#!/bin/bash -x

#input is an empty text file with the date to be processed in the filename, e.g. date_2003-01-01.txt
input=$1
indir=$2
outdir=$3
Rfile=$4

date=$(basename $input .txt | cut -d'_' -f2)


yr=${date:0:4}

dir_to_search=${indir}/_monthly_sum/
cp ${dir_to_search}/swat_${yr}*.tif .

if [ ! -f ${outdir}/swat_${yr}.tif ];
then
	mkdir -p output/
	#run r script to calculate frequency of surface water occurrence
	echo "Rscript $Rfile $yr swat"
	Rscript $Rfile $yr swat
	
	mv swat_${yr}.tif output/swat_${yr}.tif
else
	echo "${outdir}/swat_${yr}.tif already exists"
fi

exit 0