[GenABEL-dev] [genabel-Bugs][5118] Number of genotypes is limited to (2^31-1)/4

[L.C. Karssen]

I was surprised too.
This bug is also discussed on the forum:
http://forum.genabel.org/viewtopic.php?f=6&t=838


Lennart.

On 11/19/2013 10:37 PM, Yury Aulchenko wrote:
> Interesting. I thought the fact that R>3.0 allows for very long vectors "automatically" fixes the bug reported below. 
> 
> Y
> 
> 
> On Nov 19, 2013, at 22:00 PM, <genabel-bugs at r-forge.r-project.org> <genabel-bugs at r-forge.r-project.org> wrote:
> 
>> Bugs item #5118, was opened at 2013-11-19 16:00 by Ge Zhang
>> You can respond by visiting: 
>> https://r-forge.r-project.org/tracker/?func=detail&atid=2058&aid=5118&group_id=505
>>
>> Status: Open
>> Priority: 3
>> Submitted By: Ge Zhang (zhangge)
>> Assigned to: Nobody (None)
>> Summary: Number of genotypes is limited to (2^31-1)/4 
>> Resolution: None
>> Operating System: All
>> Severity: major
>> Hardware: All
>> Version: v1.7-6
>> Component: GenABEL
>> URL: 
>>
>>
>> Initial Comment:
>> The current GenABEL can only handle (2^31-1)*4 genotypes, corresponding approximately less than 4.3 million SNPs in 2,000 samples. The problem is caused by the upper limit of vector length 2^31-1 in R/GenABEL. A lot of functions in GenABEL are influenced by this limitation.
>>
>> The development team might consider to fix this problem since most machines are running 64-bit systems and R started supporting long vectors since version 3.0.
>>
>> ----------------------------------------------------------------------
>>
>> You can respond by visiting: 
>> https://r-forge.r-project.org/tracker/?func=detail&atid=2058&aid=5118&group_id=505
> 
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L.C. Karssen
Utrecht
The Netherlands

lennart at karssen.org
http://blog.karssen.org
GPG key ID: A88F554A
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