examples/flowchart.svg

<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<!DOCTYPE svg PUBLIC "-//W3C//DTD SVG 1.1//EN"
 "http://www.w3.org/Graphics/SVG/1.1/DTD/svg11.dtd">
<!-- Generated by graphviz version 2.40.1 (20161225.0304)
 -->
<!-- Title: flowchart Pages: 1 -->
<svg width="773pt" height="1705pt"
 viewBox="0.00 0.00 772.68 1705.40" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink">
<g id="graph0" class="graph" transform="scale(1 1) rotate(0) translate(4 1701.4)">
<title>flowchart</title>
<polygon fill="#ffffff" stroke="transparent" points="-4,4 -4,-1701.4 768.6817,-1701.4 768.6817,4 -4,4"/>
<!-- p0 -->
<g id="node1" class="node">
<title>p0</title>
<ellipse fill="#000000" stroke="#000000" cx="404.8243" cy="-1565.6" rx="3.6" ry="3.6"/>
<text text-anchor="middle" x="350.0949" y="-1572" font-family="Times,serif" font-size="14.00" fill="#000000">Channel.fromPath</text>
</g>
<!-- p5 -->
<g id="node2" class="node">
<title>p5</title>
<ellipse fill="none" stroke="#000000" cx="404.8243" cy="-1494" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="390.4347" y="-1500.3" font-family="Times,serif" font-size="14.00" fill="#000000">into</text>
</g>
<!-- p0&#45;&gt;p5 -->
<g id="edge1" class="edge">
<title>p0&#45;&gt;p5</title>
<path fill="none" stroke="#000000" d="M404.8243,-1561.7505C404.8243,-1551.751 404.8243,-1524.57 404.8243,-1507.8324"/>
<polygon fill="#000000" stroke="#000000" points="408.3244,-1507.5262 404.8243,-1497.5262 401.3244,-1507.5263 408.3244,-1507.5262"/>
<text text-anchor="middle" x="437.483" y="-1532.8" font-family="Times,serif" font-size="14.00" fill="#000000">oldGenome</text>
</g>
<!-- p29 -->
<g id="node10" class="node">
<title>p29</title>
<ellipse fill="none" stroke="#000000" cx="545.8243" cy="-534" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="518.2208" y="-540.3" font-family="Times,serif" font-size="14.00" fill="#000000">combine</text>
</g>
<!-- p5&#45;&gt;p29 -->
<g id="edge11" class="edge">
<title>p5&#45;&gt;p29</title>
<path fill="none" stroke="#000000" d="M408.3097,-1493.6281C430.0226,-1491.1037 545.8243,-1474.5218 545.8243,-1408 545.8243,-1408 545.8243,-1408 545.8243,-620 545.8243,-594.5387 545.8243,-564.8373 545.8243,-547.8429"/>
<polygon fill="#000000" stroke="#000000" points="549.3244,-547.6048 545.8243,-537.6048 542.3244,-547.6049 549.3244,-547.6048"/>
<text text-anchor="middle" x="585.483" y="-1017.8" font-family="Times,serif" font-size="14.00" fill="#000000">oldGenome_4</text>
</g>
<!-- p8 -->
<g id="node11" class="node">
<title>p8</title>
<ellipse fill="none" stroke="#000000" cx="339.8243" cy="-1408" rx="83.771" ry="18"/>
<text text-anchor="middle" x="339.8243" y="-1403.8" font-family="Times,serif" font-size="14.00" fill="#000000">convertFAto2bit_old</text>
</g>
<!-- p5&#45;&gt;p8 -->
<g id="edge8" class="edge">
<title>p5&#45;&gt;p8</title>
<path fill="none" stroke="#000000" d="M401.6359,-1492.3512C393.3521,-1487.9143 370.9322,-1474.9049 358.5069,-1458 353.6988,-1451.4584 349.9935,-1443.5383 347.1994,-1435.9494"/>
<polygon fill="#000000" stroke="#000000" points="350.4788,-1434.7175 344.0349,-1426.3076 343.8279,-1436.9004 350.4788,-1434.7175"/>
<text text-anchor="middle" x="398.483" y="-1446.8" font-family="Times,serif" font-size="14.00" fill="#000000">oldGenome_1</text>
</g>
<!-- p24 -->
<g id="node12" class="node">
<title>p24</title>
<ellipse fill="none" stroke="#000000" cx="80.8243" cy="-1408" rx="80.649" ry="18"/>
<text text-anchor="middle" x="80.8243" y="-1403.8" font-family="Times,serif" font-size="14.00" fill="#000000">calculateChromInfo</text>
</g>
<!-- p5&#45;&gt;p24 -->
<g id="edge9" class="edge">
<title>p5&#45;&gt;p24</title>
<path fill="none" stroke="#000000" d="M401.3761,-1493.2798C385.7188,-1489.9715 319.82,-1475.636 267.5069,-1458 252.1447,-1452.821 249.2508,-1448.9842 233.8243,-1444 207.3459,-1435.445 177.6857,-1427.9934 151.5798,-1422.1236"/>
<polygon fill="#000000" stroke="#000000" points="152.2824,-1418.6945 141.7625,-1419.9524 150.7707,-1425.5293 152.2824,-1418.6945"/>
<text text-anchor="middle" x="307.483" y="-1446.8" font-family="Times,serif" font-size="14.00" fill="#000000">oldGenome_2</text>
</g>
<!-- p18 -->
<g id="node13" class="node">
<title>p18</title>
<ellipse fill="none" stroke="#000000" cx="435.8243" cy="-979" rx="42.0697" ry="18"/>
<text text-anchor="middle" x="435.8243" y="-974.8" font-family="Times,serif" font-size="14.00" fill="#000000">axtChain</text>
</g>
<!-- p5&#45;&gt;p18 -->
<g id="edge10" class="edge">
<title>p5&#45;&gt;p18</title>
<path fill="none" stroke="#000000" d="M407.6878,-1491.7132C414.0774,-1486.4564 429.5836,-1472.8201 437.8243,-1458 449.0391,-1437.8314 451.8243,-1431.0769 451.8243,-1408 451.8243,-1408 451.8243,-1408 451.8243,-1050.5 451.8243,-1035.8459 448.5841,-1019.9013 445.02,-1006.7954"/>
<polygon fill="#000000" stroke="#000000" points="448.3136,-1005.588 442.1479,-996.9721 441.5949,-1007.5524 448.3136,-1005.588"/>
<text text-anchor="middle" x="491.483" y="-1217.8" font-family="Times,serif" font-size="14.00" fill="#000000">oldGenome_3</text>
</g>
<!-- p1 -->
<g id="node3" class="node">
<title>p1</title>
<ellipse fill="#000000" stroke="#000000" cx="188.8243" cy="-1679.8" rx="3.6" ry="3.6"/>
<text text-anchor="middle" x="134.0949" y="-1686.2" font-family="Times,serif" font-size="14.00" fill="#000000">Channel.fromPath</text>
</g>
<!-- p6 -->
<g id="node4" class="node">
<title>p6</title>
<ellipse fill="none" stroke="#000000" cx="188.8243" cy="-1622.7" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="174.4347" y="-1629" font-family="Times,serif" font-size="14.00" fill="#000000">into</text>
</g>
<!-- p1&#45;&gt;p6 -->
<g id="edge2" class="edge">
<title>p1&#45;&gt;p6</title>
<path fill="none" stroke="#000000" d="M188.8243,-1676.0535C188.8243,-1668.1566 188.8243,-1649.4599 188.8243,-1636.4423"/>
<polygon fill="#000000" stroke="#000000" points="192.3244,-1636.2395 188.8243,-1626.2395 185.3244,-1636.2396 192.3244,-1636.2395"/>
<text text-anchor="middle" x="224.2003" y="-1647" font-family="Times,serif" font-size="14.00" fill="#000000">newGenome</text>
</g>
<!-- p6&#45;&gt;p24 -->
<g id="edge13" class="edge">
<title>p6&#45;&gt;p24</title>
<path fill="none" stroke="#000000" d="M185.6886,-1621.0353C172.5622,-1613.8814 121.7084,-1584.2743 100.0724,-1544 81.9599,-1510.2846 78.9928,-1465.3892 79.2997,-1436.584"/>
<polygon fill="#000000" stroke="#000000" points="82.8035,-1436.4726 79.5529,-1426.3888 75.8056,-1436.2987 82.8035,-1436.4726"/>
<text text-anchor="middle" x="143.2003" y="-1532.8" font-family="Times,serif" font-size="14.00" fill="#000000">newGenome_1</text>
</g>
<!-- p6&#45;&gt;p18 -->
<g id="edge14" class="edge">
<title>p6&#45;&gt;p18</title>
<path fill="none" stroke="#000000" d="M192.4546,-1622.6396C235.1365,-1621.8829 639.8243,-1613.4475 639.8243,-1565.6 639.8243,-1565.6 639.8243,-1565.6 639.8243,-1050.5 639.8243,-1033.5396 638.8919,-1025.8117 625.8243,-1015 605.1765,-997.9167 536.3918,-988.14 487.5374,-983.2005"/>
<polygon fill="#000000" stroke="#000000" points="487.7311,-979.7029 477.4394,-982.219 487.0538,-986.6701 487.7311,-979.7029"/>
<text text-anchor="middle" x="682.2003" y="-1303.8" font-family="Times,serif" font-size="14.00" fill="#000000">newGenome_3</text>
</g>
<!-- p7 -->
<g id="node14" class="node">
<title>p7</title>
<ellipse fill="none" stroke="#000000" cx="188.8243" cy="-1565.6" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="158.4898" y="-1571.9" font-family="Times,serif" font-size="14.00" fill="#000000">splitFasta</text>
</g>
<!-- p6&#45;&gt;p7 -->
<g id="edge12" class="edge">
<title>p6&#45;&gt;p7</title>
<path fill="none" stroke="#000000" d="M188.8243,-1618.9535C188.8243,-1611.0566 188.8243,-1592.3599 188.8243,-1579.3423"/>
<polygon fill="#000000" stroke="#000000" points="192.3244,-1579.1395 188.8243,-1569.1395 185.3244,-1579.1396 192.3244,-1579.1395"/>
<text text-anchor="middle" x="231.2003" y="-1590" font-family="Times,serif" font-size="14.00" fill="#000000">newGenome_2</text>
</g>
<!-- p2 -->
<g id="node5" class="node">
<title>p2</title>
<ellipse fill="#000000" stroke="#000000" cx="645.8243" cy="-763" rx="3.6" ry="3.6"/>
<text text-anchor="middle" x="591.0949" y="-769.4" font-family="Times,serif" font-size="14.00" fill="#000000">Channel.fromPath</text>
</g>
<!-- p3 -->
<g id="node6" class="node">
<title>p3</title>
<ellipse fill="none" stroke="#000000" cx="645.8243" cy="-691.5" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="624.8277" y="-697.8" font-family="Times,serif" font-size="14.00" fill="#000000">flatten</text>
</g>
<!-- p2&#45;&gt;p3 -->
<g id="edge3" class="edge">
<title>p2&#45;&gt;p3</title>
<path fill="none" stroke="#000000" d="M645.8243,-759.1558C645.8243,-749.1704 645.8243,-722.0273 645.8243,-705.3131"/>
<polygon fill="#000000" stroke="#000000" points="649.3244,-705.0213 645.8243,-695.0213 642.3244,-705.0213 649.3244,-705.0213"/>
</g>
<!-- p4 -->
<g id="node7" class="node">
<title>p4</title>
<ellipse fill="none" stroke="#000000" cx="645.8243" cy="-620" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="631.4347" y="-626.3" font-family="Times,serif" font-size="14.00" fill="#000000">into</text>
</g>
<!-- p3&#45;&gt;p4 -->
<g id="edge4" class="edge">
<title>p3&#45;&gt;p4</title>
<path fill="none" stroke="#000000" d="M645.8243,-687.6558C645.8243,-677.6704 645.8243,-650.5273 645.8243,-633.8131"/>
<polygon fill="#000000" stroke="#000000" points="649.3244,-633.5213 645.8243,-623.5213 642.3244,-633.5213 649.3244,-633.5213"/>
<text text-anchor="middle" x="677.5841" y="-658.8" font-family="Times,serif" font-size="14.00" fill="#000000">gffFiles_ch</text>
</g>
<!-- p35 -->
<g id="node8" class="node">
<title>p35</title>
<ellipse fill="none" stroke="#000000" cx="572.8243" cy="-18" rx="58.6378" ry="18"/>
<text text-anchor="middle" x="572.8243" y="-13.8" font-family="Times,serif" font-size="14.00" fill="#000000">compare_gffs</text>
</g>
<!-- p4&#45;&gt;p35 -->
<g id="edge5" class="edge">
<title>p4&#45;&gt;p35</title>
<path fill="none" stroke="#000000" d="M649.0559,-618.0755C662.4394,-609.8341 712.8243,-576.0175 712.8243,-534 712.8243,-534 712.8243,-534 712.8243,-104 712.8243,-64.0676 670.96,-42.0916 633.0174,-30.3746"/>
<polygon fill="#000000" stroke="#000000" points="633.5506,-26.8856 622.9721,-27.4737 631.6084,-33.6108 633.5506,-26.8856"/>
<text text-anchor="middle" x="738.753" y="-314.8" font-family="Times,serif" font-size="14.00" fill="#000000">gffFile_2</text>
</g>
<!-- p27 -->
<g id="node9" class="node">
<title>p27</title>
<ellipse fill="none" stroke="#000000" cx="521.8243" cy="-362" rx="73.9171" ry="18"/>
<text text-anchor="middle" x="521.8243" y="-357.8" font-family="Times,serif" font-size="14.00" fill="#000000">crossmap_liftover</text>
</g>
<!-- p4&#45;&gt;p27 -->
<g id="edge6" class="edge">
<title>p4&#45;&gt;p27</title>
<path fill="none" stroke="#000000" d="M645.8613,-616.4865C646.062,-590.9476 646.1244,-433.8133 617.8243,-398 610.6117,-388.8725 600.8249,-382.0591 590.2484,-376.9731"/>
<polygon fill="#000000" stroke="#000000" points="591.3664,-373.6448 580.7954,-372.9336 588.6156,-380.0817 591.3664,-373.6448"/>
<text text-anchor="middle" x="666.753" y="-486.8" font-family="Times,serif" font-size="14.00" fill="#000000">gffFile_3</text>
</g>
<!-- p4&#45;&gt;p29 -->
<g id="edge7" class="edge">
<title>p4&#45;&gt;p29</title>
<path fill="none" stroke="#000000" d="M642.4711,-618.8186C632.1695,-615.0631 600.4416,-602.5442 579.9669,-584 567.9301,-573.0981 557.9863,-557.1436 551.9934,-546.2059"/>
<polygon fill="#000000" stroke="#000000" points="555.0942,-544.5824 547.3862,-537.3135 548.8788,-547.8027 555.0942,-544.5824"/>
<text text-anchor="middle" x="605.753" y="-572.8" font-family="Times,serif" font-size="14.00" fill="#000000">gffFile_1</text>
</g>
<!-- p28 -->
<g id="node32" class="node">
<title>p28</title>
<ellipse fill="#000000" stroke="#000000" cx="521.8243" cy="-276" rx="1.8" ry="1.8"/>
</g>
<!-- p27&#45;&gt;p28 -->
<g id="edge38" class="edge">
<title>p27&#45;&gt;p28</title>
<path fill="none" stroke="#000000" d="M521.8243,-343.7616C521.8243,-327.0223 521.8243,-302.6886 521.8243,-288.1919"/>
<polygon fill="#000000" stroke="#000000" points="525.3244,-287.8762 521.8243,-277.8762 518.3244,-287.8762 525.3244,-287.8762"/>
<text text-anchor="middle" x="578.0738" y="-314.8" font-family="Times,serif" font-size="14.00" fill="#000000">crossmap_lifted_gff</text>
</g>
<!-- p30 -->
<g id="node33" class="node">
<title>p30</title>
<ellipse fill="none" stroke="#000000" cx="537.8243" cy="-448" rx="57.6688" ry="18"/>
<text text-anchor="middle" x="537.8243" y="-443.8" font-family="Times,serif" font-size="14.00" fill="#000000">normalizeGff</text>
</g>
<!-- p29&#45;&gt;p30 -->
<g id="edge39" class="edge">
<title>p29&#45;&gt;p30</title>
<path fill="none" stroke="#000000" d="M544.4967,-530.6971C542.0623,-524.4424 536.9691,-510.3848 535.1759,-498 534.1548,-490.9482 534.0592,-483.2862 534.401,-476.1276"/>
<polygon fill="#000000" stroke="#000000" points="537.8929,-476.3652 535.1579,-466.1295 530.9129,-475.8367 537.8929,-476.3652"/>
<text text-anchor="middle" x="579.1485" y="-486.8" font-family="Times,serif" font-size="14.00" fill="#000000">normalizeCmds</text>
</g>
<!-- p9 -->
<g id="node16" class="node">
<title>p9</title>
<ellipse fill="none" stroke="#000000" cx="339.8243" cy="-1336.5" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="325.4347" y="-1342.8" font-family="Times,serif" font-size="14.00" fill="#000000">into</text>
</g>
<!-- p8&#45;&gt;p9 -->
<g id="edge16" class="edge">
<title>p8&#45;&gt;p9</title>
<path fill="none" stroke="#000000" d="M339.8243,-1389.9575C339.8243,-1377.694 339.8243,-1361.7112 339.8243,-1350.4269"/>
<polygon fill="#000000" stroke="#000000" points="343.3244,-1350.1316 339.8243,-1340.1316 336.3244,-1350.1317 343.3244,-1350.1316"/>
<text text-anchor="middle" x="363.1588" y="-1360.8" font-family="Times,serif" font-size="14.00" fill="#000000">old_2bit</text>
</g>
<!-- p25 -->
<g id="node29" class="node">
<title>p25</title>
<ellipse fill="none" stroke="#000000" cx="281.8243" cy="-534" rx="42.0524" ry="18"/>
<text text-anchor="middle" x="281.8243" y="-529.8" font-family="Times,serif" font-size="14.00" fill="#000000">chainNet</text>
</g>
<!-- p24&#45;&gt;p25 -->
<g id="edge34" class="edge">
<title>p24&#45;&gt;p25</title>
<path fill="none" stroke="#000000" d="M93.8399,-1390.1635C102.6993,-1376.2587 112.8243,-1356.0836 112.8243,-1336.5 112.8243,-1336.5 112.8243,-1336.5 112.8243,-620 112.8243,-566.564 180.7661,-546.3165 230.4924,-538.6535"/>
<polygon fill="#000000" stroke="#000000" points="231.0702,-542.1067 240.4823,-537.2421 230.091,-535.1755 231.0702,-542.1067"/>
<text text-anchor="middle" x="145.0934" y="-974.8" font-family="Times,serif" font-size="14.00" fill="#000000">chromInfos</text>
</g>
<!-- p19 -->
<g id="node24" class="node">
<title>p19</title>
<ellipse fill="none" stroke="#000000" cx="417.8243" cy="-893" rx="60.4375" ry="18"/>
<text text-anchor="middle" x="417.8243" y="-888.8" font-family="Times,serif" font-size="14.00" fill="#000000">chainSortFirst</text>
</g>
<!-- p18&#45;&gt;p19 -->
<g id="edge27" class="edge">
<title>p18&#45;&gt;p19</title>
<path fill="none" stroke="#000000" d="M432.007,-960.7616C429.5967,-949.2456 426.434,-934.1353 423.7071,-921.1064"/>
<polygon fill="#000000" stroke="#000000" points="427.1106,-920.283 421.6362,-911.2121 420.2591,-921.7171 427.1106,-920.283"/>
<text text-anchor="middle" x="445.7071" y="-931.8" font-family="Times,serif" font-size="14.00" fill="#000000">chains</text>
</g>
<!-- p11 -->
<g id="node15" class="node">
<title>p11</title>
<ellipse fill="none" stroke="#000000" cx="186.8243" cy="-1494" rx="74.9121" ry="18"/>
<text text-anchor="middle" x="186.8243" y="-1489.8" font-family="Times,serif" font-size="14.00" fill="#000000">subRecordChunks</text>
</g>
<!-- p7&#45;&gt;p11 -->
<g id="edge15" class="edge">
<title>p7&#45;&gt;p11</title>
<path fill="none" stroke="#000000" d="M188.7168,-1561.7505C188.5085,-1554.2927 188.0332,-1537.2775 187.6111,-1522.1657"/>
<polygon fill="#000000" stroke="#000000" points="191.1092,-1522.047 187.3313,-1512.1487 184.112,-1522.2425 191.1092,-1522.047"/>
<text text-anchor="middle" x="223.4313" y="-1532.8" font-family="Times,serif" font-size="14.00" fill="#000000">fastaChunks</text>
</g>
<!-- p12 -->
<g id="node20" class="node">
<title>p12</title>
<ellipse fill="none" stroke="#000000" cx="182.8243" cy="-1408" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="191.3761" y="-1414.3" font-family="Times,serif" font-size="14.00" fill="#000000">map</text>
</g>
<!-- p11&#45;&gt;p12 -->
<g id="edge20" class="edge">
<title>p11&#45;&gt;p12</title>
<path fill="none" stroke="#000000" d="M143.3328,-1479.1509C134.1643,-1473.929 125.6466,-1467.0279 120.2657,-1458 99.6687,-1423.4427 165.1415,-1430.4325 170.8243,-1426 172.8937,-1424.386 174.7274,-1422.312 176.2999,-1420.1494"/>
<polygon fill="#000000" stroke="#000000" points="179.465,-1421.6677 181.4415,-1411.2589 173.4053,-1418.1633 179.465,-1421.6677"/>
<text text-anchor="middle" x="177.6036" y="-1446.8" font-family="Times,serif" font-size="14.00" fill="#000000">subsplitFasta_liftUp</text>
</g>
<!-- p10 -->
<g id="node17" class="node">
<title>p10</title>
<ellipse fill="none" stroke="#000000" cx="282.8243" cy="-1265" rx="71.0272" ry="18"/>
<text text-anchor="middle" x="282.8243" y="-1260.8" font-family="Times,serif" font-size="14.00" fill="#000000">constructOocFile</text>
</g>
<!-- p9&#45;&gt;p10 -->
<g id="edge17" class="edge">
<title>p9&#45;&gt;p10</title>
<path fill="none" stroke="#000000" d="M336.14,-1336.1564C326.6043,-1335.0538 301.0328,-1330.698 289.1554,-1315 284.5095,-1308.8597 282.3095,-1301.0326 281.4229,-1293.404"/>
<polygon fill="#000000" stroke="#000000" points="284.913,-1293.1157 280.9216,-1283.3015 277.9216,-1293.4627 284.913,-1293.1157"/>
<text text-anchor="middle" x="320.1588" y="-1303.8" font-family="Times,serif" font-size="14.00" fill="#000000">old_2bit_2</text>
</g>
<!-- p14 -->
<g id="node18" class="node">
<title>p14</title>
<ellipse fill="none" stroke="#000000" cx="375.8243" cy="-1265" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="396.4278" y="-1271.3" font-family="Times,serif" font-size="14.00" fill="#000000">combine</text>
</g>
<!-- p9&#45;&gt;p14 -->
<g id="edge18" class="edge">
<title>p9&#45;&gt;p14</title>
<path fill="none" stroke="#000000" d="M341.9787,-1333.5335C344.876,-1329.4717 350.0945,-1321.8953 353.8243,-1315 360.381,-1302.8787 366.5826,-1288.4082 370.7197,-1278.1608"/>
<polygon fill="#000000" stroke="#000000" points="374.0233,-1279.3234 374.4222,-1268.7361 367.508,-1276.7638 374.0233,-1279.3234"/>
<text text-anchor="middle" x="391.1588" y="-1303.8" font-family="Times,serif" font-size="14.00" fill="#000000">old_2bit_1</text>
</g>
<!-- p15 -->
<g id="node19" class="node">
<title>p15</title>
<ellipse fill="none" stroke="#000000" cx="353.8243" cy="-1193.5" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="326.2208" y="-1199.8" font-family="Times,serif" font-size="14.00" fill="#000000">combine</text>
</g>
<!-- p10&#45;&gt;p15 -->
<g id="edge19" class="edge">
<title>p10&#45;&gt;p15</title>
<path fill="none" stroke="#000000" d="M300.3749,-1247.3258C314.1136,-1233.4904 332.7196,-1214.7533 343.9657,-1203.4281"/>
<polygon fill="#000000" stroke="#000000" points="346.6106,-1205.7318 351.1733,-1196.1697 341.6435,-1200.7994 346.6106,-1205.7318"/>
<text text-anchor="middle" x="341.9313" y="-1217.8" font-family="Times,serif" font-size="14.00" fill="#000000">ooc</text>
</g>
<!-- p14&#45;&gt;p15 -->
<g id="edge23" class="edge">
<title>p14&#45;&gt;p15</title>
<path fill="none" stroke="#000000" d="M374.7632,-1261.5514C371.7795,-1251.8543 363.195,-1223.9547 357.9905,-1207.0401"/>
<polygon fill="#000000" stroke="#000000" points="361.2128,-1205.6109 354.9266,-1197.0824 354.5223,-1207.6695 361.2128,-1205.6109"/>
</g>
<!-- p16 -->
<g id="node22" class="node">
<title>p16</title>
<ellipse fill="none" stroke="#000000" cx="353.8243" cy="-1122" rx="45.4441" ry="18"/>
<text text-anchor="middle" x="353.8243" y="-1117.8" font-family="Times,serif" font-size="14.00" fill="#000000">blat_align</text>
</g>
<!-- p15&#45;&gt;p16 -->
<g id="edge24" class="edge">
<title>p15&#45;&gt;p16</title>
<path fill="none" stroke="#000000" d="M353.8243,-1189.6558C353.8243,-1182.2085 353.8243,-1165.2171 353.8243,-1150.1264"/>
<polygon fill="#000000" stroke="#000000" points="357.3244,-1150.1233 353.8243,-1140.1233 350.3244,-1150.1234 357.3244,-1150.1233"/>
<text text-anchor="middle" x="380.6588" y="-1160.8" font-family="Times,serif" font-size="14.00" fill="#000000">blatCmds</text>
</g>
<!-- p13 -->
<g id="node21" class="node">
<title>p13</title>
<ellipse fill="none" stroke="#000000" cx="178.8243" cy="-1336.5" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="148.8863" y="-1342.8" font-family="Times,serif" font-size="14.00" fill="#000000">transpose</text>
</g>
<!-- p12&#45;&gt;p13 -->
<g id="edge21" class="edge">
<title>p12&#45;&gt;p13</title>
<path fill="none" stroke="#000000" d="M182.6093,-1404.1558C182.0506,-1394.1704 180.5321,-1367.0273 179.5971,-1350.3131"/>
<polygon fill="#000000" stroke="#000000" points="183.0745,-1349.8102 179.0213,-1340.0213 176.0854,-1350.2012 183.0745,-1349.8102"/>
</g>
<!-- p13&#45;&gt;p14 -->
<g id="edge22" class="edge">
<title>p13&#45;&gt;p14</title>
<path fill="none" stroke="#000000" d="M178.5454,-1332.9041C178.1997,-1325.6215 178.5716,-1309.1325 188.0382,-1301 217.6565,-1275.5558 329.016,-1302.5358 362.8243,-1283 365.3359,-1281.5487 367.4942,-1279.3954 369.2899,-1277.0781"/>
<polygon fill="#000000" stroke="#000000" points="372.3043,-1278.8566 374.3981,-1268.4707 366.2846,-1275.284 372.3043,-1278.8566"/>
<text text-anchor="middle" x="234.7174" y="-1303.8" font-family="Times,serif" font-size="14.00" fill="#000000">subFastaChunks</text>
</g>
<!-- p17 -->
<g id="node23" class="node">
<title>p17</title>
<ellipse fill="none" stroke="#000000" cx="386.8243" cy="-1050.5" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="353.7794" y="-1056.8" font-family="Times,serif" font-size="14.00" fill="#000000">collectFile</text>
</g>
<!-- p16&#45;&gt;p17 -->
<g id="edge25" class="edge">
<title>p16&#45;&gt;p17</title>
<path fill="none" stroke="#000000" d="M350.1735,-1103.8448C349.0985,-1093.8676 349.3691,-1081.6051 354.6036,-1072 358.7428,-1064.4048 366.8567,-1059.0143 373.9061,-1055.5304"/>
<polygon fill="#000000" stroke="#000000" points="375.4985,-1058.6586 383.3836,-1051.5822 372.8066,-1052.1969 375.4985,-1058.6586"/>
<text text-anchor="middle" x="396.4347" y="-1074.8" font-family="Times,serif" font-size="14.00" fill="#000000">axtChainCmds</text>
</g>
<!-- p17&#45;&gt;p18 -->
<g id="edge26" class="edge">
<title>p17&#45;&gt;p18</title>
<path fill="none" stroke="#000000" d="M388.9298,-1047.4277C393.9375,-1040.1205 406.9667,-1021.1086 418.0238,-1004.9743"/>
<polygon fill="#000000" stroke="#000000" points="421.1342,-1006.6269 423.9002,-996.3994 415.3601,-1002.6697 421.1342,-1006.6269"/>
</g>
<!-- p20 -->
<g id="node25" class="node">
<title>p20</title>
<ellipse fill="none" stroke="#000000" cx="412.8243" cy="-821.5" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="390.669" y="-827.8" font-family="Times,serif" font-size="14.00" fill="#000000">collect</text>
</g>
<!-- p19&#45;&gt;p20 -->
<g id="edge28" class="edge">
<title>p19&#45;&gt;p20</title>
<path fill="none" stroke="#000000" d="M416.5626,-874.9575C415.705,-862.694 414.5873,-846.7112 413.7982,-835.4269"/>
<polygon fill="#000000" stroke="#000000" points="417.2674,-834.8631 413.0783,-825.1316 410.2845,-835.3515 417.2674,-834.8631"/>
<text text-anchor="middle" x="453.3141" y="-845.8" font-family="Times,serif" font-size="14.00" fill="#000000">sorted_chains</text>
</g>
<!-- p21 -->
<g id="node26" class="node">
<title>p21</title>
<ellipse fill="none" stroke="#000000" cx="403.8243" cy="-763" rx="107.4162" ry="18"/>
<text text-anchor="middle" x="403.8243" y="-758.8" font-family="Times,serif" font-size="14.00" fill="#000000">chainMergeSort_chainSplit</text>
</g>
<!-- p20&#45;&gt;p21 -->
<g id="edge29" class="edge">
<title>p20&#45;&gt;p21</title>
<path fill="none" stroke="#000000" d="M412.2883,-818.0158C411.4566,-812.61 409.7795,-801.7089 408.136,-791.0259"/>
<polygon fill="#000000" stroke="#000000" points="411.5792,-790.3882 406.5992,-781.0368 404.6606,-791.4527 411.5792,-790.3882"/>
</g>
<!-- p22 -->
<g id="node27" class="node">
<title>p22</title>
<ellipse fill="none" stroke="#000000" cx="397.8243" cy="-691.5" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="364.7794" y="-697.8" font-family="Times,serif" font-size="14.00" fill="#000000">collectFile</text>
</g>
<!-- p21&#45;&gt;p22 -->
<g id="edge30" class="edge">
<title>p21&#45;&gt;p22</title>
<path fill="none" stroke="#000000" d="M402.3103,-744.9575C401.2812,-732.694 399.94,-716.7112 398.993,-705.4269"/>
<polygon fill="#000000" stroke="#000000" points="402.4531,-704.8039 398.1291,-695.1316 395.4776,-705.3893 402.4531,-704.8039"/>
<text text-anchor="middle" x="451.4151" y="-715.8" font-family="Times,serif" font-size="14.00" fill="#000000">sortMergedChains</text>
</g>
<!-- p23 -->
<g id="node28" class="node">
<title>p23</title>
<ellipse fill="none" stroke="#000000" cx="394.8243" cy="-620" rx="70.0668" ry="18"/>
<text text-anchor="middle" x="394.8243" y="-615.8" font-family="Times,serif" font-size="14.00" fill="#000000">chainSortSecond</text>
</g>
<!-- p22&#45;&gt;p23 -->
<g id="edge31" class="edge">
<title>p22&#45;&gt;p23</title>
<path fill="none" stroke="#000000" d="M397.663,-687.6558C397.3506,-680.2085 396.6376,-663.2171 396.0045,-648.1264"/>
<polygon fill="#000000" stroke="#000000" points="399.501,-647.9678 395.5847,-638.1233 392.5071,-648.2613 399.501,-647.9678"/>
</g>
<!-- p23&#45;&gt;p25 -->
<g id="edge32" class="edge">
<title>p23&#45;&gt;p25</title>
<path fill="none" stroke="#000000" d="M340.0914,-608.7144C315.4286,-602.4235 290.1862,-593.8691 282.838,-584 278.275,-577.8717 276.7293,-570.0484 276.6657,-562.4196"/>
<polygon fill="#000000" stroke="#000000" points="280.1663,-562.5292 277.3534,-552.3146 273.1824,-562.0538 280.1663,-562.5292"/>
<text text-anchor="middle" x="332.8175" y="-572.8" font-family="Times,serif" font-size="14.00" fill="#000000">allSortedChain_1</text>
</g>
<!-- p26 -->
<g id="node30" class="node">
<title>p26</title>
<ellipse fill="none" stroke="#000000" cx="341.8243" cy="-448" rx="83.0718" ry="18"/>
<text text-anchor="middle" x="341.8243" y="-443.8" font-family="Times,serif" font-size="14.00" fill="#000000">produceLiftOverFile</text>
</g>
<!-- p23&#45;&gt;p26 -->
<g id="edge33" class="edge">
<title>p23&#45;&gt;p26</title>
<path fill="none" stroke="#000000" d="M391.0813,-601.6366C385.4426,-575.1971 373.8146,-525.0693 358.8243,-484 357.7682,-481.1066 356.5647,-478.1297 355.2971,-475.1861"/>
<polygon fill="#000000" stroke="#000000" points="358.4613,-473.6891 351.1313,-466.0391 352.0908,-476.5904 358.4613,-473.6891"/>
<text text-anchor="middle" x="427.8175" y="-529.8" font-family="Times,serif" font-size="14.00" fill="#000000">allSortedChain_2</text>
</g>
<!-- p25&#45;&gt;p26 -->
<g id="edge35" class="edge">
<title>p25&#45;&gt;p26</title>
<path fill="none" stroke="#000000" d="M293.9662,-516.5966C302.3931,-504.5181 313.7757,-488.2031 323.3258,-474.5146"/>
<polygon fill="#000000" stroke="#000000" points="326.436,-476.1734 329.2875,-465.9695 320.6951,-472.1681 326.436,-476.1734"/>
<text text-anchor="middle" x="335.2657" y="-486.8" font-family="Times,serif" font-size="14.00" fill="#000000">netFile</text>
</g>
<!-- p26&#45;&gt;p27 -->
<g id="edge36" class="edge">
<title>p26&#45;&gt;p27</title>
<path fill="none" stroke="#000000" d="M380.7099,-431.9442C393.4585,-426.1863 407.5067,-419.299 419.8243,-412 428.8185,-406.6703 429.6712,-403.2232 438.7276,-398 449.2614,-391.9247 461.0151,-386.2344 472.2901,-381.2509"/>
<polygon fill="#000000" stroke="#000000" points="473.8102,-384.4072 481.6113,-377.2382 471.0423,-377.9776 473.8102,-384.4072"/>
<text text-anchor="middle" x="477.8727" y="-400.8" font-family="Times,serif" font-size="14.00" fill="#000000">liftOverFile_1</text>
</g>
<!-- p31 -->
<g id="node31" class="node">
<title>p31</title>
<ellipse fill="none" stroke="#000000" cx="367.8243" cy="-362" rx="3.5" ry="3.5"/>
<text text-anchor="middle" x="340.2208" y="-368.3" font-family="Times,serif" font-size="14.00" fill="#000000">combine</text>
</g>
<!-- p26&#45;&gt;p31 -->
<g id="edge37" class="edge">
<title>p26&#45;&gt;p31</title>
<path fill="none" stroke="#000000" d="M337.9314,-429.954C336.6052,-420.2366 336.2228,-408.1873 339.7276,-398 343.2741,-387.6917 351.1164,-378.0713 357.6168,-371.3736"/>
<polygon fill="#000000" stroke="#000000" points="360.2697,-373.6815 365.1196,-364.2619 355.4541,-368.601 360.2697,-373.6815"/>
<text text-anchor="middle" x="379.8727" y="-400.8" font-family="Times,serif" font-size="14.00" fill="#000000">liftOverFile_2</text>
</g>
<!-- p32 -->
<g id="node34" class="node">
<title>p32</title>
<ellipse fill="none" stroke="#000000" cx="367.8243" cy="-276" rx="56.0441" ry="18"/>
<text text-anchor="middle" x="367.8243" y="-271.8" font-family="Times,serif" font-size="14.00" fill="#000000">ucsc_liftover</text>
</g>
<!-- p31&#45;&gt;p32 -->
<g id="edge41" class="edge">
<title>p31&#45;&gt;p32</title>
<path fill="none" stroke="#000000" d="M367.8243,-358.3047C367.8243,-349.0934 367.8243,-324.4185 367.8243,-304.4709"/>
<polygon fill="#000000" stroke="#000000" points="371.3244,-304.291 367.8243,-294.291 364.3244,-304.291 371.3244,-304.291"/>
<text text-anchor="middle" x="404.7657" y="-314.8" font-family="Times,serif" font-size="14.00" fill="#000000">liftoverCmds</text>
</g>
<!-- p30&#45;&gt;p31 -->
<g id="edge40" class="edge">
<title>p30&#45;&gt;p31</title>
<path fill="none" stroke="#000000" d="M536.8641,-429.8815C535.3296,-419.1523 531.6163,-406.1124 522.8243,-398 494.7636,-372.1084 476.0024,-388.6929 438.8243,-380 418.7126,-375.2975 395.5407,-369.3164 381.2876,-365.5721"/>
<polygon fill="#000000" stroke="#000000" points="381.9216,-362.1195 371.359,-362.9457 380.1315,-368.8867 381.9216,-362.1195"/>
<text text-anchor="middle" x="572.9049" y="-400.8" font-family="Times,serif" font-size="14.00" fill="#000000">normalizedGff</text>
</g>
<!-- p33 -->
<g id="node35" class="node">
<title>p33</title>
<ellipse fill="none" stroke="#000000" cx="530.8243" cy="-190" rx="97.0517" ry="18"/>
<text text-anchor="middle" x="530.8243" y="-185.8" font-family="Times,serif" font-size="14.00" fill="#000000">rescue_unlifted_features</text>
</g>
<!-- p32&#45;&gt;p33 -->
<g id="edge42" class="edge">
<title>p32&#45;&gt;p33</title>
<path fill="none" stroke="#000000" d="M420.1324,-269.1764C491.1508,-259.7902 609.6803,-243.6398 612.8243,-240 623.8695,-227.2133 613.3216,-216.715 596.5449,-208.6971"/>
<polygon fill="#000000" stroke="#000000" points="597.8557,-205.451 587.2854,-204.7313 595.0998,-211.8857 597.8557,-205.451"/>
<text text-anchor="middle" x="648.191" y="-228.8" font-family="Times,serif" font-size="14.00" fill="#000000">gffOriginal</text>
</g>
<!-- p32&#45;&gt;p33 -->
<g id="edge44" class="edge">
<title>p32&#45;&gt;p33</title>
<path fill="none" stroke="#000000" d="M363.2387,-257.9196C361.717,-247.4727 361.9368,-234.7152 369.1114,-226 374.6491,-219.2732 411.1745,-210.8489 448.1123,-203.8412"/>
<polygon fill="#000000" stroke="#000000" points="448.813,-207.271 458.0028,-201.9987 447.531,-200.3894 448.813,-207.271"/>
<text text-anchor="middle" x="424.6808" y="-228.8" font-family="Times,serif" font-size="14.00" fill="#000000">ucsc_lifted_gff_ch2</text>
</g>
<!-- p32&#45;&gt;p33 -->
<g id="edge46" class="edge">
<title>p32&#45;&gt;p33</title>
<path fill="none" stroke="#000000" d="M415.3297,-266.2514C436.3906,-260.6063 460.8639,-252.1531 480.8243,-240 491.5294,-233.4821 501.6482,-224.2107 509.9458,-215.4187"/>
<polygon fill="#000000" stroke="#000000" points="512.6336,-217.6646 516.7378,-207.897 507.4382,-212.9733 512.6336,-217.6646"/>
<text text-anchor="middle" x="551.129" y="-228.8" font-family="Times,serif" font-size="14.00" fill="#000000">unmapped_gff_ch2</text>
</g>
<!-- p34 -->
<g id="node36" class="node">
<title>p34</title>
<ellipse fill="none" stroke="#000000" cx="383.8243" cy="-104" rx="37.8999" ry="18"/>
<text text-anchor="middle" x="383.8243" y="-99.8" font-family="Times,serif" font-size="14.00" fill="#000000">sort_gff</text>
</g>
<!-- p32&#45;&gt;p34 -->
<g id="edge43" class="edge">
<title>p32&#45;&gt;p34</title>
<path fill="none" stroke="#000000" d="M324.7599,-264.2243C273.9083,-248.0395 199.6343,-215.861 228.3253,-172 252.2097,-135.4871 300.4902,-118.463 336.9528,-110.5984"/>
<polygon fill="#000000" stroke="#000000" points="337.772,-114.004 346.8936,-108.6145 336.4019,-107.1394 337.772,-114.004"/>
<text text-anchor="middle" x="271.0738" y="-185.8" font-family="Times,serif" font-size="14.00" fill="#000000">ucsc_lifted_gff</text>
</g>
<!-- p32&#45;&gt;p34 -->
<g id="edge45" class="edge">
<title>p32&#45;&gt;p34</title>
<path fill="none" stroke="#000000" d="M358.2333,-258.232C348.2626,-237.4445 335.1779,-202.0443 343.4288,-172 347.6132,-156.7632 356.1976,-141.4851 364.381,-129.2813"/>
<polygon fill="#000000" stroke="#000000" points="367.3243,-131.18 370.2002,-120.9829 361.593,-127.1609 367.3243,-131.18"/>
<text text-anchor="middle" x="384.5221" y="-185.8" font-family="Times,serif" font-size="14.00" fill="#000000">unmapped_gff</text>
</g>
<!-- p33&#45;&gt;p34 -->
<g id="edge47" class="edge">
<title>p33&#45;&gt;p34</title>
<path fill="none" stroke="#000000" d="M501.43,-172.8033C476.954,-158.4841 442.1232,-138.1068 416.7213,-123.2459"/>
<polygon fill="#000000" stroke="#000000" points="418.2248,-120.0705 407.826,-118.0418 414.69,-126.1125 418.2248,-120.0705"/>
<text text-anchor="middle" x="496.7945" y="-142.8" font-family="Times,serif" font-size="14.00" fill="#000000">rescuedGff</text>
</g>
<!-- p34&#45;&gt;p35 -->
<g id="edge48" class="edge">
<title>p34&#45;&gt;p35</title>
<path fill="none" stroke="#000000" d="M411.3065,-91.4949C442.6025,-77.2544 494.1025,-53.8205 530.5257,-37.247"/>
<polygon fill="#000000" stroke="#000000" points="532.2515,-40.3071 539.9039,-32.9797 529.3523,-33.9357 532.2515,-40.3071"/>
<text text-anchor="middle" x="512.8082" y="-56.8" font-family="Times,serif" font-size="14.00" fill="#000000">final_gff</text>
</g>
</g>
</svg>