#import re
        #set matrices_path=[]
        #set matrices_labels=[]
        #for $counter, $m, in enumerate($matrices):
            #set identifier = re.sub('[^\s\w\-]', '_', str($m.element_identifier))
            ln -f -s '${m}' '${identifier}_${counter}.$m.ext' &&
            #silent $matrices_path.append("'%s_%s.%s'" % ($identifier, $counter, $m.ext))
            #silent $matrices_labels.append("'%s'" % ($identifier))
        #end for

        hicPlotDistVsCounts
            --matrices #echo " ".join($matrices_path)#
            --labels #echo " ".join($matrices_labels)#
            $skipDiagonal
            --plotFile plot.png
            #if $plotsize:
                --plotsize $plotsize
            #end if
            --maxdepth $maxdepth
            $perchr
            #set chroms = " ".join([ "'%s'" % $var.chromosomeExclude for $var in $chromosomeExclude ])
            #if $chromosomeExclude:
                --chromosomeExclude '$chroms'
            #end if
            #if $domains:
                --domains '$domains'
            #end if
            #if $outFileData_Boolean:
                $outFileData_Boolean ./outFileData
            #end if