search for: taxfil

...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 Here's the output of the script: Processing /usr/bin/R CMD BATCH --no-restore --no-save '--args Call0103.xpt Call0103.xpt.taxonomy' batchMakeTax.R batchMakeTax.log /usr/lib/R/bin/BATCH: line 55: Call0103.xpt: Permission denied I...