R SIG Debian - Aug 2013 - running R in batch mode on Ubuntu

So, I'm submitting R 3.0.1 jobs on Ubuntu (13.04) using 'R CMD BATCH 
--no-save filename.R &'  (have an alias set to subr='R CMD BATCH
--no-save")

and am having a problem of sometimes the process ending without the R 
commands contained in the batch file actually having finished running.

We're running Bayesian models using R2jags jags.parallel and it ends 
during the jags run, so it might be something funky with that package, 
but am curious to know if the general issue of R process ending 
unceremoniously is anything anyone has run into.

Thanks,
Liz

On 16 August 2013 at 12:45, Elizabeth Tighe wrote:
| 
| So, I'm submitting R 3.0.1 jobs on Ubuntu (13.04) using 'R CMD BATCH 
| --no-save filename.R &'  (have an alias set to subr='R CMD BATCH
--no-save")
| 
| and am having a problem of sometimes the process ending without the R 
| commands contained in the batch file actually having finished running.
| 
| We're running Bayesian models using R2jags jags.parallel and it ends 
| during the jags run, so it might be something funky with that package, 
| but am curious to know if the general issue of R process ending 
| unceremoniously is anything anyone has run into.

Use either littler ("sudo apt-get install littler") which we wrote for
this purpose, or else use Rscript (which came a little later, but now comes
with R).

There are also packages for parsing command-line arguments, so you can really
create scripts '#!/usr/bin/r' with all the glory.

Dirk

-- 
Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com