Fixes imagine-x peak finding tool data files

        <container type="docker">code.ornl.gov:4567/dnp-computational-project/data-reduction-ndip-tools/peak-finding/v0.1.0</container>

    </requirements>

    <command detect_errors="exit_code"><![CDATA[

        mkdir in &&

        mkdir out &&

        ##Move files to execution directory

        #for $data in $dataFiles

            #set $dataFile  = str($data.element_identifier)

            echo $dataFile >> ./input_filenames.txt &&

        #for $data in $data_files

            cp $data.data_file.file_name in/$data.data_file.element_identifier &&

        #end for

        touch $output &&

        peak_finding 

            --input-file ./input_filenames.txt

            --data-directory in/

            --scan-average $scan_average

            --file-type $file_type

            --peak-threshold $peak_threshold

            --save-directory /portal &&

        mv /portal/peak_list.npy $output

            --save-directory out/ &&

        mv out/peak_list.npy $output

    ]]></command>

    <inputs>

    	<repeat name="dataFiles" title="Data Files">

	    	<param name="dataFile" type="data" format="txt" label="Data File">

        <repeat name="data_files" title="Data Files">

            <param name="data_file" type="data" format="txt" label="Data File">

            </param>

	    </repeat>

        <param name="instrument" type="select" label="Select instrument name:" optional="false">