#!/bin/bash
# Run mosaic_creation.R
# Usage: ./04_run_mosaic_creation.sh --end_date=<YYYY-MM-DD> --offset=<days> --data_dir=kibos --file_name_tif=<filename>

end_date="$(date +%Y-%m-%d)"
offset=7
data_dir="kibos"
file_name_tif="week_03_2024.tif"

for arg in "$@"; do
    case $arg in
        --offset=*)
            offset="${arg#*=}"
            ;;
        --end_date=*)
            end_date="${arg#*=}"
            ;;
        --data_dir=*)
            data_dir="${arg#*=}"
            ;;
        --file_name_tif=*)
            file_name_tif="${arg#*=}"
            ;;
        *)
            echo "Unknown option: $arg"
            exit 1
            ;;
    esac
    shift
done

echo "Running mosaic_creation.R for $data_dir with end_date $end_date, offset $offset, file $file_name_tif."
cd r_app
Rscript 04_mosaic_creation.R $end_date $offset $data_dir $file_name_tif
cd ..