idba_hybrid

    
        --read '$read'
        #if $long_read:
           --long_read '$long_read'
        #end if
    
    #if $ref_source.ref_source_sel == "cached"
        --reference '${$ref_source.reference.fields.path}'
    #else
        --reference '$ref_source.reference'
    #end if
    
    #if $read_level_2:
        --read_level_2 '$read_level_2'
    #end if
    #if $read_level_3:
        --read_level_3 '$read_level_3'
    #end if
    #if $read_level_4:
        --read_level_4 '$read_level_4'
    #end if
    #if $read_level_5:
        --read_level_5 '$read_level_5'
    #end if
    
    
        --mink $mink
        --maxk $maxk
        --step $step
        --inner_mink $inner_mink
        --inner_step $inner_step
        --prefix $prefix
        --min_count $min_count
        --min_support $min_support
        --seed_kmer $seed_kmer
    
    
        --min_contig $min_contig
        --similar $similar
        --max_mismatch $max_mismatch
    
    --min_region $min_region
    --max_gap $max_gap
    
        --min_pairs $min_pairs
    
    
        #if $other:
            ${" ".join(str($other).split(","))}
        #end if
    
    
        --num_threads \${GALAXY_SLOTS:-1}