#!/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}

fn_date=$(sed 's#-##g' <<<$date)
yr_mn=${fn_date:0:6}
echo $fn_date

cp ${indir}/swat_${yr_mn}*.tif .
ls .

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

exit 0