@jbrowse/bandage-core 10.2.7 → 10.3.0

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 (190) hide show
  1. package/dist/alleleProjection/projectAlleles.js +8 -4
  2. package/dist/anchoredNodes.js +2 -1
  3. package/dist/bubbleSpreads.js +2 -2
  4. package/dist/bubbles/bubbleHalos.js +10 -11
  5. package/dist/bubbles/bubblesFromGraph.js +8 -3
  6. package/dist/bubbles/classifyBubble.js +9 -6
  7. package/dist/bubbles/popBubble.js +7 -5
  8. package/dist/bubbles/superbubbles.js +18 -14
  9. package/dist/chunks/{chunk-RAKOB6IV.js → chunk-234NFZS4.js} +8 -6
  10. package/dist/chunks/{chunk-A4PFFC4Q.js → chunk-2XEQR54X.js} +60 -102
  11. package/dist/chunks/{chunk-6JEWNXCQ.js → chunk-34BOZKIE.js} +0 -2
  12. package/dist/chunks/{chunk-RVS2QCOX.js → chunk-3GLG3ZLE.js} +2 -11
  13. package/dist/chunks/{chunk-PUG7LXDF.js → chunk-3PZSBNLI.js} +4 -1
  14. package/dist/chunks/{chunk-KBEP7VYK.js → chunk-3VCKBSML.js} +4 -4
  15. package/dist/chunks/{chunk-BPLIXMH7.js → chunk-4XWZNPQ2.js} +14 -0
  16. package/dist/chunks/{chunk-LKW2TP4N.js → chunk-5YILQTHE.js} +18 -16
  17. package/dist/chunks/{chunk-B6IW3IRE.js → chunk-65ILXEIN.js} +14 -15
  18. package/dist/chunks/{chunk-4DRQTBBE.js → chunk-6EOB6ANX.js} +1 -1
  19. package/dist/chunks/{chunk-QBHPHLAQ.js → chunk-7JGLJK44.js} +41 -36
  20. package/dist/chunks/{chunk-T2PCSAFY.js → chunk-7XR26JST.js} +2 -2
  21. package/dist/chunks/{chunk-URZ3CH2R.js → chunk-A4JDEUAI.js} +1 -1
  22. package/dist/chunks/{chunk-JLSJMCDJ.js → chunk-A54O52XZ.js} +3 -3
  23. package/dist/chunks/chunk-A55OZVYX.js +327 -0
  24. package/dist/chunks/{chunk-CWFNEKST.js → chunk-A7H753BA.js} +3 -3
  25. package/dist/chunks/{chunk-VV6KGJ7M.js → chunk-AMX4OQAW.js} +18 -27
  26. package/dist/chunks/{chunk-RPRHR56C.js → chunk-BS6HPYCZ.js} +3 -3
  27. package/dist/chunks/chunk-BSOZW3FC.js +30 -0
  28. package/dist/chunks/{chunk-CU6P5RUG.js → chunk-BVYR7IFN.js} +22 -16
  29. package/dist/chunks/{chunk-XXT2JCAC.js → chunk-BX4AUMZE.js} +11 -13
  30. package/dist/chunks/{chunk-N73TI3VG.js → chunk-BZFOFC4D.js} +6 -9
  31. package/dist/chunks/{chunk-4ETPXDO6.js → chunk-CGFPFBT2.js} +1 -1
  32. package/dist/chunks/{chunk-24WITXQY.js → chunk-CGMSKIEO.js} +9 -25
  33. package/dist/chunks/{chunk-IGVV37VI.js → chunk-CKUVEHSS.js} +3 -3
  34. package/dist/chunks/{chunk-JBCZIBFC.js → chunk-CRCD3ODN.js} +0 -1
  35. package/dist/chunks/{chunk-OIV2GBAJ.js → chunk-DBLV7PGG.js} +27 -17
  36. package/dist/chunks/{chunk-JA2HJIYS.js → chunk-E4ZM4OOJ.js} +3 -5
  37. package/dist/chunks/{chunk-ABUIN5AK.js → chunk-EHXBZ5JZ.js} +29 -24
  38. package/dist/chunks/{chunk-QLWI2PZ3.js → chunk-EJRJAAN7.js} +24 -21
  39. package/dist/chunks/{chunk-Q7LYHGGQ.js → chunk-GIHTHYXY.js} +5 -4
  40. package/dist/chunks/{chunk-L3O7AWLI.js → chunk-GJLZ2MKE.js} +2 -2
  41. package/dist/chunks/{chunk-LOEA5IHZ.js → chunk-GJU6BJJA.js} +8 -8
  42. package/dist/chunks/{chunk-XL472HHD.js → chunk-GQZVR5DW.js} +12 -7
  43. package/dist/chunks/{chunk-UVBGRJQX.js → chunk-HKYXWZQS.js} +1 -1
  44. package/dist/chunks/chunk-HMXCN6PG.js +17 -0
  45. package/dist/chunks/{chunk-WSIFAZU7.js → chunk-HNWJ4B7S.js} +12 -13
  46. package/dist/chunks/chunk-HOAIOEI7.js +18 -0
  47. package/dist/chunks/{chunk-XMW266WS.js → chunk-HSVFCA2J.js} +18 -20
  48. package/dist/chunks/{chunk-3XSM4OZU.js → chunk-IYALCKNB.js} +5 -5
  49. package/dist/chunks/{chunk-QXUEF3AJ.js → chunk-KWHWNOTY.js} +22 -17
  50. package/dist/chunks/{chunk-M6LK4GII.js → chunk-LGJBB5BP.js} +8 -9
  51. package/dist/chunks/{chunk-VQWHMWLF.js → chunk-M5NPD55W.js} +18 -14
  52. package/dist/chunks/{chunk-TKIJ5535.js → chunk-MD5VPXXT.js} +6 -6
  53. package/dist/chunks/{chunk-HK5Y2YWV.js → chunk-MYDHU2UV.js} +6 -11
  54. package/dist/chunks/{chunk-TZFWUT2C.js → chunk-MYLAJDKB.js} +2 -2
  55. package/dist/chunks/{chunk-4HWM3FNK.js → chunk-OMUPUB4J.js} +39 -56
  56. package/dist/chunks/{chunk-PTABFYQ7.js → chunk-PFRQBCGC.js} +49 -60
  57. package/dist/chunks/{chunk-T6V4KI2L.js → chunk-PPDE4IVT.js} +1 -1
  58. package/dist/chunks/{chunk-KC7T5RWG.js → chunk-PSCSZSVK.js} +9 -16
  59. package/dist/chunks/{chunk-CG35S2S2.js → chunk-PTQPTDZH.js} +1 -1
  60. package/dist/chunks/{chunk-L2HDM2R3.js → chunk-QQCOVMMT.js} +7 -7
  61. package/dist/chunks/{chunk-CQHUZHET.js → chunk-RFG42VIO.js} +46 -30
  62. package/dist/chunks/{chunk-FYQWPEEY.js → chunk-RJWPJCIB.js} +5 -11
  63. package/dist/chunks/{chunk-AR4BUBMU.js → chunk-RWKP7UO4.js} +34 -35
  64. package/dist/chunks/{chunk-WBSWROE6.js → chunk-SHKGYGM4.js} +14 -18
  65. package/dist/chunks/{chunk-2CMYNW3E.js → chunk-SI3BB4DO.js} +1 -1
  66. package/dist/chunks/{chunk-DY3JCAMX.js → chunk-SOMZGDVS.js} +7 -16
  67. package/dist/chunks/{chunk-EFQLEGWM.js → chunk-SZHQK6GL.js} +7 -8
  68. package/dist/chunks/{chunk-5GMFEPWR.js → chunk-TCOLHD7N.js} +16 -28
  69. package/dist/chunks/{chunk-XV4P5KEQ.js → chunk-TGUFT6KK.js} +6 -3
  70. package/dist/chunks/{chunk-CM6LO6OC.js → chunk-UAFATXYA.js} +10 -14
  71. package/dist/chunks/{chunk-7SRWJLSC.js → chunk-UBQSRCWR.js} +11 -8
  72. package/dist/chunks/{chunk-RUCH6ZFL.js → chunk-V4YML3GR.js} +2 -1
  73. package/dist/chunks/{chunk-VQC7KELB.js → chunk-V7J6U4XC.js} +11 -3
  74. package/dist/chunks/{chunk-ES2N6V56.js → chunk-VX656OAZ.js} +6 -11
  75. package/dist/chunks/chunk-WA5WNP6V.js +37 -0
  76. package/dist/chunks/{chunk-EQ2NIFRH.js → chunk-WJ4TIAVA.js} +1 -1
  77. package/dist/chunks/{chunk-A7CFWFQS.js → chunk-WONB6LMC.js} +1 -1
  78. package/dist/chunks/{chunk-23YFB5BB.js → chunk-XUT4HXVE.js} +29 -13
  79. package/dist/chunks/{chunk-G45YY72K.js → chunk-Z6XZWPXK.js} +17 -25
  80. package/dist/chunks/{chunk-XI3ZUTWF.js → chunk-ZNJ4JAPT.js} +14 -20
  81. package/dist/chunks/{chunk-AUFAPUO4.js → chunk-ZPBEUOBM.js} +3 -1
  82. package/dist/chunks/{chunk-RAEABQNW.js → chunk-ZPZ7GNBT.js} +1 -0
  83. package/dist/cli/figure.js +59 -56
  84. package/dist/cli/fold.js +19 -17
  85. package/dist/deletionEdges.js +5 -7
  86. package/dist/facetGrid.js +2 -1
  87. package/dist/figure.js +45 -42
  88. package/dist/figureData.js +48 -44
  89. package/dist/figureScene.js +34 -29
  90. package/dist/figureSettings.js +19 -17
  91. package/dist/foldVariants.js +5 -3
  92. package/dist/gbzCut.js +12 -7
  93. package/dist/gbzJoin.js +2 -1
  94. package/dist/gbzWindow.js +11 -6
  95. package/dist/genes/genePins.js +6 -4
  96. package/dist/gfa/gfaConverter.js +7 -5
  97. package/dist/gfa/gfaTables.js +2 -1
  98. package/dist/gfa/graphTables.js +3 -3
  99. package/dist/graphLabels.js +8 -5
  100. package/dist/index.js +88 -85
  101. package/dist/labelLayout.js +12 -9
  102. package/dist/layout/anchoredLayout.js +8 -5
  103. package/dist/layout/drawnScale.js +1 -5
  104. package/dist/layout/forceCache.js +19 -17
  105. package/dist/layout/mergeRuns.js +5 -3
  106. package/dist/layout/orderedLayout.js +5 -2
  107. package/dist/layout/orientToReference.js +3 -2
  108. package/dist/layout/placeOffReference.js +7 -4
  109. package/dist/layout/referenceSeeds.js +6 -4
  110. package/dist/layout/sampleRowLayout.js +8 -5
  111. package/dist/layout/trimToWindow.js +6 -4
  112. package/dist/layout/tubeMapLayout.js +17 -19
  113. package/dist/layout/walkRowDraw.js +18 -17
  114. package/dist/layout/walkRowLayout.js +10 -6
  115. package/dist/layout/walkRows.js +9 -5
  116. package/dist/layout/walkStrip.js +21 -18
  117. package/dist/layoutModes.js +23 -20
  118. package/dist/nodeWidths.js +1 -3
  119. package/dist/pansn.js +5 -1
  120. package/dist/pathAnchoring.js +6 -4
  121. package/dist/pathColors.js +12 -9
  122. package/dist/pathVisits.js +3 -1
  123. package/dist/pipeline.js +18 -16
  124. package/dist/reference.js +5 -3
  125. package/dist/referenceRampCss.js +9 -17
  126. package/dist/referenceSpan.js +4 -2
  127. package/dist/referenceStrip.js +18 -14
  128. package/dist/renderer/Canvas2DRenderer.js +1 -1
  129. package/dist/renderer/GeometryBuilder.js +19 -14
  130. package/dist/renderer/svgCanvas.js +1 -1
  131. package/dist/tubeMap/axis.js +11 -6
  132. package/dist/tubeMap/bundle.js +16 -12
  133. package/dist/tubeMap/coarsen.js +20 -345
  134. package/dist/tubeMap/deviations.js +53 -23
  135. package/dist/tubeMap/draw.js +11 -8
  136. package/dist/tubeMap/frame.js +3 -2
  137. package/dist/tubeMap/genes.js +10 -7
  138. package/dist/tubeMap/mismatches.js +1 -1
  139. package/dist/tubeMap/nodeColors.js +18 -14
  140. package/dist/tubeMap/reads.js +1 -1
  141. package/dist/tubeMap/warp.js +2 -1
  142. package/dist/types/alleleProjection/projectAlleles.d.ts +1 -4
  143. package/dist/types/bubbles/bubbleHalos.d.ts +0 -2
  144. package/dist/types/bubbles/bubblesFromGraph.d.ts +6 -4
  145. package/dist/types/bubbles/classifyBubble.d.ts +2 -1
  146. package/dist/types/deletionEdges.d.ts +0 -8
  147. package/dist/types/figureScene.d.ts +17 -7
  148. package/dist/types/figureSettings.d.ts +2 -0
  149. package/dist/types/gbzCut.d.ts +4 -0
  150. package/dist/types/gbzWindow.d.ts +1 -0
  151. package/dist/types/gfa-core/gfaParser.d.ts +1 -1
  152. package/dist/types/graphLabels.d.ts +2 -1
  153. package/dist/types/layout/drawnScale.d.ts +0 -2
  154. package/dist/types/layout/referenceSeeds.d.ts +2 -1
  155. package/dist/types/layout/tubeMapLayout.d.ts +0 -7
  156. package/dist/types/layout/walkRowDraw.d.ts +0 -1
  157. package/dist/types/layout/walkRowLayout.d.ts +1 -0
  158. package/dist/types/layout/walkRows.d.ts +1 -0
  159. package/dist/types/nodeWidths.d.ts +0 -1
  160. package/dist/types/pansn.d.ts +9 -0
  161. package/dist/types/pathVisits.d.ts +6 -0
  162. package/dist/types/referenceRampCss.d.ts +4 -0
  163. package/dist/types/renderer/Canvas2DRenderer.d.ts +1 -0
  164. package/dist/types/renderer/GeometryBuilder.d.ts +3 -2
  165. package/dist/types/tubeMap/axis.d.ts +3 -1
  166. package/dist/types/tubeMap/coarsen.d.ts +3 -1
  167. package/dist/types/tubeMap/deviations.d.ts +2 -1
  168. package/dist/types/tubeMap/mismatches.d.ts +0 -1
  169. package/dist/types/tubeMap/warp.d.ts +2 -1
  170. package/dist/types/util/SpatialIndex.d.ts +1 -1
  171. package/dist/types/util/geometry.d.ts +4 -0
  172. package/dist/types/util/groups.d.ts +3 -0
  173. package/dist/types/util/hitDetection.d.ts +2 -2
  174. package/dist/types/util/partitionPoint.d.ts +1 -0
  175. package/dist/types/util/weakMemo.d.ts +1 -0
  176. package/dist/types/version.d.ts +1 -1
  177. package/dist/util/SpatialIndex.js +8 -5
  178. package/dist/util/edgeCurves.js +7 -4
  179. package/dist/util/geometry.js +3 -1
  180. package/dist/util/groups.js +10 -0
  181. package/dist/util/hitDetection.js +9 -6
  182. package/dist/util/partitionPoint.js +6 -0
  183. package/dist/util/weakMemo.js +6 -0
  184. package/dist/version.js +1 -1
  185. package/dist/viewport.js +19 -17
  186. package/dist/walkEncoding.js +18 -14
  187. package/dist/walkHighlight.js +19 -15
  188. package/dist/walkKey.js +9 -6
  189. package/package.json +2 -2
  190. package/dist/chunks/chunk-ZY2AFL4Y.js +0 -43
package/dist/index.js CHANGED
@@ -7,32 +7,32 @@ import {
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  tubeMapMismatchAt,
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  tubeMapPicture,
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  tubeMapTrackAt
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- } from "./chunks/chunk-B6IW3IRE.js";
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+ } from "./chunks/chunk-65ILXEIN.js";
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  import {
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  tubeMapFrame,
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  tubeMapNodeAt
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- } from "./chunks/chunk-2CMYNW3E.js";
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+ } from "./chunks/chunk-SI3BB4DO.js";
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  import {
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  drawTubeMapGenes,
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  tubeMapGenes
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- } from "./chunks/chunk-4DRQTBBE.js";
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- import "./chunks/chunk-XXT2JCAC.js";
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+ } from "./chunks/chunk-6EOB6ANX.js";
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+ import "./chunks/chunk-BX4AUMZE.js";
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  import {
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  tubeMapNodeColors
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- } from "./chunks/chunk-T2PCSAFY.js";
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+ } from "./chunks/chunk-7XR26JST.js";
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  import {
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  referenceKnots,
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  warpX
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- } from "./chunks/chunk-HK5Y2YWV.js";
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+ } from "./chunks/chunk-MYDHU2UV.js";
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  import {
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  drawTubeMapRuler,
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  referenceBoxes,
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  rulerBoxes,
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  tubeX
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- } from "./chunks/chunk-XMW266WS.js";
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+ } from "./chunks/chunk-HSVFCA2J.js";
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  import {
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  bundleRoutes
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- } from "./chunks/chunk-5GMFEPWR.js";
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+ } from "./chunks/chunk-TCOLHD7N.js";
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  import {
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  connectorAt,
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  drawLitConnector,
@@ -41,17 +41,17 @@ import {
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  } from "./chunks/chunk-2ZT7ZF7A.js";
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  import {
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  createForceLayoutCache
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- } from "./chunks/chunk-EQ2NIFRH.js";
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+ } from "./chunks/chunk-WJ4TIAVA.js";
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  import {
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  graphBubbles,
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  superbubblesFromGraph
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- } from "./chunks/chunk-ABUIN5AK.js";
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+ } from "./chunks/chunk-EHXBZ5JZ.js";
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  import {
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  bubblesFromGraph
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- } from "./chunks/chunk-CQHUZHET.js";
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+ } from "./chunks/chunk-RFG42VIO.js";
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  import {
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  bubbleSubgraph
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- } from "./chunks/chunk-T6V4KI2L.js";
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+ } from "./chunks/chunk-PPDE4IVT.js";
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  import {
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  genesFromBed,
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  genesFromGff3Lines,
@@ -60,20 +60,20 @@ import {
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  } from "./chunks/chunk-G6UIYQZR.js";
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  import {
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  bubbleHalos
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- } from "./chunks/chunk-JA2HJIYS.js";
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+ } from "./chunks/chunk-E4ZM4OOJ.js";
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  import {
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  BUBBLE_KIND_COLORS,
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  BUBBLE_KIND_NAMES,
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  bubbleSegmentIds,
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  classifyBubble
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- } from "./chunks/chunk-URZ3CH2R.js";
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+ } from "./chunks/chunk-A4JDEUAI.js";
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  import "./chunks/chunk-FX4RDMDN.js";
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  import {
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  REFERENCE_STRIP_ZONE_PX,
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  drawReferenceStrip,
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  referenceStripBlocks,
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  stripBlockAt
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- } from "./chunks/chunk-JLSJMCDJ.js";
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+ } from "./chunks/chunk-A54O52XZ.js";
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  import {
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  LAYOUT_QUALITIES
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  } from "./chunks/chunk-K5SIJGAE.js";
@@ -83,10 +83,10 @@ import {
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  } from "./chunks/chunk-AZFVORTC.js";
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  import {
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  figureSvg
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- } from "./chunks/chunk-QBHPHLAQ.js";
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+ } from "./chunks/chunk-7JGLJK44.js";
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  import {
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  svgCanvas
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- } from "./chunks/chunk-RUCH6ZFL.js";
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+ } from "./chunks/chunk-V4YML3GR.js";
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  import {
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  WALK_STRIP_CEILING_PX,
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  cutsWholeWalks,
@@ -98,7 +98,7 @@ import {
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  walkStripApplies,
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  walkStripFrame,
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  walkStripLabelsTree
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- } from "./chunks/chunk-WBSWROE6.js";
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+ } from "./chunks/chunk-SHKGYGM4.js";
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  import {
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  BAR_PX,
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  CALL_TICK,
@@ -125,10 +125,10 @@ import {
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  walkRowsKey,
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  walkRowsKeyTree,
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  walkRowsTree
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- } from "./chunks/chunk-EFQLEGWM.js";
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+ } from "./chunks/chunk-SZHQK6GL.js";
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  import {
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  Canvas2DRenderer
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- } from "./chunks/chunk-QLWI2PZ3.js";
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+ } from "./chunks/chunk-EJRJAAN7.js";
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  import {
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  getDpr
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  } from "./chunks/chunk-RBCE2OQH.js";
@@ -139,24 +139,18 @@ import {
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  } from "./chunks/chunk-JSUCGZ6K.js";
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  import {
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  genePins
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- } from "./chunks/chunk-RPRHR56C.js";
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- import {
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- RAMP_GRADIENT_CSS,
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- rampHue,
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- rampHueCss,
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- rampStops
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- } from "./chunks/chunk-XL472HHD.js";
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+ } from "./chunks/chunk-BS6HPYCZ.js";
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  import {
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  HALO_FACTOR,
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  LEGEND_INSET_PX,
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  geneCoverageNote,
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  layoutLabels
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- } from "./chunks/chunk-KC7T5RWG.js";
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+ } from "./chunks/chunk-PSCSZSVK.js";
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  import {
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  findHoveredEdge,
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  findHoveredNode
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- } from "./chunks/chunk-4HWM3FNK.js";
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- import "./chunks/chunk-KBEP7VYK.js";
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+ } from "./chunks/chunk-OMUPUB4J.js";
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+ import "./chunks/chunk-3VCKBSML.js";
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  import {
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  el,
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  serializeEl
@@ -164,7 +158,7 @@ import {
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  import {
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  figureData,
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  gfaFigureData
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- } from "./chunks/chunk-VV6KGJ7M.js";
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+ } from "./chunks/chunk-AMX4OQAW.js";
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  import {
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  LAYOUT_ENGINES,
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  layoutEngine
@@ -174,21 +168,21 @@ import {
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  LAYOUT_MODES,
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  layoutModeByValue,
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  modeUsesLayoutEngine
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- } from "./chunks/chunk-TKIJ5535.js";
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- import "./chunks/chunk-LOEA5IHZ.js";
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- import "./chunks/chunk-XI3ZUTWF.js";
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- import "./chunks/chunk-CWFNEKST.js";
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- import "./chunks/chunk-L3O7AWLI.js";
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- import "./chunks/chunk-TZFWUT2C.js";
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+ } from "./chunks/chunk-MD5VPXXT.js";
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+ import "./chunks/chunk-GJU6BJJA.js";
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+ import "./chunks/chunk-ZNJ4JAPT.js";
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+ import "./chunks/chunk-A7H753BA.js";
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+ import "./chunks/chunk-GJLZ2MKE.js";
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+ import "./chunks/chunk-MYLAJDKB.js";
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  import "./chunks/chunk-C44YRP5F.js";
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- import "./chunks/chunk-CM6LO6OC.js";
185
- import "./chunks/chunk-RVS2QCOX.js";
178
+ import "./chunks/chunk-UAFATXYA.js";
179
+ import "./chunks/chunk-3GLG3ZLE.js";
186
180
  import {
187
181
  HPRC_GBZ,
188
182
  cutGbzRegion,
189
183
  openGbz,
190
184
  parseRegion
191
- } from "./chunks/chunk-VQWHMWLF.js";
185
+ } from "./chunks/chunk-M5NPD55W.js";
192
186
  import {
193
187
  compactTables,
194
188
  cutWindowGFA,
@@ -197,11 +191,11 @@ import {
197
191
  referencePathQuery,
198
192
  referenceSamplesOf,
199
193
  resolveReferenceSample
200
- } from "./chunks/chunk-Q7LYHGGQ.js";
201
- import "./chunks/chunk-WSIFAZU7.js";
194
+ } from "./chunks/chunk-GIHTHYXY.js";
195
+ import "./chunks/chunk-HNWJ4B7S.js";
202
196
  import {
203
197
  version
204
- } from "./chunks/chunk-CG35S2S2.js";
198
+ } from "./chunks/chunk-PTQPTDZH.js";
205
199
  import {
206
200
  axisScaleOf,
207
201
  contains,
@@ -209,13 +203,8 @@ import {
209
203
  screenToLayout,
210
204
  viewportOf,
211
205
  zoomAbout
212
- } from "./chunks/chunk-A7CFWFQS.js";
213
- import {
214
- rangeText,
215
- walkKey,
216
- walkPosition
217
- } from "./chunks/chunk-4ETPXDO6.js";
218
- import "./chunks/chunk-23YFB5BB.js";
206
+ } from "./chunks/chunk-WONB6LMC.js";
207
+ import "./chunks/chunk-XUT4HXVE.js";
219
208
  import {
220
209
  layoutGeometryInputs
221
210
  } from "./chunks/chunk-LOCJN3BZ.js";
@@ -223,7 +212,7 @@ import {
223
212
  facetLifts,
224
213
  walkHighlight,
225
214
  walkLift
226
- } from "./chunks/chunk-CU6P5RUG.js";
215
+ } from "./chunks/chunk-BVYR7IFN.js";
227
216
  import {
228
217
  WALK_FIELDS,
229
218
  WALK_SCHEMES,
@@ -231,38 +220,49 @@ import {
231
220
  encodingSwatchCss,
232
221
  resolveEncoding,
233
222
  schemeCss
234
- } from "./chunks/chunk-VQC7KELB.js";
223
+ } from "./chunks/chunk-V7J6U4XC.js";
224
+ import {
225
+ rangeText,
226
+ walkKey,
227
+ walkPosition
228
+ } from "./chunks/chunk-CGFPFBT2.js";
235
229
  import {
236
- REFERENCE_RAMP_MAX_HUE,
237
230
  buildGeometry,
238
231
  computeReferenceRamp
239
- } from "./chunks/chunk-A4PFFC4Q.js";
232
+ } from "./chunks/chunk-2XEQR54X.js";
240
233
  import "./chunks/chunk-G2FD7S3C.js";
241
- import "./chunks/chunk-ZY2AFL4Y.js";
234
+ import {
235
+ RAMP_GRADIENT_CSS,
236
+ REFERENCE_RAMP_MAX_HUE,
237
+ rampHue,
238
+ rampHueCss,
239
+ rampStops
240
+ } from "./chunks/chunk-GQZVR5DW.js";
241
+ import "./chunks/chunk-WA5WNP6V.js";
242
242
  import {
243
243
  walkRowLabels,
244
244
  walkRowsExtent
245
- } from "./chunks/chunk-L2HDM2R3.js";
245
+ } from "./chunks/chunk-QQCOVMMT.js";
246
246
  import {
247
247
  filterSamples,
248
248
  walkRows
249
- } from "./chunks/chunk-LKW2TP4N.js";
249
+ } from "./chunks/chunk-5YILQTHE.js";
250
250
  import {
251
251
  pathColorsLegible,
252
252
  pathLegend,
253
253
  walkLabelsOf
254
- } from "./chunks/chunk-3XSM4OZU.js";
254
+ } from "./chunks/chunk-IYALCKNB.js";
255
255
  import {
256
256
  NODE_WIDTHS,
257
257
  maxNodeWidthPx,
258
258
  meanDepth,
259
259
  nodeInk,
260
260
  nodeWidthPx
261
- } from "./chunks/chunk-JBCZIBFC.js";
261
+ } from "./chunks/chunk-CRCD3ODN.js";
262
262
  import {
263
263
  FIGURE_DEFAULTS,
264
264
  figureSpecSettings
265
- } from "./chunks/chunk-AUFAPUO4.js";
265
+ } from "./chunks/chunk-ZPBEUOBM.js";
266
266
  import {
267
267
  ENGINE_DEFAULTS,
268
268
  FIT_PADDING,
@@ -275,24 +275,20 @@ import {
275
275
  forceLayout,
276
276
  layoutExtent,
277
277
  loadGraph
278
- } from "./chunks/chunk-QXUEF3AJ.js";
279
- import "./chunks/chunk-PUG7LXDF.js";
280
- import "./chunks/chunk-IGVV37VI.js";
278
+ } from "./chunks/chunk-KWHWNOTY.js";
279
+ import "./chunks/chunk-3PZSBNLI.js";
280
+ import "./chunks/chunk-CKUVEHSS.js";
281
281
  import "./chunks/chunk-OPPVSPEF.js";
282
282
  import "./chunks/chunk-VPE4AYP7.js";
283
- import "./chunks/chunk-AR4BUBMU.js";
283
+ import "./chunks/chunk-RWKP7UO4.js";
284
284
  import "./chunks/chunk-QYBZZI5H.js";
285
285
  import "./chunks/chunk-5I3K4R2G.js";
286
286
  import {
287
287
  graphFromTables,
288
288
  graphTablesGFA
289
- } from "./chunks/chunk-OIV2GBAJ.js";
290
- import "./chunks/chunk-M6LK4GII.js";
291
- import {
292
- PathVisits,
293
- PathVisitsBuilder
294
- } from "./chunks/chunk-RAEABQNW.js";
295
- import "./chunks/chunk-ES2N6V56.js";
289
+ } from "./chunks/chunk-DBLV7PGG.js";
290
+ import "./chunks/chunk-LGJBB5BP.js";
291
+ import "./chunks/chunk-VX656OAZ.js";
296
292
  import {
297
293
  WELL_KNOWN_SAMPLES,
298
294
  assemblyWalk,
@@ -302,28 +298,28 @@ import {
302
298
  refNameBinding,
303
299
  referenceLabel,
304
300
  wellKnownSample
305
- } from "./chunks/chunk-RAKOB6IV.js";
301
+ } from "./chunks/chunk-234NFZS4.js";
306
302
  import {
307
303
  gfaTables
308
- } from "./chunks/chunk-G45YY72K.js";
304
+ } from "./chunks/chunk-Z6XZWPXK.js";
309
305
  import {
310
- panSNContig,
311
- panSNHaplotype,
312
- panSNSample
313
- } from "./chunks/chunk-BPLIXMH7.js";
306
+ PathVisits,
307
+ PathVisitsBuilder
308
+ } from "./chunks/chunk-ZPZ7GNBT.js";
314
309
  import {
315
310
  formatBp
316
- } from "./chunks/chunk-PTABFYQ7.js";
311
+ } from "./chunks/chunk-PFRQBCGC.js";
312
+ import "./chunks/chunk-HMXCN6PG.js";
317
313
  import {
318
314
  LABEL_CHAR_PX,
319
315
  LABEL_PAD,
320
316
  LABEL_PX
321
317
  } from "./chunks/chunk-AB35TJST.js";
322
- import "./chunks/chunk-N73TI3VG.js";
318
+ import "./chunks/chunk-BZFOFC4D.js";
323
319
  import {
324
320
  BUBBLE_SPREADS
325
- } from "./chunks/chunk-UVBGRJQX.js";
326
- import "./chunks/chunk-6JEWNXCQ.js";
321
+ } from "./chunks/chunk-HKYXWZQS.js";
322
+ import "./chunks/chunk-34BOZKIE.js";
327
323
  import {
328
324
  COLOR_SCHEMES,
329
325
  resolveColorScheme
@@ -331,12 +327,14 @@ import {
331
327
  import {
332
328
  deletionDrawing,
333
329
  deletionEdges
334
- } from "./chunks/chunk-24WITXQY.js";
335
- import "./chunks/chunk-7SRWJLSC.js";
330
+ } from "./chunks/chunk-CGMSKIEO.js";
331
+ import "./chunks/chunk-UBQSRCWR.js";
336
332
  import {
337
333
  ROW_HEIGHT_PX
338
334
  } from "./chunks/chunk-CPMHA4W5.js";
339
- import "./chunks/chunk-FYQWPEEY.js";
335
+ import "./chunks/chunk-BSOZW3FC.js";
336
+ import "./chunks/chunk-RJWPJCIB.js";
337
+ import "./chunks/chunk-HOAIOEI7.js";
340
338
  import {
341
339
  FACET_FIELDS,
342
340
  FACET_GAP_PX,
@@ -345,7 +343,12 @@ import {
345
343
  facetCells,
346
344
  facetGrid,
347
345
  facetSettingOf
348
- } from "./chunks/chunk-XV4P5KEQ.js";
346
+ } from "./chunks/chunk-TGUFT6KK.js";
347
+ import {
348
+ panSNContig,
349
+ panSNHaplotype,
350
+ panSNSample
351
+ } from "./chunks/chunk-4XWZNPQ2.js";
349
352
 
350
353
  // src/index.ts
351
354
  import { stressLayout } from "@jbrowse/graph-stress-layout";
@@ -4,17 +4,20 @@ import {
4
4
  geneCoverageNote,
5
5
  geneLabelCandidates,
6
6
  layoutLabels
7
- } from "./chunks/chunk-KC7T5RWG.js";
8
- import "./chunks/chunk-4HWM3FNK.js";
9
- import "./chunks/chunk-KBEP7VYK.js";
10
- import "./chunks/chunk-ZY2AFL4Y.js";
11
- import "./chunks/chunk-PTABFYQ7.js";
7
+ } from "./chunks/chunk-PSCSZSVK.js";
8
+ import "./chunks/chunk-OMUPUB4J.js";
9
+ import "./chunks/chunk-3VCKBSML.js";
10
+ import "./chunks/chunk-WA5WNP6V.js";
11
+ import "./chunks/chunk-PFRQBCGC.js";
12
+ import "./chunks/chunk-HMXCN6PG.js";
12
13
  import "./chunks/chunk-AB35TJST.js";
13
- import "./chunks/chunk-N73TI3VG.js";
14
- import "./chunks/chunk-24WITXQY.js";
15
- import "./chunks/chunk-7SRWJLSC.js";
14
+ import "./chunks/chunk-BZFOFC4D.js";
15
+ import "./chunks/chunk-CGMSKIEO.js";
16
+ import "./chunks/chunk-UBQSRCWR.js";
16
17
  import "./chunks/chunk-CPMHA4W5.js";
17
- import "./chunks/chunk-FYQWPEEY.js";
18
+ import "./chunks/chunk-BSOZW3FC.js";
19
+ import "./chunks/chunk-RJWPJCIB.js";
20
+ import "./chunks/chunk-HOAIOEI7.js";
18
21
  export {
19
22
  HALO_FACTOR,
20
23
  LEGEND_INSET_PX,
@@ -1,11 +1,14 @@
1
1
  import {
2
2
  anchoredLayout
3
- } from "../chunks/chunk-L3O7AWLI.js";
4
- import "../chunks/chunk-TZFWUT2C.js";
5
- import "../chunks/chunk-RVS2QCOX.js";
6
- import "../chunks/chunk-ES2N6V56.js";
3
+ } from "../chunks/chunk-GJLZ2MKE.js";
4
+ import "../chunks/chunk-MYLAJDKB.js";
5
+ import "../chunks/chunk-3GLG3ZLE.js";
6
+ import "../chunks/chunk-VX656OAZ.js";
7
7
  import "../chunks/chunk-CPMHA4W5.js";
8
- import "../chunks/chunk-FYQWPEEY.js";
8
+ import "../chunks/chunk-BSOZW3FC.js";
9
+ import "../chunks/chunk-RJWPJCIB.js";
10
+ import "../chunks/chunk-HOAIOEI7.js";
11
+ import "../chunks/chunk-4XWZNPQ2.js";
9
12
  export {
10
13
  anchoredLayout
11
14
  };
@@ -1,22 +1,18 @@
1
1
  import {
2
2
  MEAN_NODE_LENGTH,
3
3
  PROPORTIONAL_LENGTH,
4
- PROPORTIONAL_SPREAD,
5
4
  bandageAutoScale,
6
5
  drawnLengthFor,
7
6
  drawnLengthOf,
8
7
  drawnNodeLength,
9
- isProportional,
10
8
  layoutScaling
11
- } from "../chunks/chunk-6JEWNXCQ.js";
9
+ } from "../chunks/chunk-34BOZKIE.js";
12
10
  export {
13
11
  MEAN_NODE_LENGTH,
14
12
  PROPORTIONAL_LENGTH,
15
- PROPORTIONAL_SPREAD,
16
13
  bandageAutoScale,
17
14
  drawnLengthFor,
18
15
  drawnLengthOf,
19
16
  drawnNodeLength,
20
- isProportional,
21
17
  layoutScaling
22
18
  };
@@ -1,27 +1,29 @@
1
1
  import {
2
2
  createForceLayoutCache
3
- } from "../chunks/chunk-EQ2NIFRH.js";
4
- import "../chunks/chunk-QXUEF3AJ.js";
5
- import "../chunks/chunk-PUG7LXDF.js";
6
- import "../chunks/chunk-IGVV37VI.js";
3
+ } from "../chunks/chunk-WJ4TIAVA.js";
4
+ import "../chunks/chunk-KWHWNOTY.js";
5
+ import "../chunks/chunk-3PZSBNLI.js";
6
+ import "../chunks/chunk-CKUVEHSS.js";
7
7
  import "../chunks/chunk-OPPVSPEF.js";
8
8
  import "../chunks/chunk-VPE4AYP7.js";
9
- import "../chunks/chunk-AR4BUBMU.js";
9
+ import "../chunks/chunk-RWKP7UO4.js";
10
10
  import "../chunks/chunk-QYBZZI5H.js";
11
11
  import "../chunks/chunk-5I3K4R2G.js";
12
- import "../chunks/chunk-OIV2GBAJ.js";
13
- import "../chunks/chunk-M6LK4GII.js";
14
- import "../chunks/chunk-RAEABQNW.js";
15
- import "../chunks/chunk-ES2N6V56.js";
16
- import "../chunks/chunk-G45YY72K.js";
17
- import "../chunks/chunk-BPLIXMH7.js";
18
- import "../chunks/chunk-N73TI3VG.js";
19
- import "../chunks/chunk-UVBGRJQX.js";
20
- import "../chunks/chunk-6JEWNXCQ.js";
21
- import "../chunks/chunk-24WITXQY.js";
22
- import "../chunks/chunk-7SRWJLSC.js";
12
+ import "../chunks/chunk-DBLV7PGG.js";
13
+ import "../chunks/chunk-LGJBB5BP.js";
14
+ import "../chunks/chunk-VX656OAZ.js";
15
+ import "../chunks/chunk-Z6XZWPXK.js";
16
+ import "../chunks/chunk-ZPZ7GNBT.js";
17
+ import "../chunks/chunk-BZFOFC4D.js";
18
+ import "../chunks/chunk-HKYXWZQS.js";
19
+ import "../chunks/chunk-34BOZKIE.js";
20
+ import "../chunks/chunk-CGMSKIEO.js";
21
+ import "../chunks/chunk-UBQSRCWR.js";
23
22
  import "../chunks/chunk-CPMHA4W5.js";
24
- import "../chunks/chunk-FYQWPEEY.js";
23
+ import "../chunks/chunk-BSOZW3FC.js";
24
+ import "../chunks/chunk-RJWPJCIB.js";
25
+ import "../chunks/chunk-HOAIOEI7.js";
26
+ import "../chunks/chunk-4XWZNPQ2.js";
25
27
  export {
26
28
  createForceLayoutCache
27
29
  };
@@ -3,10 +3,12 @@ import {
3
3
  polylineMidpoint,
4
4
  polylineSlice,
5
5
  splitRuns
6
- } from "../chunks/chunk-N73TI3VG.js";
7
- import "../chunks/chunk-7SRWJLSC.js";
6
+ } from "../chunks/chunk-BZFOFC4D.js";
7
+ import "../chunks/chunk-UBQSRCWR.js";
8
8
  import "../chunks/chunk-CPMHA4W5.js";
9
- import "../chunks/chunk-FYQWPEEY.js";
9
+ import "../chunks/chunk-BSOZW3FC.js";
10
+ import "../chunks/chunk-RJWPJCIB.js";
11
+ import "../chunks/chunk-HOAIOEI7.js";
10
12
  export {
11
13
  mergeRuns,
12
14
  polylineMidpoint,
@@ -1,9 +1,12 @@
1
1
  import {
2
2
  orderedLayout,
3
3
  referenceOrder
4
- } from "../chunks/chunk-CM6LO6OC.js";
4
+ } from "../chunks/chunk-UAFATXYA.js";
5
+ import "../chunks/chunk-VX656OAZ.js";
5
6
  import "../chunks/chunk-CPMHA4W5.js";
6
- import "../chunks/chunk-FYQWPEEY.js";
7
+ import "../chunks/chunk-BSOZW3FC.js";
8
+ import "../chunks/chunk-RJWPJCIB.js";
9
+ import "../chunks/chunk-HOAIOEI7.js";
7
10
  export {
8
11
  orderedLayout,
9
12
  referenceOrder
@@ -1,7 +1,8 @@
1
1
  import {
2
2
  orientToReference
3
- } from "../chunks/chunk-PUG7LXDF.js";
4
- import "../chunks/chunk-FYQWPEEY.js";
3
+ } from "../chunks/chunk-3PZSBNLI.js";
4
+ import "../chunks/chunk-RJWPJCIB.js";
5
+ import "../chunks/chunk-HOAIOEI7.js";
5
6
  export {
6
7
  orientToReference
7
8
  };
@@ -1,9 +1,12 @@
1
1
  import {
2
2
  placeOffReference
3
- } from "../chunks/chunk-TZFWUT2C.js";
4
- import "../chunks/chunk-RVS2QCOX.js";
5
- import "../chunks/chunk-ES2N6V56.js";
6
- import "../chunks/chunk-FYQWPEEY.js";
3
+ } from "../chunks/chunk-MYLAJDKB.js";
4
+ import "../chunks/chunk-3GLG3ZLE.js";
5
+ import "../chunks/chunk-VX656OAZ.js";
6
+ import "../chunks/chunk-BSOZW3FC.js";
7
+ import "../chunks/chunk-RJWPJCIB.js";
8
+ import "../chunks/chunk-HOAIOEI7.js";
9
+ import "../chunks/chunk-4XWZNPQ2.js";
7
10
  export {
8
11
  placeOffReference
9
12
  };
@@ -1,10 +1,12 @@
1
1
  import {
2
2
  referenceSeeds,
3
3
  seededNodes
4
- } from "../chunks/chunk-IGVV37VI.js";
5
- import "../chunks/chunk-ES2N6V56.js";
6
- import "../chunks/chunk-6JEWNXCQ.js";
7
- import "../chunks/chunk-FYQWPEEY.js";
4
+ } from "../chunks/chunk-CKUVEHSS.js";
5
+ import "../chunks/chunk-VX656OAZ.js";
6
+ import "../chunks/chunk-34BOZKIE.js";
7
+ import "../chunks/chunk-BSOZW3FC.js";
8
+ import "../chunks/chunk-RJWPJCIB.js";
9
+ import "../chunks/chunk-HOAIOEI7.js";
8
10
  export {
9
11
  referenceSeeds,
10
12
  seededNodes
@@ -1,11 +1,14 @@
1
1
  import {
2
2
  sampleRowLayout
3
- } from "../chunks/chunk-LOEA5IHZ.js";
4
- import "../chunks/chunk-TZFWUT2C.js";
5
- import "../chunks/chunk-RVS2QCOX.js";
6
- import "../chunks/chunk-ES2N6V56.js";
3
+ } from "../chunks/chunk-GJU6BJJA.js";
4
+ import "../chunks/chunk-MYLAJDKB.js";
5
+ import "../chunks/chunk-3GLG3ZLE.js";
6
+ import "../chunks/chunk-VX656OAZ.js";
7
7
  import "../chunks/chunk-CPMHA4W5.js";
8
- import "../chunks/chunk-FYQWPEEY.js";
8
+ import "../chunks/chunk-BSOZW3FC.js";
9
+ import "../chunks/chunk-RJWPJCIB.js";
10
+ import "../chunks/chunk-HOAIOEI7.js";
11
+ import "../chunks/chunk-4XWZNPQ2.js";
9
12
  export {
10
13
  sampleRowLayout
11
14
  };
@@ -1,15 +1,17 @@
1
1
  import {
2
2
  pathOrigin,
3
3
  trimOrigins
4
- } from "../chunks/chunk-M6LK4GII.js";
4
+ } from "../chunks/chunk-LGJBB5BP.js";
5
5
  import {
6
6
  PathVisitsBuilder
7
- } from "../chunks/chunk-RAEABQNW.js";
8
- import "../chunks/chunk-BPLIXMH7.js";
7
+ } from "../chunks/chunk-ZPZ7GNBT.js";
8
+ import "../chunks/chunk-BSOZW3FC.js";
9
9
  import {
10
10
  isBackbone,
11
11
  overlapsWindow
12
- } from "../chunks/chunk-FYQWPEEY.js";
12
+ } from "../chunks/chunk-RJWPJCIB.js";
13
+ import "../chunks/chunk-HOAIOEI7.js";
14
+ import "../chunks/chunk-4XWZNPQ2.js";
13
15
 
14
16
  // src/layout/trimToWindow.ts
15
17
  function trimToWindow(graph, window) {