digraph workflow {
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	genome_sizes_file -> execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 B 13 1265.25 718.51 1269.68 713.99 1274.72 708.11 1278 702 1283.66 691.45 1285 687.97 1285 676 1285 676 1285 676 1285 \
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		label=genome_sizes,
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	genome_ref_first_index_file -> "bowtie-pe"	[_draw_="c 7 -#000000 B 7 861.22 718.67 868.76 710.6 881.37 698.75 895 693 915.61 684.3 973.29 679.82 1013.2 677.69 ",
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		label=genome_ref_first_index_file,
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	nthreads -> "bowtie-pe"	[_draw_="c 7 -#000000 B 13 758.49 718.57 764.38 715.46 771.35 712.17 778 710 798.14 703.41 805.03 709.08 825 702 832.69 699.28 833.2 695.38 \
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	sam2bam	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 809.5 620.5 809.5 639.5 874.5 639.5 874.5 620.5 ",
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		label=sam2bam,
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	nthreads -> sam2bam	[_draw_="c 7 -#000000 B 10 760.56 718.62 766.09 715.85 772.3 712.77 778 710 785.51 706.35 788.68 707.46 795 702 813.09 686.36 827.09 662.13 \
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		rects="472,260.5,610,279.5",
		width=1.9167];
	nthreads -> sort_dups_marked_bams	[_draw_="c 7 -#000000 B 16 742.95 718.71 741.76 708.63 740 691.1 740 676 740 676 740 676 740 516.5 740 484.66 769 482.84 769 451 769 451 \
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		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 771.5 493.1 0 37 8 -nthreads ",
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	nthreads -> sort_masked_bams	[_draw_="c 7 -#000000 B 13 727.96 718.55 722.59 715.78 716.56 712.71 711 710 678.46 694.15 637 712.19 637 676 637 676 637 676 637 584 637 \
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		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 654.5 560.6 0 37 8 -nthreads ",
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		height=0.27778,
		label=filtered2sorted,
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	nthreads -> filtered2sorted	[_draw_="c 7 -#000000 B 16 759.33 718.52 765.65 714.31 772.52 708.69 777 702 802.3 664.19 768.57 632.73 803 603 827.37 581.96 847.31 611.43 \
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		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 821.5 605.6 0 37 8 -nthreads ",
		label=nthreads,
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		pos="e,1078.2,502.41 759.33,718.52 765.65,714.31 772.52,708.69 777,702 802.3,664.19 768.57,632.73 803,603 827.37,581.96 847.31,611.43 \
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		height=0.27778,
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	nthreads -> sort_dedup_bams	[_draw_="c 7 -#000000 B 16 752.23 718.79 760.81 709.33 773 692.91 773 676 773 676 773 676 773 584 773 543.69 795 536.31 795 496 795 496 795 \
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		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 761.26 141.22 753.86 141.69 759.93 145.94 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 813.5 425.6 0 37 8 -nthreads ",
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		height=0.27778,
		label=sort_bams,
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	nthreads -> sort_bams	[_draw_="c 7 -#000000 B 16 759.68 718.53 765.36 715.63 771.89 712.49 778 710 788.8 705.6 791.95 705.75 803 702 814.18 698.2 816.68 696.36 \
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		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 691 447.5 0 125 23 -remove_encode_blacklist ",
		height=0.27778,
		label=remove_encode_blacklist,
		pos="691,450",
		rects="620.5,440.5,761.5,459.5",
		width=1.9583];
	ENCODE_blacklist_bedfile -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 10 634.9 718.56 630.46 708.62 624 691.51 624 676 624 676 624 676 624 494 624 479.19 635.74 469.24 649.39 462.69 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 650.25 464.98 655.72 459.98 648.32 460.48 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 627 583.1 0 6 1 -b ",
		label=b,
		lp="627,585",
		pos="e,657.11,459.38 634.9,718.56 630.46,708.62 624,691.51 624,676 624,676 624,676 624,494 624,479.19 635.74,469.24 649.39,462.69"];
	input_fastq_read1_files -> "bowtie-pe"	[_draw_="c 7 -#000000 B 7 1000.8 718.72 1002.83 711.15 1006.83 700.07 1014 693 1015.66 691.36 1017.51 689.87 1019.46 688.51 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1020.36 690.83 1025.16 685.18 1017.88 686.6 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1059.5 695.6 0 91 22 -input_fastq_read1_file ",
		label=input_fastq_read1_file,
		lp="1059.5,697.5",
		pos="e,1026.5,684.41 1000.8,718.72 1002.8,711.15 1006.8,700.07 1014,693 1015.7,691.36 1017.5,689.87 1019.5,688.51"];
	extract_basename_1	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1132.5 790.5 1132.5 809.5 1251.5 809.5 1251.5 790.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1192 797.5 0 103 18 -extract_basename_1 ",
		height=0.27778,
		label=extract_basename_1,
		pos="1192,800",
		rects="1132.5,790.5,1251.5,809.5",
		width=1.6528];
	input_fastq_read1_files -> extract_basename_1	[_draw_="c 7 -#000000 B 7 1012.86 737.36 1026.5 745.31 1048.13 757.2 1068 765 1092.72 774.71 1121.24 782.74 1144.7 788.55 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1143.92 790.88 1151.3 790.15 1145.08 786.12 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1137 775.6 0 38 10 -input_file ",
		label=input_file,
		lp="1137,777.5",
		pos="e,1152.8,790.51 1012.9,737.36 1026.5,745.31 1048.1,757.2 1068,765 1092.7,774.71 1121.2,782.74 1144.7,788.55"];
	input_fastq_read2_files -> "bowtie-pe"	[_draw_="c 7 -#000000 B 7 1127.26 718.64 1121.62 711.01 1112.38 699.89 1102 693 1099.1 691.08 1095.96 689.34 1092.71 687.78 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1093.82 685.59 1086.42 685.06 1091.87 690.09 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1157.5 695.6 0 91 22 -input_fastq_read2_file ",
		label=input_fastq_read2_file,
		lp="1157.5,697.5",
		pos="e,1085,684.46 1127.3,718.64 1121.6,711.01 1112.4,699.89 1102,693 1099.1,691.08 1096,689.34 1092.7,687.78"];
	mark_duplicates	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 469 305.5 469 324.5 567 324.5 567 305.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 518 312.5 0 82 15 -mark_duplicates ",
		height=0.27778,
		label=mark_duplicates,
		pos="518,315",
		rects="469,305.5,567,324.5",
		width=1.3611];
	picard_jar_path -> mark_duplicates	[_draw_="c 7 -#000000 B 10 416.36 718.78 419.03 708.76 423 691.28 423 676 423 676 423 676 423 359 423 338.94 440.79 328.19 460.98 322.45 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 461.44 324.86 467.64 320.78 460.25 320.11 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 454.5 515.6 0 63 15 -picard_jar_path ",
		label=picard_jar_path,
		lp="454.5,517.5",
		pos="e,469.11,320.42 416.36,718.78 419.03,708.76 423,691.28 423,676 423,676 423,676 423,359 423,338.94 440.79,328.19 460.98,322.45"];
	picard_java_opts -> mark_duplicates	[_draw_="c 7 -#000000 B 10 511.9 718.76 509.53 708.73 506 691.24 506 676 506 676 506 676 506 359 506 349.89 508.53 340.09 511.26 332.14 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 513.48 333.2 513.67 325.79 508.9 331.47 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 526 515.6 0 40 9 -java_opts ",
		label=java_opts,
		lp="526,517.5",
		pos="e,514.2,324.37 511.9,718.76 509.53,708.73 506,691.24 506,676 506,676 506,676 506,359 506,349.89 508.53,340.09 511.26,332.14"];
	percent_mitochondrial_reads	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 856 80.5 856 99.5 1014 99.5 1014 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 935 87.5 0 142 27 -percent_mitochondrial_reads ",
		height=0.27778,
		label=percent_mitochondrial_reads,
		pos="935,90",
		rects="856,80.5,1014,99.5",
		width=2.1944];
	percent_mitochondrial_reads -> output_percent_mitochondrial_reads	[_draw_="c 7 -#000000 B 4 938.28 80.71 940.39 75.36 943.22 68.22 945.75 61.81 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 947.88 63.08 948.18 55.67 943.32 61.28 ",
		pos="e,948.73,54.265 938.28,80.709 940.39,75.355 943.22,68.217 945.75,61.807"];
	extract_basename_2	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1326.5 718.5 1326.5 737.5 1445.5 737.5 1445.5 718.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1386 725.5 0 103 18 -extract_basename_2 ",
		height=0.27778,
		label=extract_basename_2,
		pos="1386,728",
		rects="1326.5,718.5,1445.5,737.5",
		width=1.6528];
	"filter-unmapped"	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1074.5 530.5 1074.5 549.5 1169.5 549.5 1169.5 530.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1122 537.5 0 79 15 -filter-unmapped ",
		height=0.27778,
		label="filter-unmapped",
		pos="1122,540",
		rects="1074.5,530.5,1169.5,549.5",
		width=1.3194];
	extract_basename_2 -> "filter-unmapped"	[_draw_="c 7 -#000000 B 7 1377.38 718.59 1357.75 699.68 1307.75 652.84 1261 620 1223.01 593.31 1175.32 567.77 1146.83 553.27 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1148.03 551.13 1140.67 550.17 1145.82 555.51 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1320.5 628.1 0 67 15 -output_filename ",
		label=output_filename,
		lp="1320.5,630",
		pos="e,1139.3,549.49 1377.4,718.59 1357.7,699.68 1307.8,652.84 1261,620 1223,593.31 1175.3,567.77 1146.8,553.27"];
	extract_basename_2 -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 25 1358.23 718.55 1346.27 715.28 1332.07 711.88 1319 710 1271.9 703.22 1150.4 716.26 1105 702 1097.94 699.78 1098.07 \
695.19 1091 693 1076.08 688.39 822.23 694.71 810 685 774.38 656.71 784 631.49 784 586 784 586 784 586 784 516.5 784 502.16 786.31 \
495.91 777 485 768.11 474.58 755.6 467.33 742.86 462.3 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 743.77 460.02 736.36 459.95 742.11 464.63 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 829.5 583.1 0 91 20 -output_basename_file ",
		label=output_basename_file,
		lp="829.5,585",
		pos="e,734.93,459.44 1358.2,718.55 1346.3,715.28 1332.1,711.88 1319,710 1271.9,703.22 1150.4,716.26 1105,702 1097.9,699.78 1098.1,695.19 \
1091,693 1076.1,688.39 822.23,694.71 810,685 774.38,656.71 784,631.49 784,586 784,586 784,586 784,516.5 784,502.16 786.31,495.91 \
777,485 768.11,474.58 755.6,467.33 742.86,462.3"];
	extract_basename_2 -> "bowtie-pe"	[_draw_="c 7 -#000000 B 13 1356.87 718.5 1345.19 715.39 1331.54 712.11 1319 710 1277.65 703.04 1265.83 711.52 1225 702 1214.31 699.51 1212.65 \
695.65 1202 693 1166.32 684.13 1124.64 679.87 1094.62 677.83 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1095.13 675.41 1087.98 677.41 1094.82 680.3 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1258.5 695.6 0 67 15 -output_filename ",
		label=output_filename,
		lp="1258.5,697.5",
		pos="e,1086.5,677.32 1356.9,718.5 1345.2,715.39 1331.5,712.11 1319,710 1277.7,703.04 1265.8,711.52 1225,702 1214.3,699.51 1212.7,695.65 \
1202,693 1166.3,684.13 1124.6,679.87 1094.6,677.83"];
	"preseq-c-curve"	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1254.5 125.5 1254.5 144.5 1343.5 144.5 1343.5 125.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1299 132.5 0 73 14 -preseq-c-curve ",
		height=0.27778,
		label="preseq-c-curve",
		pos="1299,135",
		rects="1254.5,125.5,1343.5,144.5",
		width=1.2361];
	extract_basename_2 -> "preseq-c-curve"	[_draw_="c 7 -#000000 B 22 1414.88 718.53 1434.16 710.9 1456 697.5 1456 676 1456 676 1456 676 1456 606.5 1456 577.17 1448 570.33 1448 541 \
1448 541 1448 541 1448 471.5 1448 392.38 1446 372.62 1446 293.5 1446 293.5 1446 293.5 1446 224 1446 178.45 1393.4 155.91 1351.13 \
145.14 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1351.96 142.82 1344.58 143.56 1350.81 147.59 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1492.5 425.6 0 91 20 -output_file_basename ",
		label=output_file_basename,
		lp="1492.5,427.5",
		pos="e,1343.1,143.21 1414.9,718.53 1434.2,710.9 1456,697.5 1456,676 1456,676 1456,676 1456,606.5 1456,577.17 1448,570.33 1448,541 1448,\
541 1448,541 1448,471.5 1448,392.38 1446,372.62 1446,293.5 1446,293.5 1446,293.5 1446,224 1446,178.45 1393.4,155.91 1351.1,145.14"];
	extract_basename_2 -> execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 B 10 1382.98 718.62 1374.66 694.73 1352 624.09 1352 563.5 1352 563.5 1352 563.5 1352 494 1352 485.27 1351.17 475.59 \
1350.27 467.62 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1352.71 467.37 1349.41 460.72 1347.85 467.97 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1401.5 583.1 0 97 22 -input_output_filenames ",
		label=input_output_filenames,
		lp="1401.5,585",
		pos="e,1349.2,459.22 1383,718.62 1374.7,694.73 1352,624.09 1352,563.5 1352,563.5 1352,563.5 1352,494 1352,485.27 1351.2,475.59 1350.3,\
467.62"];
	mapped_filtered_reads_count	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 662.5 80.5 662.5 99.5 823.5 99.5 823.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 743 87.5 0 145 27 -mapped_filtered_reads_count ",
		height=0.27778,
		label=mapped_filtered_reads_count,
		pos="743,90",
		rects="662.5,80.5,823.5,99.5",
		width=2.2361];
	mapped_filtered_reads_count -> output_read_count_mapped_filtered	[_draw_="c 7 -#000000 B 4 745.12 80.71 746.46 75.47 748.24 68.53 749.85 62.24 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 752.15 63.12 751.51 55.73 747.4 61.91 ",
		pos="e,751.89,54.265 745.12,80.709 746.46,75.474 748.24,68.534 749.85,62.235"];
	index_dedup_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 517.5 80.5 517.5 99.5 628.5 99.5 628.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 573 87.5 0 95 16 -index_dedup_bams ",
		height=0.27778,
		label=index_dedup_bams,
		pos="573,90",
		rects="517.5,80.5,628.5,99.5",
		width=1.5417];
	index_dedup_bams -> output_data_sorted_dedup_bam_files	[_draw_="c 7 -#000000 B 4 569.34 80.71 566.97 75.36 563.82 68.22 560.98 61.81 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 563.33 61.06 558.26 55.65 558.85 63.04 ",
		pos="e,557.65,54.265 569.34,80.709 566.97,75.355 563.82,68.217 560.98,61.807"];
	"filter-unmapped" -> filtered2sorted	[_draw_="c 7 -#000000 B 4 1122 530.71 1122 525.59 1122 518.85 1122 512.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1124.45 512.78 1122 505.78 1119.55 512.78 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1141 515.6 0 38 10 -input_file ",
		label=input_file,
		lp="1141,517.5",
		pos="e,1122,504.27 1122,530.71 1122,525.59 1122,518.85 1122,512.67"];
	remove_encode_blacklist -> sort_masked_bams	[_draw_="c 7 -#000000 B 4 667.29 440.5 648.72 433.85 622.72 424.53 602.41 417.26 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 603.5 415.04 596.08 414.99 601.85 419.66 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 660 425.6 0 38 10 -input_file ",
		label=input_file,
		lp="660,427.5",
		pos="e,594.66,414.48 667.29,440.5 648.72,433.85 622.72,424.53 602.41,417.26"];
	masked_file_basename	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 630.5 395.5 630.5 414.5 761.5 414.5 761.5 395.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 696 402.5 0 115 20 -masked_file_basename ",
		height=0.27778,
		label=masked_file_basename,
		pos="696,405",
		rects="630.5,395.5,761.5,414.5",
		width=1.8194];
	remove_encode_blacklist -> masked_file_basename	[_draw_="c 7 -#000000 B 4 691.96 440.71 692.56 435.59 693.34 428.85 694.06 422.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 696.49 423 694.86 415.77 691.62 422.44 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 712 425.6 0 38 10 -input_file ",
		label=input_file,
		lp="712,427.5",
		pos="e,695.04,414.27 691.96,440.71 692.56,435.59 693.34,428.85 694.06,422.67"];
	percent_uniq_reads	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1301 80.5 1301 99.5 1413 99.5 1413 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1357 87.5 0 96 18 -percent_uniq_reads ",
		height=0.27778,
		label=percent_uniq_reads,
		pos="1357,90",
		rects="1301,80.5,1413,99.5",
		width=1.5556];
	percent_uniq_reads -> output_percentage_uniq_reads	[_draw_="c 7 -#000000 B 4 1375.97 80.5 1390.43 74.03 1410.53 65.02 1426.57 57.84 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1427.3 60.19 1432.69 55.1 1425.3 55.72 ",
		pos="e,1434.1,54.478 1376,80.505 1390.4,74.026 1410.5,65.024 1426.6,57.84"];
	"bowtie-pe" -> output_bowtie_log	[_draw_="c 7 -#000000 B 25 1086.16 672.96 1128.98 671.21 1202.18 666.86 1227 657 1243.4 650.49 1257 648.64 1257 631 1257 631 1257 631 1257 \
471.5 1257 456.81 1261.69 453.7 1267 440 1324.14 292.59 1353.17 262.07 1416 117 1423.05 100.72 1417.12 91.05 1431 80 1468.33 50.28 \
1490.48 73.62 1537 63 1544.62 61.26 1552.71 59.07 1560.33 56.84 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1560.92 59.22 1566.92 54.86 1559.51 54.52 ",
		pos="e,1568.4,54.422 1086.2,672.96 1129,671.21 1202.2,666.86 1227,657 1243.4,650.49 1257,648.64 1257,631 1257,631 1257,631 1257,471.5 \
1257,456.81 1261.7,453.7 1267,440 1324.1,292.59 1353.2,262.07 1416,117 1423.1,100.72 1417.1,91.051 1431,80 1468.3,50.284 1490.5,\
73.619 1537,63 1544.6,61.262 1552.7,59.066 1560.3,56.836"];
	"bowtie-pe" -> sam2bam	[_draw_="c 7 -#000000 B 4 1021.8 667.47 984.49 659.9 922.97 647.42 882.46 639.21 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 882.98 636.81 875.64 637.82 882.01 641.62 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 985 650.6 0 38 10 -input_file ",
		label=input_file,
		lp="985,652.5",
		pos="e,874.15,637.52 1021.8,667.47 984.49,659.9 922.97,647.42 882.46,639.21"];
	mapped_reads_count	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1098.5 80.5 1098.5 99.5 1219.5 99.5 1219.5 80.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1159 87.5 0 105 18 -mapped_reads_count ",
		height=0.27778,
		label=mapped_reads_count,
		pos="1159,90",
		rects="1098.5,80.5,1219.5,99.5",
		width=1.6806];
	"bowtie-pe" -> mapped_reads_count	[_draw_="c 7 -#000000 B 13 1086.14 673.35 1140.79 671.38 1246 663.37 1246 631 1246 631 1246 631 1246 471.5 1246 457.63 1225.09 391.35 1224 \
387 1224 387 1176.13 169 1162.55 107.17 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1165.03 107.02 1161.13 100.7 1160.24 108.07 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1246.5 380.6 0 45 10 -bowtie_log ",
		label=bowtie_log,
		lp="1246.5,382.5",
		pos="e,1160.8,99.226 1086.1,673.35 1140.8,671.38 1246,663.37 1246,631 1246,631 1246,631 1246,471.5 1246,457.63 1225.1,391.35 1224,387 \
1224,387 1176.1,169 1162.6,107.17"];
	sam2bam -> sort_bams	[_draw_="c 7 -#000000 B 7 841 620.68 840.81 614.97 841.59 607.63 846 603 856.48 591.98 864.99 596.81 880.7 595.39 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 881 597.83 887.54 594.33 880.25 592.99 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 865 605.6 0 38 10 -input_file ",
		label=input_file,
		lp="865,607.5",
		pos="e,889.04,594.1 841,620.68 840.81,614.97 841.59,607.63 846,603 856.48,591.98 864.99,596.81 880.7,595.39"];
	"preseq-c-curve" -> output_preseq_c_curve_files	[_draw_="c 7 -#000000 B 4 1297.95 125.56 1296.14 111.14 1292.43 81.48 1290.09 62.73 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1292.52 62.43 1289.22 55.79 1287.66 63.04 ",
		pos="e,1289,54.284 1297.9,125.56 1296.1,111.14 1292.4,81.476 1290.1,62.727"];
	"preseq-c-curve" -> percent_uniq_reads	[_draw_="c 7 -#000000 B 7 1306.18 125.62 1311.12 120.18 1318.02 113.16 1325 108 1327.12 106.43 1329.41 104.92 1331.75 103.48 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1332.64 105.8 1337.51 100.2 1330.22 101.54 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1372 110.6 0 94 22 -preseq_c_curve_outfile ",
		label=preseq_c_curve_outfile,
		lp="1372,112.5",
		pos="e,1338.8,99.454 1306.2,125.62 1311.1,120.18 1318,113.16 1325,108 1327.1,106.43 1329.4,104.92 1331.8,103.48"];
	index_dups_marked_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 468 215.5 468 234.5 614 234.5 614 215.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 541 222.5 0 130 22 -index_dups_marked_bams ",
		height=0.27778,
		label=index_dups_marked_bams,
		pos="541,225",
		rects="468,215.5,614,234.5",
		width=2.0278];
	sort_dups_marked_bams -> index_dups_marked_bams	[_draw_="c 7 -#000000 B 4 541 260.71 541 255.59 541 248.85 541 242.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 543.45 242.78 541 235.78 538.55 242.78 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 560 245.6 0 38 10 -input_file ",
		label=input_file,
		lp="560,247.5",
		pos="e,541,234.27 541,260.71 541,255.59 541,248.85 541,242.67"];
	mark_duplicates -> output_picard_mark_duplicates_files	[_draw_="c 7 -#000000 B 10 469.14 314.95 398.97 314.99 278 309.47 278 271 278 271 278 271 278 89 278 77.82 220.27 64.77 173.32 56.01 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 173.81 53.61 166.48 54.75 172.92 58.42 ",
		pos="e,164.99,54.475 469.14,314.95 398.97,314.99 278,309.47 278,271 278,271 278,271 278,89 278,77.824 220.27,64.773 173.32,56.007"];
	mark_duplicates -> sort_dups_marked_bams	[_draw_="c 7 -#000000 B 4 522.43 305.71 525.36 300.24 529.29 292.9 532.77 286.38 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 534.72 287.93 535.87 280.6 530.4 285.62 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 550 290.6 0 38 10 -input_file ",
		label=input_file,
		lp="550,292.5",
		pos="e,536.58,279.27 522.43,305.71 525.36,300.24 529.29,292.9 532.77,286.38"];
	mapped_reads_count -> output_read_count_mapped	[_draw_="c 7 -#000000 B 4 1153.41 80.71 1149.64 75.12 1144.55 67.58 1140.09 60.96 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1142.37 59.95 1136.42 55.52 1138.3 62.69 ",
		pos="e,1135.6,54.265 1153.4,80.709 1149.6,75.117 1144.6,67.579 1140.1,60.957"];
	extract_basename_1 -> extract_basename_2	[_draw_="c 7 -#000000 B 7 1233.1 790.54 1258.35 784.73 1291.1 776.06 1319 765 1335.21 758.57 1352.53 749.2 1365.5 741.62 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1366.52 743.86 1371.29 738.18 1364.02 739.65 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1313 775.6 0 36 9 -file_path ",
		label=file_path,
		lp="1313,777.5",
		pos="e,1372.6,737.41 1233.1,790.54 1258.3,784.73 1291.1,776.06 1319,765 1335.2,758.57 1352.5,749.2 1365.5,741.62"];
	execute_pcr_bottleneck_coef -> output_pbc_files	[_draw_="c 7 -#000000 B 13 1402.11 440.58 1419.8 434.5 1435 424.03 1435 406 1435 406 1435 406 1435 89 1435 65.16 1624.73 68.17 1648 63 1655.06 \
61.43 1662.53 59.29 1669.53 57.06 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1670.17 59.42 1676.05 54.9 1668.63 54.77 ",
		pos="e,1677.5,54.42 1402.1,440.58 1419.8,434.5 1435,424.03 1435,406 1435,406 1435,406 1435,89 1435,65.158 1624.7,68.173 1648,63 1655.1,\
61.43 1662.5,59.289 1669.5,57.055"];
	index_masked_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 513.5 350.5 513.5 369.5 632.5 369.5 632.5 350.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 573 357.5 0 103 17 -index_masked_bams ",
		height=0.27778,
		label=index_masked_bams,
		pos="573,360",
		rects="513.5,350.5,632.5,369.5",
		width=1.6528];
	sort_masked_bams -> index_masked_bams	[_draw_="c 7 -#000000 B 4 571.39 395.71 571.62 390.59 571.94 383.85 572.22 377.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 574.67 377.88 572.55 370.78 569.77 377.66 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 591 380.6 0 38 10 -input_file ",
		label=input_file,
		lp="591,382.5",
		pos="e,572.62,369.27 571.39,395.71 571.62,390.59 571.94,383.85 572.22,377.67"];
	index_masked_bams -> mark_duplicates	[_draw_="c 7 -#000000 B 4 562.13 350.5 554.53 344.56 544.2 336.48 535.44 329.64 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 537.06 327.79 530.04 325.41 534.04 331.65 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 569 335.6 0 38 10 -input_file ",
		label=input_file,
		lp="569,337.5",
		pos="e,528.84,324.48 562.13,350.5 554.53,344.56 544.2,336.48 535.44,329.64"];
	filtered2sorted -> remove_encode_blacklist	[_draw_="c 7 -#000000 B 4 1078.3 489.64 1005.98 482.42 860.39 467.9 769.77 458.86 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 770.16 456.44 762.95 458.18 769.67 461.31 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 948 470.6 0 6 1 -a ",
		label=a,
		lp="948,472.5",
		pos="e,761.44,458.03 1078.3,489.64 1006,482.42 860.39,467.9 769.77,458.86"];
	filtered2sorted -> "preseq-c-curve"	[_draw_="c 7 -#000000 B 7 1121.2 485.68 1118.93 458.49 1114.21 370.29 1141 305 1170.19 233.88 1244.04 174.64 1279.46 149.27 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1280.86 151.29 1285.17 145.25 1278.04 147.28 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1175 313.1 0 68 17 -input_sorted_file ",
		label=input_sorted_file,
		lp="1175,315",
		pos="e,1286.4,144.38 1121.2,485.68 1118.9,458.49 1114.2,370.29 1141,305 1170.2,233.88 1244,174.64 1279.5,149.27"];
	filtered2sorted -> execute_pcr_bottleneck_coef	[_draw_="c 7 -#000000 B 4 1165.84 485.66 1202.87 478.61 1256 468.5 1295.33 461.02 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1295.6 463.46 1302.02 459.75 1294.69 458.65 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1287 470.6 0 64 15 -input_bam_files ",
		label=input_bam_files,
		lp="1287,472.5",
		pos="e,1303.5,459.47 1165.8,485.66 1202.9,478.61 1256,468.5 1295.3,461.02"];
	index_filtered_bam	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1129 440.5 1129 459.5 1239 459.5 1239 440.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1184 447.5 0 94 18 -index_filtered_bam ",
		height=0.27778,
		label=index_filtered_bam,
		pos="1184,450",
		rects="1129,440.5,1239,459.5",
		width=1.5278];
	filtered2sorted -> index_filtered_bam	[_draw_="c 7 -#000000 B 4 1134.25 485.5 1143 479.44 1154.93 471.16 1164.92 464.23 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1166.18 466.34 1170.53 460.34 1163.38 462.32 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1177 470.6 0 38 10 -input_file ",
		label=input_file,
		lp="1177,472.5",
		pos="e,1171.8,459.48 1134.2,485.5 1143,479.44 1154.9,471.16 1164.9,464.23"];
	sort_dedup_bams -> mapped_filtered_reads_count	[_draw_="c 7 -#000000 B 4 709.1 125.71 714.79 119.88 722.55 111.93 729.21 105.12 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 730.73 107.07 733.87 100.35 727.23 103.64 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 755 110.6 0 60 14 -input_bam_file ",
		label=input_bam_file,
		lp="755,112.5",
		pos="e,734.93,99.265 709.1,125.71 714.79,119.88 722.55,111.93 729.21,105.12"];
	sort_dedup_bams -> index_dedup_bams	[_draw_="c 7 -#000000 B 4 675.71 125.5 655.81 118.82 627.92 109.45 606.22 102.16 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 607.09 99.87 599.67 99.96 605.53 104.51 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 667 110.6 0 38 10 -input_file ",
		label=input_file,
		lp="667,112.5",
		pos="e,598.24,99.478 675.71,125.5 655.81,118.82 627.92,109.45 606.22,102.16"];
	index_dups_marked_bams -> output_data_sorted_dups_marked_bam_files	[_draw_="c 7 -#000000 B 10 528.73 215.64 518.99 207.91 507 195.47 507 181 507 181 507 181 507 89 507 77.25 446.39 64.39 396.72 55.82 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 397.34 53.44 390.03 54.69 396.52 58.28 ",
		pos="e,388.53,54.434 528.73,215.64 518.99,207.91 507,195.47 507,181 507,181 507,181 507,89 507,77.246 446.39,64.389 396.72,55.824"];
	remove_duplicates	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 553 170.5 553 189.5 663 189.5 663 170.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 608 177.5 0 94 17 -remove_duplicates ",
		height=0.27778,
		label=remove_duplicates,
		pos="608,180",
		rects="553,170.5,663,189.5",
		width=1.5278];
	index_dups_marked_bams -> remove_duplicates	[_draw_="c 7 -#000000 B 4 554.24 215.5 563.78 209.38 576.84 201 587.7 194.03 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 588.95 196.14 593.52 190.3 586.3 192.01 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 599 200.6 0 38 10 -input_file ",
		label=input_file,
		lp="599,202.5",
		pos="e,594.79,189.48 554.24,215.5 563.78,209.38 576.84,201 587.7,194.03"];
	masked_file_basename -> mark_duplicates	[_draw_="c 7 -#000000 B 7 688.48 395.62 677.66 383.99 656.6 362.93 635 350 616.81 339.12 594.94 331.54 575.05 326.36 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 575.81 324.02 568.43 324.71 574.63 328.78 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 694.5 358.1 0 67 15 -output_filename ",
		label=output_filename,
		lp="694.5,360",
		pos="e,566.96,324.35 688.48,395.62 677.66,383.99 656.6,362.93 635,350 616.81,339.12 594.94,331.54 575.05,326.36"];
	index_bams	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 859 170.5 859 189.5 935 189.5 935 170.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 897 177.5 0 60 10 -index_bams ",
		height=0.27778,
		label=index_bams,
		pos="897,180",
		rects="859,170.5,935,189.5",
		width=1.0556];
	bam_idxstats	[_draw_="c 7 -#000000 C 7 -#fafad2 P 4 858.5 125.5 858.5 144.5 941.5 144.5 941.5 125.5 ",
		_ldraw_="F 10 9 -Helvetica c 7 -#000000 T 900 132.5 0 67 12 -bam_idxstats ",
		height=0.27778,
		label=bam_idxstats,
		pos="900,135",
		rects="858.5,125.5,941.5,144.5",
		width=1.1528];
	index_bams -> bam_idxstats	[_draw_="c 7 -#000000 B 4 897.58 170.71 897.94 165.59 898.41 158.85 898.84 152.67 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 901.27 152.93 899.32 145.78 896.39 152.59 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 907.5 155.6 0 19 3 -bam ",
		label=bam,
		lp="907.5,157.5",
		pos="e,899.42,144.27 897.58,170.71 897.94,165.59 898.41,158.85 898.84,152.67"];
	remove_duplicates -> sort_dedup_bams	[_draw_="c 7 -#000000 B 4 626.37 170.5 640.26 164.09 659.5 155.19 674.97 148.04 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 675.97 150.27 681.29 145.11 673.91 145.83 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 681 155.6 0 38 10 -input_file ",
		label=input_file,
		lp="681,157.5",
		pos="e,682.66,144.48 626.37,170.5 640.26,164.09 659.5,155.19 674.97,148.04"];
	sort_bams -> "filter-unmapped"	[_draw_="c 7 -#000000 B 4 956.76 576.71 989.23 569.69 1038.62 559.02 1074.94 551.17 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1075.15 553.63 1081.47 549.76 1074.11 548.84 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1059 560.6 0 38 10 -input_file ",
		label=input_file,
		lp="1059,562.5",
		pos="e,1082.9,549.44 956.76,576.71 989.23,569.69 1038.6,559.02 1074.9,551.17"];
	sort_bams -> index_bams	[_draw_="c 7 -#000000 B 10 912.51 575.64 903.86 567.73 893 555.02 893 541 893 541 893 541 893 224 893 215.27 893.83 205.59 894.73 197.62 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 897.15 197.97 895.59 190.72 892.29 197.37 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 912 380.6 0 38 10 -input_file ",
		label=input_file,
		lp="912,382.5",
		pos="e,895.78,189.22 912.51,575.64 903.86,567.73 893,555.02 893,541 893,541 893,541 893,224 893,215.27 893.83,205.59 894.73,197.62"];
	bam_idxstats -> percent_mitochondrial_reads	[_draw_="c 7 -#000000 B 4 906.75 125.71 911.4 120 917.7 112.26 923.17 105.54 ",
		_hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 924.8 107.41 927.32 100.44 921 104.32 ",
		_ldraw_="F 8 9 -Helvetica c 7 -#000000 T 936.5 110.6 0 33 8 -idxstats ",
		label=idxstats,
		lp="936.5,112.5",
		pos="e,928.27,99.265 906.75,125.71 911.4,120 917.7,112.26 923.17,105.54"];
}