@jbrowse/bandage-core 11.9.0 → 11.11.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (44) hide show
  1. package/dist/chunks/{chunk-3BDQQTXY.js → chunk-4KBZ7WPP.js} +13 -2
  2. package/dist/chunks/{chunk-T2UNTWU5.js → chunk-7553WCL3.js} +6 -6
  3. package/dist/chunks/chunk-DAEEMZ74.js +34 -0
  4. package/dist/chunks/{chunk-UEWIGD52.js → chunk-EB4Q35QD.js} +2 -1
  5. package/dist/chunks/{chunk-ZWBQ4RRK.js → chunk-F47LKG5B.js} +23 -9
  6. package/dist/chunks/{chunk-GDZQFELP.js → chunk-GXCMBPC6.js} +16 -7
  7. package/dist/chunks/{chunk-GYJMPVOU.js → chunk-I5HVXRAO.js} +1 -1
  8. package/dist/chunks/{chunk-3BOREHCJ.js → chunk-JPT44REW.js} +14 -14
  9. package/dist/chunks/{chunk-JO2T77NW.js → chunk-KYTV5EAZ.js} +4 -4
  10. package/dist/chunks/{chunk-VTGQCLGI.js → chunk-LNLYK3Y5.js} +1 -1
  11. package/dist/chunks/{chunk-N3DCLT7M.js → chunk-N4QOWBRR.js} +1 -1
  12. package/dist/chunks/{chunk-2MXFG3W7.js → chunk-PYK4JKYW.js} +1 -0
  13. package/dist/chunks/{chunk-I5CHAYDZ.js → chunk-R36RBFNH.js} +4 -3
  14. package/dist/chunks/{chunk-IXLT3JJX.js → chunk-SVP2CQTA.js} +4 -4
  15. package/dist/cli/figure.js +28 -27
  16. package/dist/edgeWidths.js +10 -0
  17. package/dist/figure.js +13 -12
  18. package/dist/figureData.js +12 -11
  19. package/dist/figureScene.js +7 -6
  20. package/dist/figureSettings.js +1 -1
  21. package/dist/index.js +89 -81
  22. package/dist/layout/walkRowDraw.js +5 -4
  23. package/dist/layout/walkStrip.js +6 -5
  24. package/dist/layoutModes.js +3 -3
  25. package/dist/referenceStrip.js +4 -3
  26. package/dist/renderer/GeometryBuilder.js +3 -2
  27. package/dist/renderer/walkLanes.js +1 -1
  28. package/dist/tubeMap/nodeColors.js +4 -3
  29. package/dist/types/edgeWidths.d.ts +13 -0
  30. package/dist/types/figure.d.ts +2 -0
  31. package/dist/types/figureData.d.ts +1 -1
  32. package/dist/types/figureScene.d.ts +1 -1
  33. package/dist/types/figureSettings.d.ts +2 -0
  34. package/dist/types/index.d.ts +2 -0
  35. package/dist/types/renderer/GeometryBuilder.d.ts +2 -0
  36. package/dist/types/renderer/walkLanes.d.ts +1 -0
  37. package/dist/types/version.d.ts +1 -1
  38. package/dist/types/walkEncoding.d.ts +4 -0
  39. package/dist/types/walkHighlight.d.ts +2 -0
  40. package/dist/version.js +1 -1
  41. package/dist/walkEncoding.js +4 -3
  42. package/dist/walkHighlight.js +5 -4
  43. package/package.json +1 -1
  44. package/dist/chunks/{chunk-ARXDNQLF.js → chunk-WE7CLY2E.js} +3 -3
@@ -367,7 +367,12 @@ function repeats(passes) {
367
367
  }
368
368
  function walkThreads(route, passes, nodePositions, yToX, reach) {
369
369
  if (!repeats(passes)) {
370
- return { span: passes, nodeThreads: /* @__PURE__ */ new Map(), linkThreads: /* @__PURE__ */ new Map() };
370
+ return {
371
+ span: passes,
372
+ nodeThreads: /* @__PURE__ */ new Map(),
373
+ threadPasses: /* @__PURE__ */ new Map(),
374
+ linkThreads: /* @__PURE__ */ new Map()
375
+ };
371
376
  }
372
377
  const index = /* @__PURE__ */ new Map();
373
378
  const ids = [];
@@ -449,12 +454,18 @@ function walkThreads(route, passes, nodePositions, yToX, reach) {
449
454
  });
450
455
  const span = /* @__PURE__ */ new Map();
451
456
  const nodeThreads = /* @__PURE__ */ new Map();
457
+ const threadPasses = /* @__PURE__ */ new Map();
452
458
  ids.forEach((id, k) => {
453
459
  span.set(id, widths[k]);
454
460
  nodeThreads.set(
455
461
  id,
456
462
  taken[k] ? [...taken[k]].sort((a, b) => a - b) : ONE_THREAD
457
463
  );
464
+ const passOf = [];
465
+ threadOf[k]?.forEach((thread, visit) => {
466
+ passOf[thread] = visit - 1;
467
+ });
468
+ threadPasses.set(id, passOf);
458
469
  });
459
470
  const linkThreads = /* @__PURE__ */ new Map();
460
471
  steps.forEach((nodes, piece) => {
@@ -479,7 +490,7 @@ function walkThreads(route, passes, nodePositions, yToX, reach) {
479
490
  }
480
491
  }
481
492
  });
482
- return { span, nodeThreads, linkThreads };
493
+ return { span, nodeThreads, threadPasses, linkThreads };
483
494
  }
484
495
  function bandSpans(lanes, spans, { reach, taper }) {
485
496
  const out = /* @__PURE__ */ new Map();
@@ -3,7 +3,7 @@ import {
3
3
  } from "./chunk-CO6RGQAD.js";
4
4
  import {
5
5
  layoutModeByValue
6
- } from "./chunk-ARXDNQLF.js";
6
+ } from "./chunk-WE7CLY2E.js";
7
7
  import {
8
8
  parseRegion
9
9
  } from "./chunk-FNDNSDKW.js";
@@ -12,21 +12,21 @@ import {
12
12
  } from "./chunk-HEYIAMTC.js";
13
13
  import {
14
14
  version
15
- } from "./chunk-N3DCLT7M.js";
15
+ } from "./chunk-N4QOWBRR.js";
16
16
  import {
17
17
  axisScaleOf
18
18
  } from "./chunk-3DHGSHC3.js";
19
19
  import {
20
20
  figureScene
21
- } from "./chunk-I5CHAYDZ.js";
21
+ } from "./chunk-R36RBFNH.js";
22
22
  import {
23
23
  encodingStops
24
- } from "./chunk-UEWIGD52.js";
24
+ } from "./chunk-EB4Q35QD.js";
25
25
  import {
26
26
  laneSlideAt,
27
27
  passesKey,
28
28
  threadsPasses
29
- } from "./chunk-3BDQQTXY.js";
29
+ } from "./chunk-4KBZ7WPP.js";
30
30
  import {
31
31
  abgrAlpha,
32
32
  abgrBlue,
@@ -35,7 +35,7 @@ import {
35
35
  } from "./chunk-G2FD7S3C.js";
36
36
  import {
37
37
  FIGURE_DEFAULTS
38
- } from "./chunk-2MXFG3W7.js";
38
+ } from "./chunk-PYK4JKYW.js";
39
39
  import {
40
40
  engineSettingsOf,
41
41
  fitTransform,
@@ -0,0 +1,34 @@
1
+ // src/edgeWidths.ts
2
+ var EDGE_WIDTHS = [
3
+ {
4
+ value: "uniform",
5
+ label: "Uniform",
6
+ description: "Every link the same thickness."
7
+ },
8
+ {
9
+ value: "walks",
10
+ label: "By walks",
11
+ description: "Thicker the more walks take a link, on the square root of its count against the busiest link in the cut. A graph without walks draws uniform."
12
+ }
13
+ ];
14
+ var MIN_FACTOR = 0.5;
15
+ var MAX_FACTOR = 4;
16
+ function busiestEdge(graph) {
17
+ let most = 0;
18
+ for (const edge of graph.edges) {
19
+ most = Math.max(most, edge.pathIds?.length ?? 0);
20
+ }
21
+ return most;
22
+ }
23
+ function edgeWidthFactor(walks, busiest, edgeWidth) {
24
+ if (edgeWidth === "uniform" || busiest === 0) {
25
+ return 1;
26
+ }
27
+ return MIN_FACTOR + (MAX_FACTOR - MIN_FACTOR) * Math.sqrt(walks / busiest);
28
+ }
29
+
30
+ export {
31
+ EDGE_WIDTHS,
32
+ busiestEdge,
33
+ edgeWidthFactor
34
+ };
@@ -1,7 +1,7 @@
1
1
  import {
2
2
  REFERENCE_RAMP_ALT_COLOR,
3
3
  hslToRgb
4
- } from "./chunk-GDZQFELP.js";
4
+ } from "./chunk-GXCMBPC6.js";
5
5
  import {
6
6
  packAbgr
7
7
  } from "./chunk-G2FD7S3C.js";
@@ -23,6 +23,7 @@ var WALK_SCHEMES = [
23
23
  { value: "red", label: "Yellow to red", ends: ["#ffd24a", "#b3121b"] },
24
24
  { value: "purple", label: "Pink to plum", ends: ["#f5a3d8", "#5e1a6e"] },
25
25
  { value: "green", label: "Lime to forest", ends: ["#b6e36c", "#0b5d3b"] },
26
+ { value: "orange", label: "Peach to rust", ends: ["#ffc285", "#8f3a00"] },
26
27
  { value: "rainbow", label: "Rainbow" }
27
28
  ];
28
29
  var FAMILIES = ["blue", "red", "purple", "green"];
@@ -2,10 +2,10 @@ import {
2
2
  encodedColor,
3
3
  resolveEncoding,
4
4
  splitFamilies
5
- } from "./chunk-UEWIGD52.js";
5
+ } from "./chunk-EB4Q35QD.js";
6
6
  import {
7
7
  rampFraction
8
- } from "./chunk-GDZQFELP.js";
8
+ } from "./chunk-GXCMBPC6.js";
9
9
  import {
10
10
  gapParts
11
11
  } from "./chunk-LG2UK4MB.js";
@@ -55,6 +55,7 @@ function highlightOf(graph, name, { byId, edgeAt }) {
55
55
  const nodeIds = /* @__PURE__ */ new Set();
56
56
  const edgeIndexes = /* @__PURE__ */ new Set();
57
57
  const progress = /* @__PURE__ */ new Map();
58
+ const passProgress = /* @__PURE__ */ new Map();
58
59
  const passes = /* @__PURE__ */ new Map();
59
60
  let mostPasses = 1;
60
61
  let before = 0;
@@ -75,8 +76,15 @@ function highlightOf(graph, name, { byId, edgeAt }) {
75
76
  }
76
77
  }
77
78
  const length = lengthOf(id);
79
+ const at = span > 0 ? (before + length / 2) / span : 0;
78
80
  if (!progress.has(id)) {
79
- progress.set(id, span > 0 ? (before + length / 2) / span : 0);
81
+ progress.set(id, at);
82
+ }
83
+ const seen = passProgress.get(id);
84
+ if (seen) {
85
+ seen.push(at);
86
+ } else {
87
+ passProgress.set(id, [at]);
80
88
  }
81
89
  before += length;
82
90
  });
@@ -113,6 +121,7 @@ function highlightOf(graph, name, { byId, edgeAt }) {
113
121
  nodeIds,
114
122
  edgeIndexes,
115
123
  progress,
124
+ passProgress,
116
125
  passes,
117
126
  mostPasses,
118
127
  route: pieces.map((piece) => piece.nodeIds),
@@ -125,12 +134,17 @@ function highlightOf(graph, name, { byId, edgeAt }) {
125
134
  }
126
135
  function laneColors(byId, walk, encoding, ramp) {
127
136
  const colors = /* @__PURE__ */ new Map();
128
- for (const [id, progress] of walk.progress) {
137
+ const passColors = /* @__PURE__ */ new Map();
138
+ for (const [id, progress] of walk.passProgress) {
129
139
  const node = byId.get(id);
130
- const t = encoding.field === "progress" ? progress : ramp && node ? rampFraction(node, ramp) : void 0;
131
- colors.set(id, encodedColor(encoding, t));
140
+ const atNode = ramp && node ? rampFraction(node, ramp) : void 0;
141
+ const each = progress.map(
142
+ (t) => encodedColor(encoding, encoding.field === "progress" ? t : atNode)
143
+ );
144
+ colors.set(id, each[0]);
145
+ passColors.set(id, each);
132
146
  }
133
- return colors;
147
+ return { colors, passColors };
134
148
  }
135
149
  function reversedNodes(graph, byId, walk) {
136
150
  const reversed = /* @__PURE__ */ new Set();
@@ -184,7 +198,7 @@ function walkLift(graph, layers, ramp) {
184
198
  return {
185
199
  ...walk,
186
200
  encoding,
187
- colors: laneColors(index.byId, walk, encoding, ramp),
201
+ ...laneColors(index.byId, walk, encoding, ramp),
188
202
  reversed,
189
203
  reversedBp: bp
190
204
  };
@@ -206,7 +220,7 @@ function facetLifts(graph, lift, layers, ramp) {
206
220
  {
207
221
  ...walk,
208
222
  encoding,
209
- colors: laneColors(byId, walk, encoding, ramp)
223
+ ...laneColors(byId, walk, encoding, ramp)
210
224
  }
211
225
  ],
212
226
  ramp
@@ -7,7 +7,7 @@ import {
7
7
  liftLanes,
8
8
  slotCentres,
9
9
  threadsPasses
10
- } from "./chunk-3BDQQTXY.js";
10
+ } from "./chunk-4KBZ7WPP.js";
11
11
  import {
12
12
  abgrToCssRgba,
13
13
  fadeAbgr,
@@ -53,6 +53,10 @@ import {
53
53
  import {
54
54
  isBackbone
55
55
  } from "./chunk-RJWPJCIB.js";
56
+ import {
57
+ busiestEdge,
58
+ edgeWidthFactor
59
+ } from "./chunk-DAEEMZ74.js";
56
60
 
57
61
  // src/renderer/GeometryBuilder.ts
58
62
  var EDGE_DEFAULT_COLOR = packAbgr(119, 119, 119, 217);
@@ -496,6 +500,7 @@ function buildGeometry(options) {
496
500
  connectorThickness,
497
501
  drawPaths,
498
502
  nodeWidth = "uniform",
503
+ edgeWidth = "uniform",
499
504
  highlight,
500
505
  axis,
501
506
  linearLayout,
@@ -508,6 +513,7 @@ function buildGeometry(options) {
508
513
  version = 0
509
514
  } = options;
510
515
  const depthNorm = nodeWidth === "depth" ? meanDepth(graph) : 0;
516
+ const busiest = edgeWidth === "walks" ? busiestEdge(graph) : 0;
511
517
  const scale = axis.scaleX;
512
518
  const worldPerScreenPx = 1 / Math.max(scale, MIN_SCALE_FOR_OFFSET);
513
519
  const yToX = yToXOf(axis);
@@ -621,6 +627,7 @@ function buildGeometry(options) {
621
627
  const turned = back.map(([a, b]) => [b, a]);
622
628
  return ahead ? [...ahead, ...turned] : turned;
623
629
  };
630
+ const threadColor = (lane, nodeId, thread) => liftedWalks[lane]?.passColors.get(nodeId)?.[threads?.[lane]?.threadPasses.get(nodeId)?.[thread] ?? 0];
624
631
  const lanePointsOf = (nodeId, segments) => lines?.shifts.has(nodeId) ? segments.map((p, i) => {
625
632
  const { dx, dy } = laneShiftOf(nodeId, i);
626
633
  return { ...p, x: p.x + dx, y: p.y + dy };
@@ -638,7 +645,8 @@ function buildGeometry(options) {
638
645
  const bypassed = deletions?.get(ei);
639
646
  const isDeletion = bypassed !== void 0;
640
647
  const onWalk = highlight?.edgeIndexes.has(ei) ?? false;
641
- const edgeThickness = connectorThickness / 2 * (isDeletion ? DELETION_THICKNESS_FACTOR : 1);
648
+ const ribbonThickness = connectorThickness / 2 * (isDeletion ? DELETION_THICKNESS_FACTOR : 1);
649
+ const edgeThickness = isDeletion ? ribbonThickness : connectorThickness / 2 * edgeWidthFactor(numPaths, busiest, edgeWidth);
642
650
  const ribbons = drawPaths && numPaths > 0;
643
651
  const plainEdgeColor = isDeletion ? EDGE_DELETION_COLOR : EDGE_DEFAULT_COLOR;
644
652
  const edgeColor = !highlight || onWalk ? plainEdgeColor : fadeAbgr(plainEdgeColor, FADED_ALPHA);
@@ -691,7 +699,7 @@ function buildGeometry(options) {
691
699
  const arrowOn = (curves) => {
692
700
  const head = showArrows ? arrowheadFor({
693
701
  curves,
694
- edgeHalfWidth: connectorThickness / 2,
702
+ edgeHalfWidth: isDeletion || ribbons ? connectorThickness / 2 : edgeThickness,
695
703
  nodeHalfWidth: intoHalfWidth,
696
704
  scale,
697
705
  yToX,
@@ -746,7 +754,7 @@ function buildGeometry(options) {
746
754
  laneStroke(
747
755
  curves,
748
756
  thickness,
749
- walk.colors.get(edge.from) ?? walk.colors.get(edge.to) ?? plainEdgeColor,
757
+ threadColor(lane, edge.from, pass) ?? threadColor(lane, edge.to, toPass) ?? plainEdgeColor,
750
758
  lane,
751
759
  pass,
752
760
  from.normal,
@@ -782,7 +790,7 @@ function buildGeometry(options) {
782
790
  const ribbonColor = pathColorByName(edge.pathIds[pathIdx]);
783
791
  stroke(
784
792
  curves,
785
- edgeThickness,
793
+ ribbonThickness,
786
794
  highlight && (highlight.walks.length ? !highlight.names.has(edge.pathIds[pathIdx]) : !onWalk) ? fadeAbgr(ribbonColor, FADED_ALPHA) : ribbonColor
787
795
  );
788
796
  if (pathIdx === arrowRibbon) {
@@ -834,11 +842,12 @@ function buildGeometry(options) {
834
842
  }
835
843
  const onThreads = threads?.[lane]?.nodeThreads.get(nodeId) ?? ONE_PASS;
836
844
  for (const pass of onThreads) {
845
+ const color2 = threadColor(lane, nodeId, pass) ?? laneColor;
837
846
  if (lanes.length === 1) {
838
847
  nodeStrokes.push({
839
848
  points: segments,
840
849
  thickness,
841
- color: laneColor,
850
+ color: color2,
842
851
  walk: lane,
843
852
  pass
844
853
  });
@@ -848,7 +857,7 @@ function buildGeometry(options) {
848
857
  nodeStrokes.push({
849
858
  points: offsetPolyline(points, normals, offsetX, yToX),
850
859
  thickness,
851
- color: laneColor,
860
+ color: color2,
852
861
  walk: lane,
853
862
  pass,
854
863
  normals,
@@ -1,7 +1,7 @@
1
1
  import {
2
2
  computeColorSchemeRange,
3
3
  getNodeColor
4
- } from "./chunk-GDZQFELP.js";
4
+ } from "./chunk-GXCMBPC6.js";
5
5
  import {
6
6
  abgrToCssRgba
7
7
  } from "./chunk-G2FD7S3C.js";
@@ -1,19 +1,19 @@
1
+ import {
2
+ svgCanvas
3
+ } from "./chunk-V4YML3GR.js";
1
4
  import {
2
5
  stripGeneGaps,
3
6
  walkStripFrame,
4
7
  walkStripLabelsTree
5
- } from "./chunk-JO2T77NW.js";
8
+ } from "./chunk-KYTV5EAZ.js";
6
9
  import {
7
10
  Canvas2DRenderer
8
11
  } from "./chunk-4DMSPNYV.js";
9
- import {
10
- svgCanvas
11
- } from "./chunk-V4YML3GR.js";
12
12
  import {
13
13
  walkRowsKey,
14
14
  walkRowsKeyTree,
15
15
  walkRowsTree
16
- } from "./chunk-IXLT3JJX.js";
16
+ } from "./chunk-SVP2CQTA.js";
17
17
  import {
18
18
  EXON_COLOR,
19
19
  exonOutlineTree,
@@ -25,30 +25,26 @@ import {
25
25
  import {
26
26
  nodesUnderBox
27
27
  } from "./chunk-4JDO7ZLN.js";
28
- import {
29
- escapeAttr,
30
- serializeEl
31
- } from "./chunk-H2H4Y3TV.js";
32
28
  import {
33
29
  genePins
34
30
  } from "./chunk-HEYIAMTC.js";
35
31
  import {
36
32
  version
37
- } from "./chunk-N3DCLT7M.js";
33
+ } from "./chunk-N4QOWBRR.js";
38
34
  import {
39
35
  axisScaleOf
40
36
  } from "./chunk-3DHGSHC3.js";
41
37
  import {
42
38
  figureScene
43
- } from "./chunk-I5CHAYDZ.js";
39
+ } from "./chunk-R36RBFNH.js";
44
40
  import {
45
41
  encodingStops
46
- } from "./chunk-UEWIGD52.js";
42
+ } from "./chunk-EB4Q35QD.js";
47
43
  import {
48
44
  THREAD_PX,
49
45
  passesKey,
50
46
  threadsPasses
51
- } from "./chunk-3BDQQTXY.js";
47
+ } from "./chunk-4KBZ7WPP.js";
52
48
  import {
53
49
  rangeText
54
50
  } from "./chunk-IZKM4NY7.js";
@@ -60,7 +56,7 @@ import {
60
56
  } from "./chunk-ZANALBSX.js";
61
57
  import {
62
58
  FIGURE_DEFAULTS
63
- } from "./chunk-2MXFG3W7.js";
59
+ } from "./chunk-PYK4JKYW.js";
64
60
  import {
65
61
  FIT_PADDING,
66
62
  fitTransform
@@ -72,6 +68,10 @@ import {
72
68
  occupancy,
73
69
  placeLabels
74
70
  } from "./chunk-AB35TJST.js";
71
+ import {
72
+ escapeAttr,
73
+ serializeEl
74
+ } from "./chunk-H2H4Y3TV.js";
75
75
  import {
76
76
  FACET_GAP_PX,
77
77
  FACET_PAD_PX,
@@ -3,10 +3,7 @@ import {
3
3
  boxesGenes,
4
4
  rowPitch,
5
5
  rowSpan
6
- } from "./chunk-IXLT3JJX.js";
7
- import {
8
- el
9
- } from "./chunk-H2H4Y3TV.js";
6
+ } from "./chunk-SVP2CQTA.js";
10
7
  import {
11
8
  READOUT_ROOM,
12
9
  longestBar
@@ -20,6 +17,9 @@ import {
20
17
  import {
21
18
  partitionPoint
22
19
  } from "./chunk-HOAIOEI7.js";
20
+ import {
21
+ el
22
+ } from "./chunk-H2H4Y3TV.js";
23
23
 
24
24
  // src/layout/walkStrip.ts
25
25
  function walkStripApplies(o) {
@@ -2,7 +2,7 @@ import {
2
2
  LIFT_BACKDROP_CSS,
3
3
  computeColorSchemeRange,
4
4
  getNodeColor
5
- } from "./chunk-GDZQFELP.js";
5
+ } from "./chunk-GXCMBPC6.js";
6
6
  import {
7
7
  abgrToCssRgba
8
8
  } from "./chunk-G2FD7S3C.js";
@@ -1,5 +1,5 @@
1
1
  // src/version.ts
2
- var version = "11.9.0";
2
+ var version = "11.11.0";
3
3
 
4
4
  export {
5
5
  version
@@ -9,6 +9,7 @@ var FIGURE_DEFAULTS = {
9
9
  height: 800,
10
10
  colorScheme: "auto",
11
11
  nodeWidth: "depth",
12
+ edgeWidth: "uniform",
12
13
  contigThickness: 6,
13
14
  connectorThickness: 2
14
15
  };
@@ -4,11 +4,11 @@ import {
4
4
  import {
5
5
  facetLifts,
6
6
  walkLift
7
- } from "./chunk-ZWBQ4RRK.js";
7
+ } from "./chunk-F47LKG5B.js";
8
8
  import {
9
9
  buildGeometry,
10
10
  computeReferenceRamp
11
- } from "./chunk-GDZQFELP.js";
11
+ } from "./chunk-GXCMBPC6.js";
12
12
  import {
13
13
  walkKey
14
14
  } from "./chunk-IZKM4NY7.js";
@@ -21,7 +21,7 @@ import {
21
21
  } from "./chunk-VQ353UDK.js";
22
22
  import {
23
23
  FIGURE_DEFAULTS
24
- } from "./chunk-2MXFG3W7.js";
24
+ } from "./chunk-PYK4JKYW.js";
25
25
  import {
26
26
  drawingBounds
27
27
  } from "./chunk-JVT3XTKN.js";
@@ -110,6 +110,7 @@ function figureScene(graph, layout, o) {
110
110
  connectorThickness: o.connectorThickness ?? FIGURE_DEFAULTS.connectorThickness,
111
111
  drawPaths: false,
112
112
  nodeWidth,
113
+ edgeWidth: o.edgeWidth ?? FIGURE_DEFAULTS.edgeWidth,
113
114
  linearLayout: o.linearLayout,
114
115
  highlight,
115
116
  axis,
@@ -1,9 +1,6 @@
1
- import {
2
- el
3
- } from "./chunk-H2H4Y3TV.js";
4
1
  import {
5
2
  REFERENCE_RAMP_ALT_CSS
6
- } from "./chunk-GDZQFELP.js";
3
+ } from "./chunk-GXCMBPC6.js";
7
4
  import {
8
5
  RAMP_GRADIENT_CSS,
9
6
  RAMP_GRADIENT_STOPS,
@@ -20,6 +17,9 @@ import {
20
17
  import {
21
18
  ROW_HEIGHT_PX
22
19
  } from "./chunk-CPMHA4W5.js";
20
+ import {
21
+ el
22
+ } from "./chunk-H2H4Y3TV.js";
23
23
  import {
24
24
  panSNContig
25
25
  } from "./chunk-2JL2JVZ2.js";
@@ -6,41 +6,25 @@ import {
6
6
  backboneGenes
7
7
  } from "../chunks/chunk-376YFQOY.js";
8
8
  import "../chunks/chunk-EQDQ7P4Y.js";
9
- import {
10
- figureSvg
11
- } from "../chunks/chunk-3BOREHCJ.js";
12
- import "../chunks/chunk-JO2T77NW.js";
13
- import "../chunks/chunk-4DMSPNYV.js";
14
- import "../chunks/chunk-RBCE2OQH.js";
15
- import "../chunks/chunk-V4YML3GR.js";
16
- import {
17
- genesOnRow,
18
- placeRowGenes
19
- } from "../chunks/chunk-IXLT3JJX.js";
20
- import "../chunks/chunk-JSUCGZ6K.js";
21
- import "../chunks/chunk-TQ26XEFL.js";
22
- import "../chunks/chunk-4JDO7ZLN.js";
23
- import "../chunks/chunk-7YSIP3O2.js";
24
- import "../chunks/chunk-H2H4Y3TV.js";
25
9
  import {
26
10
  laidOutGraph,
27
11
  walkLayers
28
- } from "../chunks/chunk-T2UNTWU5.js";
12
+ } from "../chunks/chunk-7553WCL3.js";
29
13
  import {
30
14
  LAYOUT_ENGINE_VALUES,
31
15
  isLayoutEngineKind
32
16
  } from "../chunks/chunk-CO6RGQAD.js";
33
17
  import {
34
18
  LAYOUT_MODES
35
- } from "../chunks/chunk-ARXDNQLF.js";
19
+ } from "../chunks/chunk-WE7CLY2E.js";
20
+ import "../chunks/chunk-XR2HMGAS.js";
36
21
  import "../chunks/chunk-BDS5VZYZ.js";
37
22
  import "../chunks/chunk-KKHXMJEE.js";
38
- import "../chunks/chunk-XR2HMGAS.js";
39
23
  import "../chunks/chunk-GJLZ2MKE.js";
40
24
  import "../chunks/chunk-MYLAJDKB.js";
41
25
  import "../chunks/chunk-5OJZV6YT.js";
42
- import "../chunks/chunk-UAFATXYA.js";
43
26
  import "../chunks/chunk-3GLG3ZLE.js";
27
+ import "../chunks/chunk-UAFATXYA.js";
44
28
  import {
45
29
  cutGbzRegion,
46
30
  gbzLocations,
@@ -50,15 +34,30 @@ import {
50
34
  } from "../chunks/chunk-FNDNSDKW.js";
51
35
  import "../chunks/chunk-ZKSC7QVE.js";
52
36
  import "../chunks/chunk-HNWJ4B7S.js";
37
+ import {
38
+ figureSvg
39
+ } from "../chunks/chunk-JPT44REW.js";
40
+ import "../chunks/chunk-V4YML3GR.js";
41
+ import "../chunks/chunk-KYTV5EAZ.js";
42
+ import "../chunks/chunk-4DMSPNYV.js";
43
+ import "../chunks/chunk-RBCE2OQH.js";
44
+ import {
45
+ genesOnRow,
46
+ placeRowGenes
47
+ } from "../chunks/chunk-SVP2CQTA.js";
48
+ import "../chunks/chunk-JSUCGZ6K.js";
49
+ import "../chunks/chunk-TQ26XEFL.js";
50
+ import "../chunks/chunk-4JDO7ZLN.js";
51
+ import "../chunks/chunk-7YSIP3O2.js";
53
52
  import "../chunks/chunk-HEYIAMTC.js";
54
- import "../chunks/chunk-N3DCLT7M.js";
53
+ import "../chunks/chunk-N4QOWBRR.js";
55
54
  import "../chunks/chunk-3DHGSHC3.js";
56
- import "../chunks/chunk-I5CHAYDZ.js";
55
+ import "../chunks/chunk-R36RBFNH.js";
57
56
  import "../chunks/chunk-LOCJN3BZ.js";
58
- import "../chunks/chunk-ZWBQ4RRK.js";
59
- import "../chunks/chunk-UEWIGD52.js";
60
- import "../chunks/chunk-GDZQFELP.js";
61
- import "../chunks/chunk-3BDQQTXY.js";
57
+ import "../chunks/chunk-F47LKG5B.js";
58
+ import "../chunks/chunk-EB4Q35QD.js";
59
+ import "../chunks/chunk-GXCMBPC6.js";
60
+ import "../chunks/chunk-4KBZ7WPP.js";
62
61
  import "../chunks/chunk-G2FD7S3C.js";
63
62
  import "../chunks/chunk-IZKM4NY7.js";
64
63
  import "../chunks/chunk-GQZVR5DW.js";
@@ -71,7 +70,7 @@ import {
71
70
  import "../chunks/chunk-LODKC7PJ.js";
72
71
  import "../chunks/chunk-VQ353UDK.js";
73
72
  import "../chunks/chunk-ZANALBSX.js";
74
- import "../chunks/chunk-2MXFG3W7.js";
73
+ import "../chunks/chunk-PYK4JKYW.js";
75
74
  import "../chunks/chunk-JVT3XTKN.js";
76
75
  import "../chunks/chunk-OPPVSPEF.js";
77
76
  import "../chunks/chunk-NAYS472K.js";
@@ -101,6 +100,8 @@ import "../chunks/chunk-ZPZ7GNBT.js";
101
100
  import "../chunks/chunk-BSOZW3FC.js";
102
101
  import "../chunks/chunk-RJWPJCIB.js";
103
102
  import "../chunks/chunk-HOAIOEI7.js";
103
+ import "../chunks/chunk-DAEEMZ74.js";
104
+ import "../chunks/chunk-H2H4Y3TV.js";
104
105
  import "../chunks/chunk-BLUEFYIR.js";
105
106
  import "../chunks/chunk-2JL2JVZ2.js";
106
107
 
@@ -0,0 +1,10 @@
1
+ import {
2
+ EDGE_WIDTHS,
3
+ busiestEdge,
4
+ edgeWidthFactor
5
+ } from "./chunks/chunk-DAEEMZ74.js";
6
+ export {
7
+ EDGE_WIDTHS,
8
+ busiestEdge,
9
+ edgeWidthFactor
10
+ };
package/dist/figure.js CHANGED
@@ -1,25 +1,24 @@
1
1
  import {
2
2
  figureSvg
3
- } from "./chunks/chunk-3BOREHCJ.js";
4
- import "./chunks/chunk-JO2T77NW.js";
3
+ } from "./chunks/chunk-JPT44REW.js";
4
+ import "./chunks/chunk-V4YML3GR.js";
5
+ import "./chunks/chunk-KYTV5EAZ.js";
5
6
  import "./chunks/chunk-4DMSPNYV.js";
6
7
  import "./chunks/chunk-RBCE2OQH.js";
7
- import "./chunks/chunk-V4YML3GR.js";
8
- import "./chunks/chunk-IXLT3JJX.js";
8
+ import "./chunks/chunk-SVP2CQTA.js";
9
9
  import "./chunks/chunk-JSUCGZ6K.js";
10
10
  import "./chunks/chunk-TQ26XEFL.js";
11
11
  import "./chunks/chunk-4JDO7ZLN.js";
12
12
  import "./chunks/chunk-7YSIP3O2.js";
13
- import "./chunks/chunk-H2H4Y3TV.js";
14
13
  import "./chunks/chunk-HEYIAMTC.js";
15
- import "./chunks/chunk-N3DCLT7M.js";
14
+ import "./chunks/chunk-N4QOWBRR.js";
16
15
  import "./chunks/chunk-3DHGSHC3.js";
17
- import "./chunks/chunk-I5CHAYDZ.js";
16
+ import "./chunks/chunk-R36RBFNH.js";
18
17
  import "./chunks/chunk-LOCJN3BZ.js";
19
- import "./chunks/chunk-ZWBQ4RRK.js";
20
- import "./chunks/chunk-UEWIGD52.js";
21
- import "./chunks/chunk-GDZQFELP.js";
22
- import "./chunks/chunk-3BDQQTXY.js";
18
+ import "./chunks/chunk-F47LKG5B.js";
19
+ import "./chunks/chunk-EB4Q35QD.js";
20
+ import "./chunks/chunk-GXCMBPC6.js";
21
+ import "./chunks/chunk-4KBZ7WPP.js";
23
22
  import "./chunks/chunk-G2FD7S3C.js";
24
23
  import "./chunks/chunk-IZKM4NY7.js";
25
24
  import "./chunks/chunk-GQZVR5DW.js";
@@ -29,7 +28,7 @@ import "./chunks/chunk-C3KAPREU.js";
29
28
  import "./chunks/chunk-LODKC7PJ.js";
30
29
  import "./chunks/chunk-VQ353UDK.js";
31
30
  import "./chunks/chunk-ZANALBSX.js";
32
- import "./chunks/chunk-2MXFG3W7.js";
31
+ import "./chunks/chunk-PYK4JKYW.js";
33
32
  import "./chunks/chunk-JVT3XTKN.js";
34
33
  import "./chunks/chunk-OPPVSPEF.js";
35
34
  import "./chunks/chunk-NAYS472K.js";
@@ -59,6 +58,8 @@ import "./chunks/chunk-ZPZ7GNBT.js";
59
58
  import "./chunks/chunk-BSOZW3FC.js";
60
59
  import "./chunks/chunk-RJWPJCIB.js";
61
60
  import "./chunks/chunk-HOAIOEI7.js";
61
+ import "./chunks/chunk-DAEEMZ74.js";
62
+ import "./chunks/chunk-H2H4Y3TV.js";
62
63
  import "./chunks/chunk-BLUEFYIR.js";
63
64
  import "./chunks/chunk-2JL2JVZ2.js";
64
65
  export {