[GenABEL-dev] [ProbABEL] Different results when using fv and regular input on 64 bit Linux

[L.C. Karssen]

Hi Yurii,

On 06-03-12 19:51, Yury Aulchenko wrote:
> I get apparently the same using Debian 64 bit running under VirtualBox in Mac OS
> (results attached)

Thanks!

>
> I understand that Debian/Ubuntu are related so probably this can not be
> considered totally independent check. Or am I wrong?

That's true, Ubuntu uses Debian as a starting point. I guess the gcc 
packages and most libraries will be the same.


Lennart.

>
> Yurii
>
>
>
>
> -------------------------------------------------------
> Yurii Aulchenko, PhD, Dr. Habil.
> Independent researcher and consultant
> yurii [dot] aulchenko [at] gmail [dot] com
>
> On Mar 4, 2012, at 10:07 PM, L.C. Karssen wrote:
>
>>  Dear all,
>>
>>  While preparing (yet again) to make a release of ProbABEL I ran into the
>>  following problem: running the test suite (make check) on my 64 bit
>>  Ubuntu 11.10 machine results in different output for the --mmscore tests
>>  (examples/example_mms.sh), the others (I haven't tried the cox test yet
>>  as it takes several hours) pass.
>>
>>  See the attached file for the complete output but as you can see in the
>>  following few lines of diff output, the difference is sometimes a few
>>  decimals, but in another line I simply get zeroes for beta and se_beta
>>  in the filevector output:
>>
>>  <  rs735579,A,B,0.5847,0.5847,0.5847,0.5847,491,0.534623,1.63067,0.488552
>>  <  rs9088604,A,B,0.5847,0.5847,0.5847,0.5847,497,0.435614,-553.621,1.12808
>>  <  rs1413801,A,B,0.5847,0.5847,0.5847,0.5847,492,0.311992,-6.1979,0.576774
>>  <  rs4911638,A,B,0.5847,0.5847,0.5847,0.5847,496,0.150202,75.6816,0.592895
>>  ---
>>>  rs735579,A,B,0.5847,0.5847,0.5847,0.5847,491,0.534623,1.66126,0.495227
>>>  rs9088604,A,B,0.5847,0.5847,0.5847,0.5847,497,0.435614,0,0
>>>  rs1413801,A,B,0.5847,0.5847,0.5847,0.5847,492,0.311992,-6.19776,0.576737
>>>  rs4911638,A,B,0.5847,0.5847,0.5847,0.5847,496,0.150202,75.8228,0.59293
>>
>>
>>  Strangely enough, on my 32bit Ubuntu 11.04 laptop all tests always pass.
>>
>>  Can someone else please run the checks on a 64 bit Linux or other
>>  platform? To make sure you are testing the same version, please use SVN
>>  r.847.
>>
>>
>

-- 
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L.C. Karssen
Erasmus MC
Department of Epidemiology
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