[GenABEL-dev] bug_in_OmicABEL_reshuffle_fixed

[Yurii Aulchenko]

On Mon, Jul 1, 2013 at 4:52 PM, Содбо Шарапов <sharapovsodbo at gmail.com>wrote:

> Thank you, Lennart and Yurii=)
>
> >I've got a similar feature request/bug report for ProbABEL, do you know
> >what the effect of going from unsigned int to int64 will be on memory
> >usage?
>
> int64_t use 8 bytes instead of 4 bytes for int.
> In case of "reshuffle", now there are only three int64_t variables. As you
> can see, there is no problem with size of memory.
> But, during "reshuffling" tile_coordinates counting many times (about one
> time per 5-10 doubles from data).
> So, now reshuffle's runtime for data [1080traits;122756SNP;5 columns] is
> about 21 sec (this runtime is for --chi=25 opertaion).
> Before correction, runtime was about 16 sec...faster than now.
>
> PS: I found some another bugs in reshuffle(with --heritabilities) and
> ,also, ways to optimized work with big data. As soon as possible, I'll do
> it.
>
>
Yep, I noticed that outputs of --heritabilities are a bit strange (some
small negatives for parameters which should be positive) :)

keep us posted!

YA
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