fix topaz tool

        #end for

        python /app/update_config.py $input params.config output_directory=\$(pwd)/reduced &&

        python -u /app/topaz_reduction_combinefiles.py \$(pwd)/params.config > >(tee -a $output) 2> >(tee -a $output >&2) &&

        cp $input reduced/config.txt

        cp $input reduced/config.txt &&

        cd reduced && rm ${input_list}

    ]]></command>

    <inputs>