digraph workflow {
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	subgraph cluster_outputs {
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	"bowtie-pe"	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1174.5 665.5 1174.5 684.5 1239.5 684.5 1239.5 665.5 ",
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	input_fastq_read2_files -> "bowtie-pe"	[_draw_="c 7 -#000000 B 7 1019.1 718.69 1027.51 710.63 1041.45 698.8 1056 693 1075.42 685.25 1128.68 680.58 1166.43 678.15 ",
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		label=sort_bams,
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	nthreads -> sort_bams	[_draw_="c 7 -#000000 B 7 925.86 718.7 937.17 711.24 952.75 699.27 962 685 978.52 659.52 983.68 623.68 985.28 602.85 ",
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		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 995.5 650.6 0 37 8 -nthreads ",
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	sam2bam	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 898.5 620.5 898.5 639.5 963.5 639.5 963.5 620.5 ",
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	nthreads -> sam2bam	[_draw_="c 7 -#000000 B 4 913.62 718.82 916.73 703.09 923.6 668.4 927.71 647.63 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 930.08 648.27 929.04 640.92 925.27 647.31 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 942.5 673.1 0 37 8 -nthreads ",
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		lp="942.5,675",
		pos="e,929.33,639.44 913.62,718.82 916.73,703.09 923.6,668.4 927.71,647.63"];
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		height=0.27778,
		label=filtered2sorted,
		pos="1045,495",
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	nthreads -> filtered2sorted	[_draw_="c 7 -#000000 B 10 927.74 718.5 953.92 704.02 1004.59 674.45 1015 657 1044.24 607.99 1020.95 585.56 1034 530 1035.38 524.13 1037.29 \
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	nthreads -> sort_dedup_bams	[_draw_="c 7 -#000000 B 19 896.78 718.56 891.26 715.67 884.93 712.52 879 710 835.79 691.65 779 722.94 779 676 779 676 779 676 779 584 779 \
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		label=sort_dups_marked_bams,
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	nthreads -> sort_dups_marked_bams	[_draw_="c 7 -#000000 B 13 899.06 718.63 893.18 715.29 885.99 711.81 879 710 830.89 697.54 433 725.7 433 676 433 676 433 676 433 314 433 \
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		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 453.8 286.05 458.34 280.18 451.13 281.93 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 451.5 493.1 0 37 8 -nthreads ",
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		height=0.27778,
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		pos="589,405",
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		width=1.5417];
	nthreads -> sort_masked_bams	[_draw_="c 7 -#000000 B 13 898.7 718.61 892.87 715.34 885.82 711.93 879 710 821.88 693.81 614 735.37 614 676 614 676 614 676 614 449 614 \
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		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 604.75 419.43 598.42 415.56 600.96 422.53 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 632.5 560.6 0 37 8 -nthreads ",
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		label=genome_sizes,
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		label=java_opts,
		lp="497,517.5",
		pos="e,510.29,324.4 474.79,718.71 475.68,708.62 477,691.08 477,676 477,676 477,676 477,359 477,344.11 488.71,334.19 502.48,327.68"];
	picard_jar_path -> mark_duplicates	[_draw_="c 7 -#000000 B 10 558.02 718.58 544.05 709.95 526 695.09 526 676 526 676 526 676 526 359 526 349.24 530.29 339.31 534.89 331.45 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 536.9 332.85 538.63 325.63 532.78 330.19 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 557.5 515.6 0 63 15 -picard_jar_path ",
		label=picard_jar_path,
		lp="557.5,517.5",
		pos="e,539.45,324.36 558.02,718.58 544.05,709.95 526,695.09 526,676 526,676 526,676 526,359 526,349.24 530.29,339.31 534.89,331.45"];
	genome_ref_first_index_file -> "bowtie-pe"	[_draw_="c 7 -#000000 B 7 1151.64 718.62 1148.45 711.19 1145.53 700.38 1151 693 1154.96 687.66 1160.55 683.94 1166.68 681.36 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1167.37 683.72 1173.21 679.15 1165.8 679.07 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1206.5 695.6 0 111 27 -genome_ref_first_index_file ",
		label=genome_ref_first_index_file,
		lp="1206.5,697.5",
		pos="e,1174.6,678.67 1151.6,718.62 1148.4,711.19 1145.5,700.38 1151,693 1155,687.66 1160.5,683.94 1166.7,681.36"];
	extract_basename_1	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1311.5 790.5 1311.5 809.5 1430.5 809.5 1430.5 790.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1371 797.5 0 103 18 -extract_basename_1 ",
		height=0.27778,
		label=extract_basename_1,
		pos="1371,800",
		rects="1311.5,790.5,1430.5,809.5",
		width=1.6528];
	input_fastq_read1_files -> extract_basename_1	[_draw_="c 7 -#000000 B 4 1309.29 737.29 1320.97 748.97 1342.42 770.42 1356.7 784.7 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1354.94 786.41 1361.62 789.62 1358.41 782.94 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1371 775.6 0 38 10 -input_file ",
		label=input_file,
		lp="1371,777.5",
		pos="e,1362.7,790.7 1309.3,737.29 1321,748.97 1342.4,770.42 1356.7,784.7"];
	input_fastq_read1_files -> "bowtie-pe"	[_draw_="c 7 -#000000 B 7 1291.15 718.71 1279.87 709.27 1262.5 694.91 1259 693 1255.24 690.95 1251.19 689.1 1247.07 687.44 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1247.95 685.15 1240.53 685 1246.23 689.74 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1315.5 695.6 0 91 22 -input_fastq_read1_file ",
		label=input_fastq_read1_file,
		lp="1315.5,697.5",
		pos="e,1239.1,684.47 1291.2,718.71 1279.9,709.27 1262.5,694.91 1259,693 1255.2,690.95 1251.2,689.1 1247.1,687.44"];
	remove_encode_blacklist	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 638.5 440.5 638.5 459.5 779.5 459.5 779.5 440.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 709 447.5 0 125 23 -remove_encode_blacklist ",
		height=0.27778,
		label=remove_encode_blacklist,
		pos="709,450",
		rects="638.5,440.5,779.5,459.5",
		width=1.9583];
	ENCODE_blacklist_bedfile -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 10 697.58 718.73 699.35 708.67 702 691.16 702 676 702 676 702 676 702 494 702 485.1 703.48 475.29 705.08 467.29 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 707.43 468.02 706.54 460.66 702.64 466.97 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 705 583.1 0 6 1 -b ",
		label=b,
		lp="705,585",
		pos="e,706.86,459.18 697.58,718.73 699.35,708.67 702,691.16 702,676 702,676 702,676 702,494 702,485.1 703.48,475.29 705.08,467.29"];
	percent_uniq_reads	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1336 80.5 1336 99.5 1448 99.5 1448 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1392 87.5 0 96 18 -percent_uniq_reads ",
		height=0.27778,
		label=percent_uniq_reads,
		pos="1392,90",
		rects="1336,80.5,1448,99.5",
		width=1.5556];
	percent_uniq_reads -> output_percentage_uniq_reads	[_draw_="c 7 -#000000 B 4 1392 80.71 1392 75.59 1392 68.85 1392 62.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1394.45 62.78 1392 55.78 1389.55 62.78 ",
		pos="e,1392,54.265 1392,80.709 1392,75.593 1392,68.848 1392,62.666"];
	mark_duplicates -> output_picard_mark_duplicates_files	[_draw_="c 7 -#000000 B 10 594.78 314.55 662.29 313.97 776 307.56 776 271 776 271 776 271 776 89 776 78.69 770.56 68.64 764.75 60.85 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 766.75 59.43 760.42 55.56 762.96 62.53 ",
		pos="e,759.46,54.391 594.78,314.55 662.29,313.97 776,307.56 776,271 776,271 776,271 776,89 776,78.686 770.56,68.636 764.75,60.849"];
	mark_duplicates -> sort_dups_marked_bams	[_draw_="c 7 -#000000 B 4 532.37 305.5 522.44 299.32 508.83 290.84 497.59 283.83 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 499.13 281.9 491.89 280.28 496.53 286.06 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 536 290.6 0 38 10 -input_file ",
		label=input_file,
		lp="536,292.5",
		pos="e,490.6,279.48 532.37,305.5 522.44,299.32 508.83,290.84 497.59,283.83"];
	"filter-unmapped"	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1034.5 530.5 1034.5 549.5 1129.5 549.5 1129.5 530.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1082 537.5 0 79 15 -filter-unmapped ",
		height=0.27778,
		label="filter-unmapped",
		pos="1082,540",
		rects="1034.5,530.5,1129.5,549.5",
		width=1.3194];
	sort_bams -> "filter-unmapped"	[_draw_="c 7 -#000000 B 4 1004.97 575.5 1019.43 569.03 1039.53 560.02 1055.57 552.84 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1056.3 555.19 1061.69 550.1 1054.3 550.72 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1061 560.6 0 38 10 -input_file ",
		label=input_file,
		lp="1061,562.5",
		pos="e,1063.1,549.48 1005,575.5 1019.4,569.03 1039.5,560.02 1055.6,552.84"];
	index_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 887 170.5 887 189.5 963 189.5 963 170.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 925 177.5 0 60 10 -index_bams ",
		height=0.27778,
		label=index_bams,
		pos="925,180",
		rects="887,170.5,963,189.5",
		width=1.0556];
	sort_bams -> index_bams	[_draw_="c 7 -#000000 B 10 957.36 575.56 932.35 567.31 900 554.1 900 541 900 541 900 541 900 224 900 213.69 905.44 203.64 911.25 195.85 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 913.04 197.53 915.58 190.56 909.25 194.43 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 919 380.6 0 38 10 -input_file ",
		label=input_file,
		lp="919,382.5",
		pos="e,916.54,189.39 957.36,575.56 932.35,567.31 900,554.1 900,541 900,541 900,541 900,224 900,213.69 905.44,203.64 911.25,195.85"];
	sam2bam -> sort_bams	[_draw_="c 7 -#000000 B 7 930.55 620.81 930.67 615.17 931.77 607.85 936 603 937.7 601.05 941.07 599.14 945.3 597.33 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 945.97 599.7 951.67 594.95 944.25 595.11 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 955 605.6 0 38 10 -input_file ",
		label=input_file,
		lp="955,607.5",
		pos="e,953.09,594.42 930.55,620.81 930.67,615.17 931.77,607.85 936,603 937.7,601.05 941.07,599.14 945.3,597.33"];
	masked_file_basename	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 648.5 395.5 648.5 414.5 779.5 414.5 779.5 395.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 714 402.5 0 115 20 -masked_file_basename ",
		height=0.27778,
		label=masked_file_basename,
		pos="714,405",
		rects="648.5,395.5,779.5,414.5",
		width=1.8194];
	masked_file_basename -> mark_duplicates	[_draw_="c 7 -#000000 B 7 706.74 395.67 696.29 384.09 675.96 363.1 655 350 638.02 339.38 617.46 331.85 598.79 326.62 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 599.51 324.27 592.11 324.84 598.24 329.01 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 714.5 358.1 0 67 15 -output_filename ",
		label=output_filename,
		lp="714.5,360",
		pos="e,590.65,324.45 706.74,395.67 696.29,384.09 675.96,363.1 655,350 638.02,339.38 617.46,331.85 598.79,326.62"];
	"preseq-c-curve"	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1377.5 125.5 1377.5 144.5 1466.5 144.5 1466.5 125.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1422 132.5 0 73 14 -preseq-c-curve ",
		height=0.27778,
		label="preseq-c-curve",
		pos="1422,135",
		rects="1377.5,125.5,1466.5,144.5",
		width=1.2361];
	filtered2sorted -> "preseq-c-curve"	[_draw_="c 7 -#000000 B 10 1088.75 494.84 1157.23 494.95 1282 489.84 1282 451 1282 451 1282 451 1282 291.5 1282 222.93 1358.11 170.94 1398.09 \
148.36 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1398.84 150.74 1403.79 145.22 1396.47 146.45 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1316 313.1 0 68 17 -input_sorted_file ",
		label=input_sorted_file,
		lp="1316,315",
		pos="e,1405.1,144.49 1088.7,494.84 1157.2,494.95 1282,489.84 1282,451 1282,451 1282,451 1282,291.5 1282,222.93 1358.1,170.94 1398.1,148.36"];
	filtered2sorted -> execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 B 4 1055.87 485.5 1063.47 479.56 1073.8 471.48 1082.56 464.64 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1083.96 466.65 1087.96 460.41 1080.94 462.79 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1109 470.6 0 64 15 -input_bam_files ",
		label=input_bam_files,
		lp="1109,472.5",
		pos="e,1089.2,459.48 1055.9,485.5 1063.5,479.56 1073.8,471.48 1082.6,464.64"];
	index_filtered_bam	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 907 440.5 907 459.5 1017 459.5 1017 440.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 962 447.5 0 94 18 -index_filtered_bam ",
		height=0.27778,
		label=index_filtered_bam,
		pos="962,450",
		rects="907,440.5,1017,459.5",
		width=1.5278];
	filtered2sorted -> index_filtered_bam	[_draw_="c 7 -#000000 B 4 1028.6 485.5 1016.32 479.14 999.35 470.35 985.61 463.23 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 987.05 461.22 979.71 460.17 984.8 465.57 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1029 470.6 0 38 10 -input_file ",
		label=input_file,
		lp="1029,472.5",
		pos="e,978.36,459.48 1028.6,485.5 1016.3,479.14 999.35,470.35 985.61,463.23"];
	filtered2sorted -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 4 1001.07 488.38 945.89 481.32 850.35 469.09 783.62 460.55 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 783.97 458.12 776.72 459.67 783.35 462.99 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 910 470.6 0 6 1 -a ",
		label=a,
		lp="910,472.5",
		pos="e,775.22,459.47 1001.1,488.38 945.89,481.32 850.35,469.09 783.62,460.55"];
	index_masked_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 533.5 350.5 533.5 369.5 652.5 369.5 652.5 350.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 593 357.5 0 103 17 -index_masked_bams ",
		height=0.27778,
		label=index_masked_bams,
		pos="593,360",
		rects="533.5,350.5,652.5,369.5",
		width=1.6528];
	index_masked_bams -> mark_duplicates	[_draw_="c 7 -#000000 B 4 583.94 350.71 577.44 344.76 568.53 336.61 560.98 329.7 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 562.97 328.2 556.15 325.29 559.66 331.82 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 592 335.6 0 38 10 -input_file ",
		label=input_file,
		lp="592,337.5",
		pos="e,555.03,324.27 583.94,350.71 577.44,344.76 568.53,336.61 560.98,329.7"];
	"preseq-c-curve" -> output_preseq_c_curve_files	[_draw_="c 7 -#000000 B 10 1466.43 128.85 1474.01 126.27 1481.28 122.5 1487 117 1502.41 102.19 1486.86 87.02 1501 71 1505.71 65.66 1511.78 \
61.41 1518.17 58.04 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1519.11 60.31 1524.4 55.11 1517.02 55.87 ",
		pos="e,1525.8,54.471 1466.4,128.85 1474,126.27 1481.3,122.5 1487,117 1502.4,102.19 1486.9,87.021 1501,71 1505.7,65.664 1511.8,61.411 \
1518.2,58.038"];
	"preseq-c-curve" -> percent_uniq_reads	[_draw_="c 7 -#000000 B 7 1404.54 125.53 1401.25 123.19 1398.16 120.36 1396 117 1394.21 114.23 1393.12 110.95 1392.46 107.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1394.91 107.55 1391.75 100.85 1390.04 108.06 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1443 110.6 0 94 22 -preseq_c_curve_outfile ",
		label=preseq_c_curve_outfile,
		lp="1443,112.5",
		pos="e,1391.6,99.341 1404.5,125.53 1401.2,123.19 1398.2,120.36 1396,117 1394.2,114.23 1393.1,110.95 1392.5,107.67"];
	extract_basename_2	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1382.5 718.5 1382.5 737.5 1501.5 737.5 1501.5 718.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1442 725.5 0 103 18 -extract_basename_2 ",
		height=0.27778,
		label=extract_basename_2,
		pos="1442,728",
		rects="1382.5,718.5,1501.5,737.5",
		width=1.6528];
	extract_basename_1 -> extract_basename_2	[_draw_="c 7 -#000000 B 7 1381.35 790.54 1384.5 787.87 1387.95 784.87 1391 782 1404.41 769.4 1418.88 754.19 1428.97 743.3 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1430.67 745.07 1433.61 738.26 1427.07 741.75 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1417 775.6 0 36 9 -file_path ",
		label=file_path,
		lp="1417,777.5",
		pos="e,1434.6,737.15 1381.3,790.54 1384.5,787.87 1387.9,784.87 1391,782 1404.4,769.4 1418.9,754.19 1429,743.3"];
	index_dedup_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 469.5 80.5 469.5 99.5 580.5 99.5 580.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 525 87.5 0 95 16 -index_dedup_bams ",
		height=0.27778,
		label=index_dedup_bams,
		pos="525,90",
		rects="469.5,80.5,580.5,99.5",
		width=1.5417];
	sort_dedup_bams -> index_dedup_bams	[_draw_="c 7 -#000000 B 4 504.82 125.71 508 120.24 512.27 112.9 516.06 106.38 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 518.03 107.86 519.43 100.57 513.8 105.39 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 533 110.6 0 38 10 -input_file ",
		label=input_file,
		lp="533,112.5",
		pos="e,520.19,99.265 504.82,125.71 508,120.24 512.27,112.9 516.06,106.38"];
	mapped_filtered_reads_count	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 281.5 80.5 281.5 99.5 442.5 99.5 442.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 362 87.5 0 145 27 -mapped_filtered_reads_count ",
		height=0.27778,
		label=mapped_filtered_reads_count,
		pos="362,90",
		rects="281.5,80.5,442.5,99.5",
		width=2.2361];
	sort_dedup_bams -> mapped_filtered_reads_count	[_draw_="c 7 -#000000 B 4 472.74 125.5 451.09 118.76 420.68 109.28 397.2 101.97 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 398.06 99.67 390.65 99.93 396.61 104.35 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 473 110.6 0 60 14 -input_bam_file ",
		label=input_bam_file,
		lp="473,112.5",
		pos="e,389.21,99.478 472.74,125.5 451.09,118.76 420.68,109.28 397.2,101.97"];
	execute_pcr_bottleneck_coef -> output_pbc_files	[_draw_="c 7 -#000000 B 10 1100 440.76 1100 432.1 1100 418.09 1100 406 1100 406 1100 406 1100 89 1100 80.31 1100 70.63 1100 62.65 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1102.45 62.76 1100 55.76 1097.55 62.76 ",
		pos="e,1100,54.243 1100,440.76 1100,432.1 1100,418.09 1100,406 1100,406 1100,406 1100,89 1100,80.308 1100,70.627 1100,62.655"];
	index_dups_marked_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 404 215.5 404 234.5 550 234.5 550 215.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 477 222.5 0 130 22 -index_dups_marked_bams ",
		height=0.27778,
		label=index_dups_marked_bams,
		pos="477,225",
		rects="404,215.5,550,234.5",
		width=2.0278];
	index_dups_marked_bams -> output_data_sorted_dups_marked_bam_files	[_draw_="c 7 -#000000 B 10 404.32 220.29 318.13 214.89 186 203.02 186 181 186 181 186 181 186 89 186 75.36 175.28 65.29 163.49 58.34 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 164.76 56.24 157.43 55.12 162.46 60.57 ",
		pos="e,156.09,54.415 404.32,220.29 318.13,214.89 186,203.02 186,181 186,181 186,181 186,89 186,75.361 175.28,65.293 163.49,58.343"];
	remove_duplicates	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 430 170.5 430 189.5 540 189.5 540 170.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 485 177.5 0 94 17 -remove_duplicates ",
		height=0.27778,
		label=remove_duplicates,
		pos="485,180",
		rects="430,170.5,540,189.5",
		width=1.5278];
	index_dups_marked_bams -> remove_duplicates	[_draw_="c 7 -#000000 B 4 478.54 215.71 479.52 210.47 480.81 203.53 481.98 197.24 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 484.31 198.08 483.19 190.75 479.5 197.19 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 500 200.6 0 38 10 -input_file ",
		label=input_file,
		lp="500,202.5",
		pos="e,483.46,189.27 478.54,215.71 479.52,210.47 480.81,203.53 481.98,197.24"];
	bam_idxstats	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 898.5 125.5 898.5 144.5 981.5 144.5 981.5 125.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 940 132.5 0 67 12 -bam_idxstats ",
		height=0.27778,
		label=bam_idxstats,
		pos="940,135",
		rects="898.5,125.5,981.5,144.5",
		width=1.1528];
	percent_mitochondrial_reads	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 864 80.5 864 99.5 1022 99.5 1022 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 943 87.5 0 142 27 -percent_mitochondrial_reads ",
		height=0.27778,
		label=percent_mitochondrial_reads,
		pos="943,90",
		rects="864,80.5,1022,99.5",
		width=2.1944];
	bam_idxstats -> percent_mitochondrial_reads	[_draw_="c 7 -#000000 B 4 940.58 125.71 940.94 120.59 941.41 113.85 941.84 107.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 944.27 107.93 942.32 100.78 939.39 107.59 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 957.5 110.6 0 33 8 -idxstats ",
		label=idxstats,
		lp="957.5,112.5",
		pos="e,942.42,99.265 940.58,125.71 940.94,120.59 941.41,113.85 941.84,107.67"];
	index_dedup_bams -> output_data_sorted_dedup_bam_files	[_draw_="c 7 -#000000 B 4 529.82 80.71 533 75.24 537.27 67.9 541.06 61.38 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 543.03 62.86 544.43 55.57 538.8 60.39 ",
		pos="e,545.19,54.265 529.82,80.709 533,75.236 537.27,67.899 541.06,61.381"];
	remove_duplicates -> sort_dedup_bams	[_draw_="c 7 -#000000 B 4 487.89 170.71 489.72 165.47 492.14 158.53 494.34 152.24 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 496.63 153.11 496.62 145.69 492 151.5 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 512 155.6 0 38 10 -input_file ",
		label=input_file,
		lp="512,157.5",
		pos="e,497.12,144.27 487.89,170.71 489.72,165.47 492.14,158.53 494.34,152.24"];
	mapped_reads_count	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1199.5 80.5 1199.5 99.5 1320.5 99.5 1320.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1260 87.5 0 105 18 -mapped_reads_count ",
		height=0.27778,
		label=mapped_reads_count,
		pos="1260,90",
		rects="1199.5,80.5,1320.5,99.5",
		width=1.6806];
	mapped_reads_count -> output_read_count_mapped	[_draw_="c 7 -#000000 B 4 1253.83 80.71 1249.67 75.12 1244.06 67.58 1239.13 60.96 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1241.2 59.63 1235.05 55.48 1237.27 62.56 ",
		pos="e,1234.2,54.265 1253.8,80.709 1249.7,75.117 1244.1,67.579 1239.1,60.957"];
	"filter-unmapped" -> filtered2sorted	[_draw_="c 7 -#000000 B 4 1074.87 530.71 1069.95 525 1063.29 517.26 1057.51 510.54 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1059.52 509.12 1053.1 505.41 1055.81 512.32 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1085 515.6 0 38 10 -input_file ",
		label=input_file,
		lp="1085,517.5",
		pos="e,1052.1,504.27 1074.9,530.71 1070,525 1063.3,517.26 1057.5,510.54"];
	index_bams -> bam_idxstats	[_draw_="c 7 -#000000 B 4 927.89 170.71 929.72 165.47 932.14 158.53 934.34 152.24 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 936.63 153.11 936.62 145.69 932 151.5 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 942.5 155.6 0 19 3 -bam ",
		label=bam,
		lp="942.5,157.5",
		pos="e,937.12,144.27 927.89,170.71 929.72,165.47 932.14,158.53 934.34,152.24"];
	"bowtie-pe" -> output_bowtie_log	[_draw_="c 7 -#000000 B 19 1239.36 673.96 1265.91 672.94 1304.01 669.17 1335 657 1347.17 652.22 1351.29 650.55 1359 640 1374.79 618.4 1505 \
207.76 1505 181 1505 181 1505 181 1505 89 1505 59.54 1606.41 70.11 1635 63 1642.36 61.17 1650.19 58.99 1657.61 56.81 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1658.01 59.25 1664.01 54.9 1656.6 54.56 ",
		pos="e,1665.5,54.47 1239.4,673.96 1265.9,672.94 1304,669.17 1335,657 1347.2,652.22 1351.3,650.55 1359,640 1374.8,618.4 1505,207.76 1505,\
181 1505,181 1505,181 1505,89 1505,59.539 1606.4,70.107 1635,63 1642.4,61.171 1650.2,58.992 1657.6,56.815"];
	"bowtie-pe" -> sam2bam	[_draw_="c 7 -#000000 B 7 1174.62 674.21 1106.32 674.34 952.33 672.84 935 657 932.31 654.54 930.9 651.08 930.25 647.49 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 932.71 647.65 929.9 640.78 927.82 647.9 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 954 650.6 0 38 10 -input_file ",
		label=input_file,
		lp="954,652.5",
		pos="e,929.82,639.27 1174.6,674.21 1106.3,674.34 952.33,672.84 935,657 932.31,654.54 930.9,651.08 930.25,647.49"];
	"bowtie-pe" -> mapped_reads_count	[_draw_="c 7 -#000000 B 10 1239.18 671.29 1283.25 666.67 1357 655.31 1357 631 1357 631 1357 631 1357 314 1357 229.26 1297.37 140.31 1271.61 \
105.85 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1273.77 104.64 1267.58 100.55 1269.87 107.6 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1379.5 380.6 0 45 10 -bowtie_log ",
		label=bowtie_log,
		lp="1379.5,382.5",
		pos="e,1266.7,99.343 1239.2,671.29 1283.3,666.67 1357,655.31 1357,631 1357,631 1357,631 1357,314 1357,229.26 1297.4,140.31 1271.6,105.85"];
	sort_dups_marked_bams -> index_dups_marked_bams	[_draw_="c 7 -#000000 B 4 477 260.71 477 255.59 477 248.85 477 242.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 479.45 242.78 477 235.78 474.55 242.78 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 496 245.6 0 38 10 -input_file ",
		label=input_file,
		lp="496,247.5",
		pos="e,477,234.27 477,260.71 477,255.59 477,248.85 477,242.67"];
	remove_encode_blacklist -> masked_file_basename	[_draw_="c 7 -#000000 B 4 709.96 440.71 710.56 435.59 711.34 428.85 712.06 422.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 714.49 423 712.86 415.77 709.62 422.44 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 730 425.6 0 38 10 -input_file ",
		label=input_file,
		lp="730,427.5",
		pos="e,713.04,414.27 709.96,440.71 710.56,435.59 711.34,428.85 712.06,422.67"];
	remove_encode_blacklist -> sort_masked_bams	[_draw_="c 7 -#000000 B 4 685.29 440.5 666.72 433.85 640.72 424.53 620.41 417.26 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 621.5 415.04 614.08 414.99 619.85 419.66 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 678 425.6 0 38 10 -input_file ",
		label=input_file,
		lp="678,427.5",
		pos="e,612.66,414.48 685.29,440.5 666.72,433.85 640.72,424.53 620.41,417.26"];
	extract_basename_2 -> "preseq-c-curve"	[_draw_="c 7 -#000000 B 10 1459.9 718.6 1474.94 710.16 1494 695.6 1494 676 1494 676 1494 676 1494 179 1494 163.87 1482.14 153.94 1468.05 \
147.48 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1469.34 145.36 1461.93 144.98 1467.48 149.9 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1539.5 425.6 0 91 20 -output_file_basename ",
		label=output_file_basename,
		lp="1539.5,427.5",
		pos="e,1460.5,144.41 1459.9,718.6 1474.9,710.16 1494,695.6 1494,676 1494,676 1494,676 1494,179 1494,163.87 1482.1,153.94 1468.1,147.48"];
	extract_basename_2 -> execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 B 16 1445.24 718.68 1452.13 699.52 1466.01 651.56 1446 620 1432.05 598 1411.98 612.84 1393 595 1385.61 588.05 1389.47 \
581.87 1382 575 1296.05 495.94 1249.48 513.69 1142 468 1137.75 466.19 1133.23 464.32 1128.8 462.5 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1129.8 460.27 1122.4 459.9 1127.96 464.81 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1441.5 583.1 0 97 22 -input_output_filenames ",
		label=input_output_filenames,
		lp="1441.5,585",
		pos="e,1121,459.33 1445.2,718.68 1452.1,699.52 1466,651.56 1446,620 1432.1,598 1412,612.84 1393,595 1385.6,588.05 1389.5,581.87 1382,\
575 1296,495.94 1249.5,513.69 1142,468 1137.7,466.19 1133.2,464.32 1128.8,462.5"];
	extract_basename_2 -> "filter-unmapped"	[_draw_="c 7 -#000000 B 13 1441.62 718.72 1441 711.54 1439.35 701.06 1435 693 1419.2 663.67 1402.18 666.5 1382 640 1370.54 624.96 1376.2 \
614.24 1361 603 1295.17 554.33 1198.31 542.64 1137.75 540.48 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1138.04 538.04 1130.97 540.28 1137.9 542.94 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1415.5 628.1 0 67 15 -output_filename ",
		label=output_filename,
		lp="1415.5,630",
		pos="e,1129.5,540.24 1441.6,718.72 1441,711.54 1439.3,701.06 1435,693 1419.2,663.67 1402.2,666.5 1382,640 1370.5,624.96 1376.2,614.24 \
1361,603 1295.2,554.33 1198.3,542.64 1137.8,540.48"];
	extract_basename_2 -> "bowtie-pe"	[_draw_="c 7 -#000000 B 10 1411.78 718.61 1398.84 714.45 1383.79 708.84 1371 702 1365.12 698.86 1365.2 695.46 1359 693 1339.44 685.24 1285.82 \
680.58 1247.83 678.14 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1248.15 675.71 1241.01 677.72 1247.84 680.6 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1404.5 695.6 0 67 15 -output_filename ",
		label=output_filename,
		lp="1404.5,697.5",
		pos="e,1239.5,677.63 1411.8,718.61 1398.8,714.45 1383.8,708.84 1371,702 1365.1,698.86 1365.2,695.46 1359,693 1339.4,685.24 1285.8,680.58 \
1247.8,678.14"];
	extract_basename_2 -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 19 1414.57 718.54 1402.55 715.22 1388.2 711.79 1375 710 1332.82 704.28 1031.84 717 992 702 968.09 693 969.8 678.33 \
948 665 940.18 660.22 937.39 660.68 929 657 868.16 630.33 842.27 639.56 793 595 752.15 558.05 725.61 496.46 714.68 467.28 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 717.01 466.49 712.31 460.75 712.4 468.17 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 838.5 583.1 0 91 20 -output_basename_file ",
		label=output_basename_file,
		lp="838.5,585",
		pos="e,711.8,459.33 1414.6,718.54 1402.5,715.22 1388.2,711.79 1375,710 1332.8,704.28 1031.8,717 992,702 968.09,693 969.8,678.33 948,665 \
940.18,660.22 937.39,660.68 929,657 868.16,630.33 842.27,639.56 793,595 752.15,558.05 725.61,496.46 714.68,467.28"];
	percent_mitochondrial_reads -> output_percent_mitochondrial_reads	[_draw_="c 7 -#000000 B 4 944.35 80.71 945.18 75.59 946.28 68.85 947.29 62.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 949.7 63.06 948.41 55.76 944.87 62.27 ",
		pos="e,948.65,54.265 944.35,80.709 945.18,75.593 946.28,68.848 947.29,62.666"];
	mapped_filtered_reads_count -> output_read_count_mapped_filtered	[_draw_="c 7 -#000000 B 4 359.69 80.71 358.23 75.47 356.29 68.53 354.53 62.24 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 356.95 61.81 352.71 55.72 352.24 63.12 ",
		pos="e,352.31,54.265 359.69,80.709 358.23,75.474 356.29,68.534 354.53,62.235"];
	sort_masked_bams -> index_masked_bams	[_draw_="c 7 -#000000 B 4 589.77 395.71 590.25 390.59 590.87 383.85 591.45 377.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 593.88 377.97 592.09 370.77 589 377.52 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 610 380.6 0 38 10 -input_file ",
		label=input_file,
		lp="610,382.5",
		pos="e,592.23,369.27 589.77,395.71 590.25,390.59 590.87,383.85 591.45,377.67"];
}