On 25.04.2012 17:12, Steve Lianoglou wrote:
> Check out the vignette for the optparse library:
>
> http://cran.r-project.org/web/packages/optparse/vignettes/optparse.pdf
>
> Super helpful library if you plan on making any semi-interesting
> command line scripts w/ R.
>
> -steve
>
> On Wed, Apr 25, 2012 at 6:47 AM, aoife doherty
> <aoife.m.doherty@gmail.com> wrote:
>> Hey guys,
>> Does anyone have an example of a REALLY simple shell script in R.
>>
>> Basically i want to run this command:
>>
>> library(MASS)
>> wilcox.test(list1,list2,paired=TRUE,alternative=c("greater"),correct=TRUE,exact=FALSE)
>>
>> in a shell script something like this:
>>
>> #!/bin/bash
>> R
>> library(MASS)
>> for i in *.out
>> do
>> wilcox.test($i,${i/out}.out2,paired=TRUE) >> $i.out
>> done
>>
>>
>> that i can run on a command line this this:
>> sh R.sh
>>
>>
>> because i've SO many files to run this command on.
>>
>>
>> I've been googling, but i'm having trouble of just finding a simple example
>> explaining how to make this shell script.
>>
>> Any help appreciated :)
>> Aoife
>>
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>>
>> ______________________________________________
>> R-help@r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-help
>> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
>> and provide commented, minimal, self-contained, reproducible code.
>
>
Hi Aoife
you can use the capture.output function if you want so sent R output to
a file

Regards!

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