Professor Ripley, Thank you very much.
I have used Rscript and it runs fine now. Your help is very much appreciated. Best wishes, Andrew hicks -----Original Message----- From: Prof Brian Ripley [mailto:rip...@stats.ox.ac.uk] Sent: 11 January 2009 01:23 To: Andrew Hicks Cc: r-help@r-project.org Subject: RE: [R] Arguments for Rcmd BATCH I suggested you use Rscript, please do. R CMD BATCH is the Unix-alike notation. Rcmd BATCH is the recommended way on Windows, but R CMD BATCH is also accepted. There is nothing to reproduce here, so here is a simple example. tystie% cat foo.R args <- commandArgs(TRUE) print(args) tystie% Rscript foo.R parms=1:33 [1] "parms=1:33" You can redirect the output as you wish. On Sun, 11 Jan 2009, Andrew Hicks wrote: > Dear Professor Ripley, > > Firstly, thank you very much for your advice. I was not aware my R was so > old. Sorry I must have missed the instruction on reading the posting > guidelines. > > I have updated it and it now runs again. This is a big step forward. However > it is not running properly (or I am doing something wrong). > > There are still two problems may I ask for your help with please? > > 1. When I call the script it fails with the following message in the output > file: > >> ##First read in the arguments listed at the command line >> args <- commandArgs(TRUE) > Error in commandArgs(TRUE) : unused argument(s) (TRUE) > Execution halted > > 2. The diagnostic details (that should be going to test01b.ROUT are now > going to strange places, overwriting the test01b.R file if I do not include > the < and > redirectors. > > I am now using the following syntax, from the manual: > > Rcmd BATCH --no-save --no-restore --args parms=c(1,2,3) < test01b.R > > test01b.ROUT That's nothing like what is documented. > Currently it is writing the output to "parms=c(1,2,3).ROUT" > > This is attached but says "fatal error cannot open file "--args" > > The file test01b.ROUT is created but empty. > > I get the same results if I start it with R CMD BATCH ... > > Is the a difference between R CMD... and Rcmd... please? The manual is not > very clear on this. > > I am sorry to impose on you but guess I am still doing something wrong. I > have looked through the documentation but cannot find much on this or many > examples. > > Many thanks, > > Andrew Hicks > > > -----Original Message----- > From: Prof Brian Ripley [mailto:rip...@stats.ox.ac.uk] > Sent: 10 January 2009 18:18 > To: Andrew Hicks > Cc: r-help@r-project.org > Subject: Re: [R] Arguments for Rcmd BATCH > > Your R is far too old, and in particular too old for the example you > are trying. > > Please do you as asked in the posting guide to do before posting, and > upgrade. Then you will have Rscript, as described in the current 'An > Introduction to R' manual for this purpose (with examples). > > On Sat, 10 Jan 2009, Andrew Hicks wrote: > >> Sorry to bother you and I hope this will be easy to solve. >> >> >> I am trying to run R scripts in batch, called from another programme, > under >> Windows XP. I have R 2.4.1 >> >> >> >> I need to be able to pass a list of numeric arguments to the script as > well. >> >> >> >> The Rscript and its input data file are attached. >> >> >> >> I have been trying the syntax below but it doesn't work: >> >> >> >> Rcmd BATCH -no-save -no-restore -args parms=c(1,2,3) test01b.R >> >> >> >> (each of these BATCH options is preceded by 2 - characters, but my Outlook >> is munging them together here) >> >> >> >> The script then accesses (or tries to) the variables as parms[1], > parms[2], >> etc. >> >> >> >> I get the respose "unable to open input file" at the command line and no >> other diagnostic output. >> >> >> >> I got this syntax from p85 of the R-Intro doc and from the website >> http://quantitative-ecology.blogspot.com/search/label/scripts. I could not >> find any other illustrations or instructions of how to use args with > BATCH. >> >> >> >> Without using any parameter args it otherwise runs fine. >> >> >> >> Please can you advise what am I doing wrong and how should this command be >> structured? Do I also need to change the way the script is accessing the >> arguments? >> >> >> >> Many thanks, >> >> >> >> Andrew Hicks >> >> > > -- > Brian D. Ripley, rip...@stats.ox.ac.uk > Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ > University of Oxford, Tel: +44 1865 272861 (self) > 1 South Parks Road, +44 1865 272866 (PA) > Oxford OX1 3TG, UK Fax: +44 1865 272595 > -- Brian D. Ripley, rip...@stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595 ______________________________________________ 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.
