Render an R markdown document on a PBS/Torque cluster

render.pbs

#!/bin/bash

#PBS -N name
#PBS -l nodes=1:ppn=1,mem=10gb,walltime=6:00:00
#PBS -m n
#PBS -j oe
#PBS -r n

module load R/3.3.2 gcc/4.9.2
module load pandoc/1.13.1

cd $PBS_O_WORKDIR
RMD_FILE="/path/to/file.Rmd"

Rscript -e "library(methods); rmarkdown::render('$RMD_FILE', knit_root_dir=getwd(), output_dir=getwd())"