[R-sig-Fedora] Problem running R from within a script

[Tom "spot" Callaway]

On Tue, 2008-11-25 at 13:13 -0500, Joshua Kramer wrote:
> Howdy Folks,
> 
> I am running R version 2.7.2 (2008-08-25) on CentOS 5.2 - the standard RPM 
> distribution.
> 
> I am having a curious occurance trying to run a R script from within a 
> shell script.  Basically, I have a small R script that processes a file. 
> It takes two parameters - the input file, and the output file.  I then 
> have a shell script that runs the R script for each file matching a glob.
> 
> R is not picking up the correct parameters *when run from the script*. 
> When I run the command line by itself, it runs fine.
> 
> The command line is this:
> 
> /usr/bin/R CMD BATCH --no-restore --no-save '--args $taxFile $taxFile.taxonomy' batchMakeTax.R batchMakeTax.log

I'm just guessing here, but those ' ' single quotes don't seem to make
sense. Try dropping them (or moving them to just be around '$taxFile
$taxFile.taxonomy').

~spot