[R] one way to write scripts in R

[Tsjerk Wassenaar]

Hi,

That seems quite neat. To make it a bit more flexible, and maybe do
some argument acrobatics with bash, you could change the first few
lines to something like


#!/bin/bash

exec R --vanilla -q --slave -e "source(file=pipe(\"sed -n
/^##RSTART/,\$p $0\"))" --args $@

##RSTART

# Script here

Cheers,

Tsjerk

On Mon, Mar 29, 2010 at 6:31 PM, Jason E. Aten <j.e.aten at gmail.com> wrote:
> Thanks Gabor. I didn't realize you could.  Here is the scriptdemo.rsh  file
> as a text attachment, in case the line wraps made it hard to read/use.
>
> - Jason
>
> On Mon, Mar 29, 2010 at 11:19 AM, Gabor Grothendieck <
> ggrothendieck at gmail.com> wrote:
>
>> Thanks.
>>
>> You might want to repost it as a text attachment since many of the
>> lines wrapped around.
>>
>> Another more permanent possibility would be to put it on the R wiki at
>> http://rwiki.sciviews.org/doku.php
>>
>> Note that the gsubfn package has a facility for quasi-perl type string
>> interpolation as well. Just preface any function with fn$ and the
>> facility is applied to the arguments of the function (subject to
>> certain heuristics which determine which args to apply it to).
>>
>> > library(gsubfn)
>> > today <- format(Sys.Date())
>> > show <- list()
>> > show$syntax <- 43
>> > Sys.setenv(AN_ENV_VAR="greetings (I'm an env var!)")
>> >
>> > fn$cat('Getting `Sys.getenv("AN_ENV_VAR")` from the environment, on
>> $today,
>> + `show$syntax` is also possible.\n')
>> Getting greetings (I'm an env var!) from the environment, on 2010-03-29,
>> 43 is also possible.
>>
>>
>>
>> On Mon, Mar 29, 2010 at 11:41 AM, Jason E. Aten <j.e.aten at gmail.com>
>> wrote:
>> > Dear R users,
>> >
>> > A colleague of mine asked me how to write a script (an executable text
>> file
>> > containing R code) in R. After I showed
>> > him, he said that after extensive searching of the R archives, he had not
>> > found anything like these techniques.
>> >
>> > He suggested that I share these methods to enable others to leverage R as
>> a
>> > better alternative to bash/perl scripts.
>> >
>> > So in the interest of giving back to the R community, and with all
>> humility,
>> > I offer the
>> > following small demonstration of one method for creating scripts of R
>> code
>> > that are
>> > executable from the (at least Linux) command line.
>> >
>> > I don't make any warrantees that this will work for you, but if it helps
>> > somebody at least
>> > get starting utilizing R effectively in scripts, then great!
>> >
>> > Best regards,
>> >
>> > Jason
>> >
>> > --
>> > Jason E. Aten, Ph.D.
>> >
>> >
>> > # file: scriptdemo.rsh
>> >
>>
>
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>
>



-- 
Tsjerk A. Wassenaar, Ph.D.

post-doctoral researcher
Molecular Dynamics Group
Groningen Institute for Biomolecular Research and Biotechnology
University of Groningen
The Netherlands