[GenABEL-dev] ld-based pruning

[L.C. Karssen]

On 21/03/13 19:53, L.C. Karssen wrote:
> The only thing that remains in terms of input checking is a check for
> the existence of the ProbABEL config file. But that's easy.

Oops, I should check first before I write. A check for the existence of
the config file is already present.


Lennart.

> 
> 
> Lennart.
> 
> On 20/03/13 12:00, Yurii Aulchenko wrote:
>>
>>     Technically, if we make it part of GenABEL would that mean that GenABEL
>>     depends on DatABEL (now it is only a suggested dependency) since Paul's
>>     function 'require()'s DatABEL? Are there any other R packages that have
>>     functionality that only works if a given package is installed (that is
>>     not in the dependency list but only in the suggested list)?
>>
>>
>>
>> I do not see a big problem with above - e.g. there are functions like
>> minimac2databel in the GenA. They start with
>> (https://r-forge.r-project.org/scm/viewvc.php/pkg/GenABEL/R/minimac2databel.R?view=markup&root=genabel)
>>
>> minimac2databel <- function(imputedgenofile, infofile, outfile, cachesizeMb=64)
>> {
>>   if (!require(DatABEL))
>>     stop("This function requires DatABEL package to be installed")
>>
>>
>> This seems to be accepted practice
>>
>> Yurii
> 
> 
> 
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L.C. Karssen
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The Netherlands

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

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