[GenABEL-dev] new approach for data storage in GenABEL package

[L.C. Karssen]

Hi Maksim,

On 14-11-13 22:38, Maksim Struchalin wrote:
> In this email, I propose a new approach which allows to reduce total
> size of data from 8Mb to 2Mb that reduce the entire GenABEL size from
> 12Mb to 6Mb.

I gues you mean B (bytes) instead of b (bits) here :-).

> 
> "R CMD check --as-cran" reports that the following sub-directories have
> too big size: data (2.3Mb), exdata (5.7Mb) and libs (2.6Mb). After the
> last GenABEL submission to CRAN, the maintainers suggested to create a
> new package called GenABELdata and move all the data there. I run
> through the data and found that:
> 1) "exdata" directory can be compressed by gzip and reduced from 5.8Mb
> -> 1.1Mb.
>     - There is a function guzip() from library R.utils which can
> decompress the files. It works on any OS.
>     - Moreover: the native R function read.table() can read gzip files
> without decompression.
>     - Even more: it looks like that the biggest file "srgenos.dat" is
> used only once a long time ago for generating "srdta.RData" and now it
> is just sitting there and eating space needlessly.

Sounds like a waste of space!

> 2) We can delete some files from the "data" directory. The deleted files
> will be generated on the user computer based on the files from exdata.
> It can be done during INSTALLATION (a line in Makefile?) or on the first
> load through (|run funcion .onAttach() in R/zzz.R|). 

This sounds like a perfectly acceptable option.

> It will reduce
> total size of "data" directory from 2.3Mb to 800Kb.

Fantastic! If no one has other objections I say: go ahead.


Best,

Lennart.


> 
> Any objections/suggestions?
> 
> best,
> Maksim
> 
> 
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> genabel-devel at lists.r-forge.r-project.org
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> 

-- 
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L.C. Karssen
Utrecht
The Netherlands

lennart at karssen.org
http://blog.karssen.org

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