 2013 at 4:37 PM, L.C. Karssen <lennart at karssen.org(javascript:main.compose()> wrote:
> 
> 
> > Dear list,
> > 
> > 
> > 
> > I was reading through the OmicABEL tutorial and noted that the DatABEL
> > 
> > files should be in Double format. By default the GenABEL function
> > 
> > mach2databel() creates float files.
> > 
> > 
> > 
> > This means that all existing DatABEL files should be converted to
> > 
> > double. I guess we should add a "convertType" program to the filevector
> > 
> > utilities to make life easier for people. Or add a similar R function to
> > 
> > DatABEL (and update mach2databel()).
> > 
> > 
> > 
> > Does anybody have an idea if such a conversion from float to double can
> > 
> > be done quickly? Of course conversion via an intermediate text file is
> > 
> > also possible, but seems a bit awkward.
> > 
> > 
> > 
> > 
> > 
> > As an aside, this would probably also fix the problems I ran into while
> > 
> > trying to make ProbABEL compute everything in doubles (see
> > 
> > http://lists.r-forge.r-project.org/pipermail/genabel-devel/2013-February/000505.html).
> > 
> > 
> > 
> > 
> > 
> > 
> > 
> > Lennart.
> > 
> > --
> > 
> > -----------------------------------------------------------------
> > 
> > L.C. Karssen
> > 
> > Utrecht
> > 
> > The Netherlands
> > 
> > 
> > 
> > lennart at karssen.org <lennart at karssen.org>
> > 
> > http://blog.karssen.org
> > 
> > 
> > 
> > Stuur mij aub geen Word of Powerpoint bestanden!
> > 
> > Zie http://www.gnu.org/philosophy/no-word-attachments.nl.html
> > 
> > ------------------------------------------------------------------
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> 
> 
> 
> 
> 
> -- 
> -----------------------------------------------------
> Yurii S. Aulchenko
> 
> 
> 
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