digraph workflow {
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		output_picard_mark_duplicates_files	[_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 16.5 35.5 16.5 54.5 211.5 54.5 211.5 35.5 ",
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		output_data_sorted_dedup_bam_files	[_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 412.5 35.5 412.5 54.5 611.5 54.5 611.5 35.5 ",
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		output_preseq_c_curve_files	[_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1154.5 35.5 1154.5 54.5 1309.5 54.5 1309.5 35.5 ",
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	mark_duplicates	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 537 305.5 537 324.5 635 324.5 635 305.5 ",
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	picard_jar_path -> mark_duplicates	[_draw_="c 7 -#000000 B 10 503.45 718.51 499.6 708.52 494 691.35 494 676 494 676 494 676 494 359 494 340.1 510.13 329.49 528.88 323.54 ",
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	nthreads -> filtered2sorted	[_draw_="c 7 -#000000 B 13 846.59 718.53 851.2 714.01 856.48 708.14 860 702 866.02 691.51 868 688.09 868 676 868 676 868 676 868 539 868 \
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	sort_dedup_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 647.5 125.5 647.5 144.5 750.5 144.5 750.5 125.5 ",
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		width=1.4306];
	nthreads -> sort_dedup_bams	[_draw_="c 7 -#000000 B 13 836.47 718.7 835.88 708.61 835 691.06 835 676 835 676 835 676 835 471.5 835 378.91 792.7 363.64 753 280 731.71 \
235.14 712.85 179.46 704.13 152.36 ",
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		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 849.5 425.6 0 37 8 -nthreads ",
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		rects="573.5,395.5,684.5,414.5",
		width=1.5417];
	nthreads -> sort_masked_bams	[_draw_="c 7 -#000000 B 19 821.78 718.55 816.27 715.65 809.94 712.51 804 710 760.38 691.55 703 723.36 703 676 703 676 703 676 703 606.5 703 \
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	sam2bam	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 975.5 620.5 975.5 639.5 1040.5 639.5 1040.5 620.5 ",
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	nthreads -> sam2bam	[_draw_="c 7 -#000000 B 10 851.13 718.64 857.08 715.46 864.19 712.11 871 710 895.86 702.3 905.4 712.96 929 702 957.1 688.96 982.34 662.46 \
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		label=sort_bams,
		pos="1008,585",
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		width=0.94444];
	nthreads -> sort_bams	[_draw_="c 7 -#000000 B 7 849.17 718.69 855.99 713.94 864.59 707.79 872 702 916.93 666.9 967.42 622.43 992.34 600.12 ",
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	nthreads -> sort_dups_marked_bams	[_draw_="c 7 -#000000 B 13 837.79 718.63 840.75 687.65 851.49 576.48 862 485 866.04 449.84 872 441.39 872 406 872 406 872 406 872 314 872 \
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		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 852.09 281.57 844.81 280.18 849.64 285.81 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 880.5 493.1 0 37 8 -nthreads ",
		label=nthreads,
		lp="880.5,495",
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	"bowtie-se"	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1137.5 665.5 1137.5 684.5 1202.5 684.5 1202.5 665.5 ",
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		height=0.27778,
		label="bowtie-se",
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		width=0.90278];
	nthreads -> "bowtie-se"	[_draw_="c 7 -#000000 B 13 850.74 718.61 856.74 715.35 864 711.94 871 710 915.25 697.73 928.56 708.6 974 702 992.89 699.25 997.15 696.05 \
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		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1034.5 695.6 0 37 8 -nthreads ",
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		height=0.27778,
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		pos="1250,800",
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	input_fastq_files -> extract_basename_1	[_draw_="c 7 -#000000 B 4 1194.46 737.29 1204.97 748.97 1224.28 770.42 1237.13 784.7 ",
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		label=input_file,
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		pos="e,1242.5,790.7 1194.5,737.29 1205,748.97 1224.3,770.42 1237.1,784.7"];
	input_fastq_files -> "bowtie-se"	[_draw_="c 7 -#000000 B 7 1181.7 718.51 1178.99 713.81 1175.89 707.77 1174 702 1173.03 699.05 1172.3 695.82 1171.74 692.69 ",
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		label=input_fastq_file,
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		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 576.9 332.85 578.63 325.63 572.78 330.19 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 586 515.6 0 40 9 -java_opts ",
		label=java_opts,
		lp="586,517.5",
		pos="e,579.45,324.36 594.03,718.53 582.02,709.55 566,694.18 566,676 566,676 566,676 566,359 566,349.24 570.29,339.31 574.89,331.45"];
	genome_ref_first_index_file -> "bowtie-se"	[_draw_="c 7 -#000000 B 7 1055.54 718.65 1053.86 711.02 1052.9 699.9 1059 693 1068.19 682.61 1101.45 678.52 1129.19 676.93 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1129.21 679.39 1136.08 676.59 1128.96 674.49 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1114.5 695.6 0 111 27 -genome_ref_first_index_file ",
		label=genome_ref_first_index_file,
		lp="1114.5,697.5",
		pos="e,1137.6,676.52 1055.5,718.65 1053.9,711.02 1052.9,699.9 1059,693 1068.2,682.61 1101.5,678.52 1129.2,676.93"];
	execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 C 7 -#f3cea1 P 4 1034 440.5 1034 459.5 1192 459.5 1192 440.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1113 447.5 0 142 27 -execute_pcr_bottleneck_coef ",
		fillcolor="#F3CEA1",
		height=0.27778,
		label=execute_pcr_bottleneck_coef,
		pos="1113,450",
		rects="1034,440.5,1192,459.5",
		width=2.1944];
	genome_sizes_file -> execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 B 13 937.83 718.56 950.52 711.08 970.03 700.25 988 693 1000 688.16 1004.17 690.25 1016 685 1037.53 675.45 1047.11 676.02 \
1061 657 1104.52 597.41 1111.78 505.16 1112.87 467.68 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1115.32 467.95 1113 460.9 1110.42 467.85 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1126.5 583.1 0 59 12 -genome_sizes ",
		label=genome_sizes,
		lp="1126.5,585",
		pos="e,1113,459.39 937.83,718.56 950.52,711.08 970.03,700.25 988,693 1000,688.16 1004.2,690.25 1016,685 1037.5,675.45 1047.1,676.02 1061,\
657 1104.5,597.41 1111.8,505.16 1112.9,467.68"];
	remove_encode_blacklist	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 686.5 440.5 686.5 459.5 827.5 459.5 827.5 440.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 757 447.5 0 125 23 -remove_encode_blacklist ",
		height=0.27778,
		label=remove_encode_blacklist,
		pos="757,450",
		rects="686.5,440.5,827.5,459.5",
		width=1.9583];
	ENCODE_blacklist_bedfile -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 13 717.25 718.58 710.88 714.31 703.81 708.63 699 702 691.82 692.1 690 688.23 690 676 690 676 690 676 690 494 690 \
479.19 701.74 469.24 715.39 462.69 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 716.25 464.98 721.72 459.98 714.32 460.48 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 693 583.1 0 6 1 -b ",
		label=b,
		lp="693,585",
		pos="e,723.11,459.38 717.25,718.58 710.88,714.31 703.81,708.63 699,702 691.82,692.1 690,688.23 690,676 690,676 690,676 690,494 690,479.19 \
701.74,469.24 715.39,462.69"];
	masked_file_basename	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 688.5 395.5 688.5 414.5 819.5 414.5 819.5 395.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 754 402.5 0 115 20 -masked_file_basename ",
		height=0.27778,
		label=masked_file_basename,
		pos="754,405",
		rects="688.5,395.5,819.5,414.5",
		width=1.8194];
	remove_encode_blacklist -> masked_file_basename	[_draw_="c 7 -#000000 B 4 756.42 440.71 756.06 435.59 755.59 428.85 755.16 422.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 757.61 422.59 754.68 415.78 752.73 422.93 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 774 425.6 0 38 10 -input_file ",
		label=input_file,
		lp="774,427.5",
		pos="e,754.58,414.27 756.42,440.71 756.06,435.59 755.59,428.85 755.16,422.67"];
	remove_encode_blacklist -> sort_masked_bams	[_draw_="c 7 -#000000 B 7 733.74 440.61 719.2 435.41 700.05 428.68 683 423 676.97 420.99 670.54 418.91 664.29 416.93 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 665.38 414.7 657.97 414.93 663.91 419.37 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 726 425.6 0 38 10 -input_file ",
		label=input_file,
		lp="726,427.5",
		pos="e,656.53,414.47 733.74,440.61 719.2,435.41 700.05,428.68 683,423 676.97,420.99 670.54,418.91 664.29,416.93"];
	bam_idxstats	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 882.5 125.5 882.5 144.5 965.5 144.5 965.5 125.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 924 132.5 0 67 12 -bam_idxstats ",
		height=0.27778,
		label=bam_idxstats,
		pos="924,135",
		rects="882.5,125.5,965.5,144.5",
		width=1.1528];
	percent_mitochondrial_reads	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 873 80.5 873 99.5 1031 99.5 1031 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 952 87.5 0 142 27 -percent_mitochondrial_reads ",
		height=0.27778,
		label=percent_mitochondrial_reads,
		pos="952,90",
		rects="873,80.5,1031,99.5",
		width=2.1944];
	bam_idxstats -> percent_mitochondrial_reads	[_draw_="c 7 -#000000 B 4 929.4 125.71 932.96 120.24 937.74 112.9 941.98 106.38 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 944.03 107.74 945.79 100.53 939.92 105.06 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 956.5 110.6 0 33 8 -idxstats ",
		label=idxstats,
		lp="956.5,112.5",
		pos="e,946.62,99.265 929.4,125.71 932.96,120.24 937.74,112.9 941.98,106.38"];
	extract_basename_2	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1255.5 718.5 1255.5 737.5 1374.5 737.5 1374.5 718.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1315 725.5 0 103 18 -extract_basename_2 ",
		height=0.27778,
		label=extract_basename_2,
		pos="1315,728",
		rects="1255.5,718.5,1374.5,737.5",
		width=1.6528];
	extract_basename_2 -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 22 1285.62 718.5 1273.19 715.27 1258.5 711.9 1245 710 1223.86 707.02 1072.55 710.58 1053 702 1031.7 692.65 1037.07 \
674.84 1016 665 997.81 656.5 941.96 669.19 926 657 905.66 641.46 924.5 620.69 906 603 897.57 594.94 890.73 601.44 881 595 827.72 \
559.72 784.08 495.39 765.99 466.17 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 768.28 465.22 762.55 460.52 764.1 467.77 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 926.5 583.1 0 91 20 -output_basename_file ",
		label=output_basename_file,
		lp="926.5,585",
		pos="e,761.77,459.22 1285.6,718.5 1273.2,715.27 1258.5,711.9 1245,710 1223.9,707.02 1072.6,710.58 1053,702 1031.7,692.65 1037.1,674.84 \
1016,665 997.81,656.5 941.96,669.19 926,657 905.66,641.46 924.5,620.69 906,603 897.57,594.94 890.73,601.44 881,595 827.72,559.72 \
784.08,495.39 765.99,466.17"];
	extract_basename_2 -> execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 B 19 1323.28 718.82 1337.19 704.42 1364.74 672.93 1375 640 1377.64 631.51 1379.61 627.6 1375 620 1362.52 599.44 1340.44 \
614.95 1327 595 1319.14 583.34 1324 577.56 1324 563.5 1324 563.5 1324 563.5 1324 494 1324 467.27 1258.14 456.98 1200.01 453.11 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1200.52 450.69 1193.38 452.7 1200.21 455.58 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1375.5 583.1 0 97 22 -input_output_filenames ",
		label=input_output_filenames,
		lp="1375.5,585",
		pos="e,1191.9,452.61 1323.3,718.82 1337.2,704.42 1364.7,672.93 1375,640 1377.6,631.51 1379.6,627.6 1375,620 1362.5,599.44 1340.4,614.95 \
1327,595 1319.1,583.34 1324,577.56 1324,563.5 1324,563.5 1324,563.5 1324,494 1324,467.27 1258.1,456.98 1200,453.11"];
	"preseq-c-curve"	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1196.5 125.5 1196.5 144.5 1285.5 144.5 1285.5 125.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1241 132.5 0 73 14 -preseq-c-curve ",
		height=0.27778,
		label="preseq-c-curve",
		pos="1241,135",
		rects="1196.5,125.5,1285.5,144.5",
		width=1.2361];
	extract_basename_2 -> "preseq-c-curve"	[_draw_="c 7 -#000000 B 16 1374.48 721.52 1401.7 715.39 1428 702.58 1428 676 1428 676 1428 676 1428 606.5 1428 510.39 1347 502.11 1347 406 \
1347 406 1347 406 1347 179 1347 153.44 1320.21 142.72 1293.57 138.36 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1294.11 135.97 1286.84 137.42 1293.43 140.82 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1394.5 425.6 0 91 20 -output_file_basename ",
		label=output_file_basename,
		lp="1394.5,427.5",
		pos="e,1285.3,137.21 1374.5,721.52 1401.7,715.39 1428,702.58 1428,676 1428,676 1428,676 1428,606.5 1428,510.39 1347,502.11 1347,406 1347,\
406 1347,406 1347,179 1347,153.44 1320.2,142.72 1293.6,138.36"];
	"filter-unmapped"	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 960.5 530.5 960.5 549.5 1055.5 549.5 1055.5 530.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1008 537.5 0 79 15 -filter-unmapped ",
		height=0.27778,
		label="filter-unmapped",
		pos="1008,540",
		rects="960.5,530.5,1055.5,549.5",
		width=1.3194];
	extract_basename_2 -> "filter-unmapped"	[_draw_="c 7 -#000000 B 7 1316.08 718.55 1318.1 698.7 1320.24 648.64 1295 620 1264.65 585.56 1138.21 560.88 1063.66 548.99 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1064.07 546.58 1056.78 547.91 1063.31 551.42 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1340.5 628.1 0 67 15 -output_filename ",
		label=output_filename,
		lp="1340.5,630",
		pos="e,1055.3,547.68 1316.1,718.55 1318.1,698.7 1320.2,648.64 1295,620 1264.6,585.56 1138.2,560.88 1063.7,548.99"];
	extract_basename_2 -> "bowtie-se"	[_draw_="c 7 -#000000 B 10 1285.98 718.61 1273.33 714.42 1258.55 708.79 1246 702 1240.14 698.83 1240 695.91 1234 693 1226.71 689.46 1218.58 \
686.58 1210.62 684.27 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1211.3 681.92 1203.9 682.45 1210.02 686.65 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1279.5 695.6 0 67 15 -output_filename ",
		label=output_filename,
		lp="1279.5,697.5",
		pos="e,1202.4,682.06 1286,718.61 1273.3,714.42 1258.6,708.79 1246,702 1240.1,698.83 1240,695.91 1234,693 1226.7,689.46 1218.6,686.58 \
1210.6,684.27"];
	percent_uniq_reads	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1239 80.5 1239 99.5 1351 99.5 1351 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1295 87.5 0 96 18 -percent_uniq_reads ",
		height=0.27778,
		label=percent_uniq_reads,
		pos="1295,90",
		rects="1239,80.5,1351,99.5",
		width=1.5556];
	percent_uniq_reads -> output_percentage_uniq_reads	[_draw_="c 7 -#000000 B 4 1315.15 80.5 1330.66 73.97 1352.26 64.86 1369.38 57.64 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1370 60.04 1375.5 55.07 1368.09 55.53 ",
		pos="e,1376.9,54.478 1315.2,80.505 1330.7,73.967 1352.3,64.861 1369.4,57.644"];
	index_filtered_bam	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 910 440.5 910 459.5 1020 459.5 1020 440.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 965 447.5 0 94 18 -index_filtered_bam ",
		height=0.27778,
		label=index_filtered_bam,
		pos="965,450",
		rects="910,440.5,1020,459.5",
		width=1.5278];
	percent_mitochondrial_reads -> output_percent_mitochondrial_reads	[_draw_="c 7 -#000000 B 4 952 80.71 952 75.59 952 68.85 952 62.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 954.45 62.78 952 55.78 949.55 62.78 ",
		pos="e,952,54.265 952,80.709 952,75.593 952,68.848 952,62.666"];
	filtered2sorted -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 4 932.73 485.5 897.04 478.5 846.3 468.53 808.52 461.12 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 809 458.71 801.66 459.77 808.06 463.52 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 889 470.6 0 6 1 -a ",
		label=a,
		lp="889,472.5",
		pos="e,800.18,459.48 932.73,485.5 897.04,478.5 846.3,468.53 808.52,461.12"];
	filtered2sorted -> index_filtered_bam	[_draw_="c 7 -#000000 B 4 973.88 485.71 972.54 480.47 970.76 473.53 969.15 467.24 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 971.6 466.91 967.49 460.73 966.85 468.12 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 990 470.6 0 38 10 -input_file ",
		label=input_file,
		lp="990,472.5",
		pos="e,967.11,459.27 973.88,485.71 972.54,480.47 970.76,473.53 969.15,467.24"];
	filtered2sorted -> execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 B 10 1008.36 485.51 1015.35 483.16 1022.56 480.33 1029 477 1034.92 473.94 1034.96 470.83 1041 468 1046 465.66 1051.36 \
463.63 1056.8 461.86 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1057.36 464.25 1063.36 459.9 1055.96 459.56 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1073 470.6 0 64 15 -input_bam_files ",
		label=input_bam_files,
		lp="1073,472.5",
		pos="e,1064.8,459.46 1008.4,485.51 1015.3,483.16 1022.6,480.33 1029,477 1034.9,473.94 1035,470.83 1041,468 1046,465.66 1051.4,463.63 \
1056.8,461.86"];
	filtered2sorted -> "preseq-c-curve"	[_draw_="c 7 -#000000 B 16 997.35 485.68 1001.85 483.31 1006.33 480.42 1010 477 1026.69 461.41 1027 451.34 1027 428.5 1027 428.5 1027 428.5 \
1027 336.5 1027 322.44 1023.32 317.37 1030 305 1072.48 226.34 1168.56 171.17 1214.96 148.09 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1215.92 150.34 1221.13 145.07 1213.77 145.94 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1064 313.1 0 68 17 -input_sorted_file ",
		label=input_sorted_file,
		lp="1064,315",
		pos="e,1222.5,144.4 997.35,485.68 1001.8,483.31 1006.3,480.42 1010,477 1026.7,461.41 1027,451.34 1027,428.5 1027,428.5 1027,428.5 1027,\
336.5 1027,322.44 1023.3,317.37 1030,305 1072.5,226.34 1168.6,171.17 1215,148.09"];
	execute_pcr_bottleneck_coef -> output_pbc_files	[_draw_="c 7 -#000000 B 10 1109.52 440.6 1106.3 432.04 1102 418.33 1102 406 1102 406 1102 406 1102 89 1102 80.31 1102 70.63 1102 62.65 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1104.45 62.76 1102 55.76 1099.55 62.76 ",
		pos="e,1102,54.243 1109.5,440.6 1106.3,432.04 1102,418.33 1102,406 1102,406 1102,406 1102,89 1102,80.308 1102,70.627 1102,62.655"];
	mark_duplicates -> output_picard_mark_duplicates_files	[_draw_="c 7 -#000000 B 10 537.28 312.25 449.09 308.42 272 297.45 272 271 272 271 272 271 272 89 272 78.16 215.93 64.98 170.59 56.09 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 171.09 53.69 163.75 54.77 170.16 58.5 ",
		pos="e,162.26,54.478 537.28,312.25 449.09,308.42 272,297.45 272,271 272,271 272,271 272,89 272,78.161 215.93,64.976 170.59,56.086"];
	mark_duplicates -> sort_dups_marked_bams	[_draw_="c 7 -#000000 B 4 632.82 305.5 671.69 298.45 727.05 288.41 768.02 280.98 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 768.33 283.41 774.78 279.75 767.46 278.59 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 744 290.6 0 38 10 -input_file ",
		label=input_file,
		lp="744,292.5",
		pos="e,776.27,279.48 632.82,305.5 671.69,298.45 727.05,288.41 768.02,280.98"];
	"preseq-c-curve" -> output_preseq_c_curve_files	[_draw_="c 7 -#000000 B 4 1240.14 125.56 1238.66 111.14 1235.63 81.48 1233.71 62.73 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1236.15 62.5 1233 55.79 1231.28 63 ",
		pos="e,1232.8,54.284 1240.1,125.56 1238.7,111.14 1235.6,81.476 1233.7,62.727"];
	"preseq-c-curve" -> percent_uniq_reads	[_draw_="c 7 -#000000 B 7 1245.47 125.91 1248.87 120.32 1253.99 113.02 1260 108 1262.02 106.31 1264.24 104.74 1266.55 103.3 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1267.4 105.63 1272.31 100.07 1265.01 101.35 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1307 110.6 0 94 22 -preseq_c_curve_outfile ",
		label=preseq_c_curve_outfile,
		lp="1307,112.5",
		pos="e,1273.6,99.328 1245.5,125.91 1248.9,120.32 1254,113.02 1260,108 1262,106.31 1264.2,104.74 1266.5,103.3"];
	extract_basename_1 -> extract_basename_2	[_draw_="c 7 -#000000 B 7 1261.61 790.83 1265.09 788.17 1268.82 785.1 1272 782 1284.1 770.18 1296.07 755.07 1304.3 744.01 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1306.09 745.72 1308.24 738.62 1302.13 742.82 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1297 775.6 0 36 9 -file_path ",
		label=file_path,
		lp="1297,777.5",
		pos="e,1309.1,737.4 1261.6,790.83 1265.1,788.17 1268.8,785.1 1272,782 1284.1,770.18 1296.1,755.07 1304.3,744.01"];
	mapped_reads_count	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1498.5 80.5 1498.5 99.5 1619.5 99.5 1619.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1559 87.5 0 105 18 -mapped_reads_count ",
		height=0.27778,
		label=mapped_reads_count,
		pos="1559,90",
		rects="1498.5,80.5,1619.5,99.5",
		width=1.6806];
	mapped_reads_count -> output_read_count_mapped	[_draw_="c 7 -#000000 B 4 1581.33 80.5 1598.66 73.91 1622.87 64.7 1641.91 57.45 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1642.64 59.8 1648.31 55.02 1640.89 55.22 ",
		pos="e,1649.7,54.478 1581.3,80.505 1598.7,73.908 1622.9,64.696 1641.9,57.45"];
	mapped_filtered_reads_count	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 385.5 80.5 385.5 99.5 546.5 99.5 546.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 466 87.5 0 145 27 -mapped_filtered_reads_count ",
		height=0.27778,
		label=mapped_filtered_reads_count,
		pos="466,90",
		rects="385.5,80.5,546.5,99.5",
		width=2.2361];
	sort_dedup_bams -> mapped_filtered_reads_count	[_draw_="c 7 -#000000 B 4 652.97 125.5 614.83 118.47 560.56 108.45 520.3 101.02 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 520.75 98.61 513.43 99.75 519.87 103.43 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 633 110.6 0 60 14 -input_bam_file ",
		label=input_bam_file,
		lp="633,112.5",
		pos="e,511.94,99.478 652.97,125.5 614.83,118.47 560.56,108.45 520.3,101.02"];
	index_dedup_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 603.5 80.5 603.5 99.5 714.5 99.5 714.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 659 87.5 0 95 16 -index_dedup_bams ",
		height=0.27778,
		label=index_dedup_bams,
		pos="659,90",
		rects="603.5,80.5,714.5,99.5",
		width=1.5417];
	sort_dedup_bams -> index_dedup_bams	[_draw_="c 7 -#000000 B 4 691.29 125.71 685.86 119.88 678.47 111.93 672.13 105.12 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 674.28 103.83 667.72 100.37 670.69 107.17 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 701 110.6 0 38 10 -input_file ",
		label=input_file,
		lp="701,112.5",
		pos="e,666.69,99.265 691.29,125.71 685.86,119.88 678.47,111.93 672.13,105.12"];
	masked_file_basename -> mark_duplicates	[_draw_="c 7 -#000000 B 7 744.91 395.65 728.54 380.6 695.71 350.44 695 350 678.02 339.38 657.46 331.85 638.79 326.62 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 639.51 324.27 632.11 324.84 638.24 329.01 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 749.5 358.1 0 67 15 -output_filename ",
		label=output_filename,
		lp="749.5,360",
		pos="e,630.65,324.45 744.91,395.65 728.54,380.6 695.71,350.44 695,350 678.02,339.38 657.46,331.85 638.79,326.62"];
	mapped_filtered_reads_count -> output_read_count_mapped_filtered	[_draw_="c 7 -#000000 B 4 435.57 80.5 411.11 73.67 376.59 64.03 350.25 56.68 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 351.22 54.41 343.82 54.88 349.9 59.13 ",
		pos="e,342.36,54.478 435.57,80.505 411.11,73.673 376.59,64.035 350.25,56.681"];
	index_masked_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 573.5 350.5 573.5 369.5 692.5 369.5 692.5 350.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 633 357.5 0 103 17 -index_masked_bams ",
		height=0.27778,
		label=index_masked_bams,
		pos="633,360",
		rects="573.5,350.5,692.5,369.5",
		width=1.6528];
	sort_masked_bams -> index_masked_bams	[_draw_="c 7 -#000000 B 4 629.77 395.71 630.25 390.59 630.87 383.85 631.45 377.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 633.88 377.97 632.09 370.77 629 377.52 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 650 380.6 0 38 10 -input_file ",
		label=input_file,
		lp="650,382.5",
		pos="e,632.23,369.27 629.77,395.71 630.25,390.59 630.87,383.85 631.45,377.67"];
	sam2bam -> sort_bams	[_draw_="c 7 -#000000 B 4 1008 620.71 1008 615.59 1008 608.85 1008 602.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1010.45 602.78 1008 595.78 1005.55 602.78 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1027 605.6 0 38 10 -input_file ",
		label=input_file,
		lp="1027,607.5",
		pos="e,1008,594.27 1008,620.71 1008,615.59 1008,608.85 1008,602.67"];
	"filter-unmapped" -> filtered2sorted	[_draw_="c 7 -#000000 B 4 1001.83 530.71 997.67 525.12 992.06 517.58 987.13 510.96 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 989.2 509.63 983.05 505.48 985.27 512.56 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1013 515.6 0 38 10 -input_file ",
		label=input_file,
		lp="1013,517.5",
		pos="e,982.15,504.27 1001.8,530.71 997.67,525.12 992.06,517.58 987.13,510.96"];
	index_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 875 170.5 875 189.5 951 189.5 951 170.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 913 177.5 0 60 10 -index_bams ",
		height=0.27778,
		label=index_bams,
		pos="913,180",
		rects="875,170.5,951,189.5",
		width=1.0556];
	index_bams -> bam_idxstats	[_draw_="c 7 -#000000 B 4 915.12 170.71 916.46 165.47 918.24 158.53 919.85 152.24 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 922.15 153.12 921.51 145.73 917.4 151.91 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 928.5 155.6 0 19 3 -bam ",
		label=bam,
		lp="928.5,157.5",
		pos="e,921.89,144.27 915.12,170.71 916.46,165.47 918.24,158.53 919.85,152.24"];
	sort_bams -> "filter-unmapped"	[_draw_="c 7 -#000000 B 4 1008 575.71 1008 570.59 1008 563.85 1008 557.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1010.45 557.78 1008 550.78 1005.55 557.78 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1027 560.6 0 38 10 -input_file ",
		label=input_file,
		lp="1027,562.5",
		pos="e,1008,549.27 1008,575.71 1008,570.59 1008,563.85 1008,557.67"];
	sort_bams -> index_bams	[_draw_="c 7 -#000000 B 10 980.41 575.54 949.3 565.59 903 549.37 903 541 903 541 903 541 903 224 903 215.09 905.06 205.41 907.31 197.49 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 909.63 198.29 909.38 190.88 904.95 196.82 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 922 380.6 0 38 10 -input_file ",
		label=input_file,
		lp="922,382.5",
		pos="e,909.84,189.43 980.41,575.54 949.3,565.59 903,549.37 903,541 903,541 903,541 903,224 903,215.09 905.06,205.41 907.31,197.49"];
	index_dups_marked_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 750 215.5 750 234.5 896 234.5 896 215.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 823 222.5 0 130 22 -index_dups_marked_bams ",
		height=0.27778,
		label=index_dups_marked_bams,
		pos="823,225",
		rects="750,215.5,896,234.5",
		width=2.0278];
	sort_dups_marked_bams -> index_dups_marked_bams	[_draw_="c 7 -#000000 B 4 823 260.71 823 255.59 823 248.85 823 242.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 825.45 242.78 823 235.78 820.55 242.78 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 842 245.6 0 38 10 -input_file ",
		label=input_file,
		lp="842,247.5",
		pos="e,823,234.27 823,260.71 823,255.59 823,248.85 823,242.67"];
	index_dedup_bams -> output_data_sorted_dedup_bam_files	[_draw_="c 7 -#000000 B 4 629.96 80.5 606.7 73.7 573.94 64.12 548.84 56.78 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 549.84 54.52 542.43 54.9 548.47 59.22 ",
		pos="e,540.98,54.478 629.96,80.505 606.7,73.702 573.94,64.118 548.84,56.776"];
	"bowtie-se" -> output_bowtie_log	[_draw_="c 7 -#000000 B 19 1179.4 665.52 1214.52 632.87 1336 510.71 1336 383.5 1336 383.5 1336 383.5 1336 269 1336 228.69 1358 221.31 1358 \
181 1358 181 1358 181 1358 89 1358 61.06 1453.92 69.89 1481 63 1488.28 61.15 1496.02 58.98 1503.37 56.82 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1503.7 59.28 1509.71 54.93 1502.3 54.58 ",
		pos="e,1511.2,54.496 1179.4,665.52 1214.5,632.87 1336,510.71 1336,383.5 1336,383.5 1336,383.5 1336,269 1336,228.69 1358,221.31 1358,181 \
1358,181 1358,181 1358,89 1358,61.063 1453.9,69.887 1481,63 1488.3,61.149 1496,58.979 1503.4,56.819"];
	"bowtie-se" -> mapped_reads_count	[_draw_="c 7 -#000000 B 16 1202.39 673.44 1234.69 672.22 1281.38 668.46 1295 657 1302.31 650.85 1316.28 583.31 1321 575 1367.09 493.74 1446 \
499.42 1446 406 1446 406 1446 406 1446 134 1446 110.99 1466.72 99.8 1490.41 94.53 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1490.64 96.98 1497.04 93.25 1489.71 92.17 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1468.5 380.6 0 45 10 -bowtie_log ",
		label=bowtie_log,
		lp="1468.5,382.5",
		pos="e,1498.5,92.962 1202.4,673.44 1234.7,672.22 1281.4,668.46 1295,657 1302.3,650.85 1316.3,583.31 1321,575 1367.1,493.74 1446,499.42 \
1446,406 1446,406 1446,406 1446,134 1446,110.99 1466.7,99.804 1490.4,94.531"];
	"bowtie-se" -> sam2bam	[_draw_="c 7 -#000000 B 4 1137.99 665.5 1112.14 658.64 1075.63 648.95 1047.88 641.59 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1048.8 639.29 1041.4 639.87 1047.54 644.03 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1122 650.6 0 38 10 -input_file ",
		label=input_file,
		lp="1122,652.5",
		pos="e,1039.9,639.48 1138,665.5 1112.1,658.64 1075.6,648.95 1047.9,641.59"];
	index_masked_bams -> mark_duplicates	[_draw_="c 7 -#000000 B 4 623.94 350.71 617.44 344.76 608.53 336.61 600.98 329.7 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 602.97 328.2 596.15 325.29 599.66 331.82 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 632 335.6 0 38 10 -input_file ",
		label=input_file,
		lp="632,337.5",
		pos="e,595.03,324.27 623.94,350.71 617.44,344.76 608.53,336.61 600.98,329.7"];
	index_dups_marked_bams -> output_data_sorted_dups_marked_bam_files	[_draw_="c 7 -#000000 B 13 842.71 215.66 846.79 213.29 850.82 210.41 854 207 862.68 197.69 866 193.73 866 181 866 181 866 181 866 89 866 \
73.68 833.63 63.01 800.83 56.13 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 801.33 53.73 793.98 54.76 800.36 58.53 ",
		pos="e,792.5,54.461 842.71,215.66 846.79,213.29 850.82,210.41 854,207 862.68,197.69 866,193.73 866,181 866,181 866,181 866,89 866,73.676 \
833.63,63.006 800.83,56.128"];
	remove_duplicates	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 749 170.5 749 189.5 859 189.5 859 170.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 804 177.5 0 94 17 -remove_duplicates ",
		height=0.27778,
		label=remove_duplicates,
		pos="804,180",
		rects="749,170.5,859,189.5",
		width=1.5278];
	index_dups_marked_bams -> remove_duplicates	[_draw_="c 7 -#000000 B 4 819.34 215.71 816.97 210.36 813.82 203.22 810.98 196.81 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 813.33 196.06 808.26 190.65 808.85 198.04 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 834 200.6 0 38 10 -input_file ",
		label=input_file,
		lp="834,202.5",
		pos="e,807.65,189.27 819.34,215.71 816.97,210.36 813.82,203.22 810.98,196.81"];
	remove_duplicates -> sort_dedup_bams	[_draw_="c 7 -#000000 B 7 786.12 170.57 774.73 165.3 759.61 158.5 746 153 741.25 151.08 736.19 149.14 731.21 147.29 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 732.36 145.1 724.95 145 730.68 149.71 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 785 155.6 0 38 10 -input_file ",
		label=input_file,
		lp="785,157.5",
		pos="e,723.52,144.48 786.12,170.57 774.73,165.3 759.61,158.5 746,153 741.25,151.08 736.19,149.14 731.21,147.29"];
}