@jbrowse/bandage-core 11.7.3 → 11.8.0

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 (99) hide show
  1. package/README.md +59 -19
  2. package/dist/bubbles/bubbleHalos.js +6 -6
  3. package/dist/bubbles/classifyBubble.js +5 -5
  4. package/dist/bubbles/superbubbles.js +7 -7
  5. package/dist/chunks/{chunk-ZZZ6NVLW.js → chunk-22ZMVREZ.js} +1 -1
  6. package/dist/chunks/{chunk-VXKL2ZLR.js → chunk-2H3ALI6L.js} +223 -45
  7. package/dist/chunks/{chunk-F4CDC72I.js → chunk-2RCKHCF7.js} +1 -1
  8. package/dist/chunks/{chunk-P276TWPM.js → chunk-3CXZUC2Y.js} +1 -1
  9. package/dist/chunks/{chunk-VNF236GG.js → chunk-3XYLEK4H.js} +2 -2
  10. package/dist/chunks/{chunk-PKGPSTRW.js → chunk-4OVIUCSB.js} +2 -2
  11. package/dist/chunks/{chunk-BLDUBB7X.js → chunk-4YPCUVMC.js} +2 -2
  12. package/dist/chunks/{chunk-N73RA4DR.js → chunk-6CXLLJ2C.js} +3 -3
  13. package/dist/chunks/{chunk-4SN7R4UF.js → chunk-6MD4VS2F.js} +1 -1
  14. package/dist/chunks/{chunk-VACK24HF.js → chunk-735MPLUL.js} +35 -9
  15. package/dist/chunks/chunk-7GDNDQD7.js +504 -0
  16. package/dist/chunks/{chunk-2US43KNG.js → chunk-7PEYA3NA.js} +2 -2
  17. package/dist/chunks/{chunk-XTCIKBWM.js → chunk-AXE3RR7J.js} +1 -1
  18. package/dist/chunks/{chunk-BXE3SBBN.js → chunk-C3KAPREU.js} +1 -1
  19. package/dist/chunks/{chunk-QJC63NFR.js → chunk-G3GLGDKV.js} +2 -2
  20. package/dist/chunks/{chunk-63XWYNID.js → chunk-G4WQBRDS.js} +4 -4
  21. package/dist/chunks/{chunk-SDI6BVG7.js → chunk-J4PDHWP2.js} +1 -1
  22. package/dist/chunks/{chunk-GD6RUZU5.js → chunk-JKIAHYAW.js} +14 -8
  23. package/dist/chunks/{chunk-AJQRKN3X.js → chunk-L2RQV23D.js} +1 -1
  24. package/dist/chunks/{chunk-EPOPGV5G.js → chunk-LA6JHEVV.js} +1 -1
  25. package/dist/chunks/{chunk-G7SG4XMK.js → chunk-LODKC7PJ.js} +7 -0
  26. package/dist/chunks/{chunk-QXBQDHKL.js → chunk-MO4DIRHD.js} +80 -38
  27. package/dist/chunks/{chunk-IHM43Y7B.js → chunk-N2GAA7RB.js} +1 -1
  28. package/dist/chunks/{chunk-6RB5ZQ34.js → chunk-N4AJV4GH.js} +25 -14
  29. package/dist/chunks/{chunk-LH436HS2.js → chunk-NHOXLUIL.js} +2 -2
  30. package/dist/chunks/{chunk-QLLKALSH.js → chunk-NQWEYJDD.js} +1 -1
  31. package/dist/chunks/{chunk-AWJJSA7D.js → chunk-OIOAK7BS.js} +1 -1
  32. package/dist/chunks/{chunk-UTDMFVC7.js → chunk-R3NPBUKT.js} +8 -8
  33. package/dist/chunks/{chunk-4KOYS5WR.js → chunk-R4XCTRIU.js} +1 -1
  34. package/dist/chunks/{chunk-XKPXOIWD.js → chunk-S3ICPPXC.js} +3 -3
  35. package/dist/chunks/{chunk-K4KVAMEF.js → chunk-S4CH434Z.js} +1 -1
  36. package/dist/chunks/{chunk-HMEAGAGC.js → chunk-S7BCZVRK.js} +2 -2
  37. package/dist/chunks/{chunk-SG7VQB4F.js → chunk-SDDMV2MM.js} +1 -1
  38. package/dist/chunks/{chunk-KMLATBNT.js → chunk-SIXFXXRI.js} +3 -3
  39. package/dist/chunks/{chunk-T3MEG5D3.js → chunk-U6JPSXJ3.js} +90 -21
  40. package/dist/chunks/{chunk-SENPGW4O.js → chunk-VCUOYVLC.js} +1 -1
  41. package/dist/chunks/{chunk-33KUO34R.js → chunk-VSRRIFRF.js} +1 -1
  42. package/dist/chunks/{chunk-BFUS3ENH.js → chunk-X5ULFAMM.js} +2 -2
  43. package/dist/chunks/{chunk-W5YRBEWQ.js → chunk-XOIYBEU7.js} +1 -1
  44. package/dist/chunks/{chunk-CL6ELLVF.js → chunk-YEDZ37PH.js} +1 -1
  45. package/dist/chunks/{chunk-Z4HXW6ZH.js → chunk-YF6T33PU.js} +10 -2
  46. package/dist/chunks/{chunk-2VMKQKVO.js → chunk-YIWN32ZX.js} +1 -1
  47. package/dist/chunks/{chunk-2T3V6Z3M.js → chunk-ZKIH2USC.js} +1 -1
  48. package/dist/cli/figure.js +31 -30
  49. package/dist/cli/fold.js +6 -6
  50. package/dist/deletionEdges.js +2 -2
  51. package/dist/figure.js +27 -26
  52. package/dist/figureData.js +25 -24
  53. package/dist/figureScene.js +18 -17
  54. package/dist/figureSettings.js +6 -6
  55. package/dist/foldVariants.js +2 -2
  56. package/dist/genes/genePins.js +3 -3
  57. package/dist/graphLabels.js +4 -4
  58. package/dist/index.js +45 -44
  59. package/dist/labelLayout.js +8 -8
  60. package/dist/layout/forceCache.js +6 -6
  61. package/dist/layout/mergeRuns.js +2 -2
  62. package/dist/layout/orientToReference.js +2 -2
  63. package/dist/layout/tubeMapLayout.js +9 -9
  64. package/dist/layout/walkRowDraw.js +9 -8
  65. package/dist/layout/walkRowLayout.js +3 -3
  66. package/dist/layout/walkRowRuns.js +1 -1
  67. package/dist/layout/walkRows.js +2 -2
  68. package/dist/layout/walkStrip.js +13 -12
  69. package/dist/layoutModes.js +11 -11
  70. package/dist/pathColors.js +5 -5
  71. package/dist/pipeline.js +5 -5
  72. package/dist/referenceStrip.js +9 -8
  73. package/dist/renderer/GeometryBuilder.js +8 -7
  74. package/dist/renderer/walkLanes.js +44 -0
  75. package/dist/tubeMap/axis.js +5 -5
  76. package/dist/tubeMap/bundle.js +10 -10
  77. package/dist/tubeMap/coarsen.js +10 -10
  78. package/dist/tubeMap/deviations.js +11 -11
  79. package/dist/tubeMap/draw.js +5 -5
  80. package/dist/tubeMap/genes.js +6 -6
  81. package/dist/tubeMap/nodeColors.js +9 -8
  82. package/dist/tubeMap/reads.js +2 -2
  83. package/dist/types/figureData.d.ts +22 -0
  84. package/dist/types/renderer/types.d.ts +20 -0
  85. package/dist/types/renderer/walkLanes.d.ts +60 -0
  86. package/dist/types/util/geometry.d.ts +13 -1
  87. package/dist/types/version.d.ts +1 -1
  88. package/dist/types/walkEncoding.d.ts +7 -5
  89. package/dist/types/walkHighlight.d.ts +3 -0
  90. package/dist/util/SpatialIndex.js +4 -4
  91. package/dist/util/edgeCurves.js +3 -3
  92. package/dist/util/geometry.js +7 -1
  93. package/dist/util/hitDetection.js +5 -5
  94. package/dist/version.js +1 -1
  95. package/dist/viewport.js +6 -6
  96. package/dist/walkEncoding.js +9 -8
  97. package/dist/walkHighlight.js +10 -9
  98. package/dist/walkKey.js +5 -5
  99. package/package.json +1 -1
package/dist/util/SpatialIndex.js CHANGED
@@ -1,13 +1,13 @@
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  import {
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  EdgeSpatialIndex,
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  SpatialIndex
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- } from "../chunks/chunk-2US43KNG.js";
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- import "../chunks/chunk-33KUO34R.js";
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+ } from "../chunks/chunk-7PEYA3NA.js";
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+ import "../chunks/chunk-VSRRIFRF.js";
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  import "../chunks/chunk-HMXCN6PG.js";
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- import "../chunks/chunk-P276TWPM.js";
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+ import "../chunks/chunk-3CXZUC2Y.js";
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  import "../chunks/chunk-TLWXLNLY.js";
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  import "../chunks/chunk-3YBP46PB.js";
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- import "../chunks/chunk-VACK24HF.js";
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+ import "../chunks/chunk-735MPLUL.js";
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  import "../chunks/chunk-CPMHA4W5.js";
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  import "../chunks/chunk-ZPZ7GNBT.js";
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  import "../chunks/chunk-BSOZW3FC.js";
package/dist/util/edgeCurves.js CHANGED
@@ -1,11 +1,11 @@
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  import {
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  baseEdgeCurves
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- } from "../chunks/chunk-33KUO34R.js";
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+ } from "../chunks/chunk-VSRRIFRF.js";
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  import "../chunks/chunk-HMXCN6PG.js";
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- import "../chunks/chunk-P276TWPM.js";
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+ import "../chunks/chunk-3CXZUC2Y.js";
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  import "../chunks/chunk-TLWXLNLY.js";
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  import "../chunks/chunk-3YBP46PB.js";
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- import "../chunks/chunk-VACK24HF.js";
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+ import "../chunks/chunk-735MPLUL.js";
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  import "../chunks/chunk-CPMHA4W5.js";
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  import "../chunks/chunk-ZPZ7GNBT.js";
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  import "../chunks/chunk-BSOZW3FC.js";
package/dist/util/geometry.js CHANGED
@@ -6,6 +6,7 @@ import {
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  curveMidpoint,
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  curvePointAt,
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  dashCurves,
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+ dashSpans,
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  edgeJoinOf,
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  ownStrand,
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  pathRibbonOffsets,
@@ -13,11 +14,13 @@ import {
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  projectLine,
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  routedEdgeCurves,
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  selfLinkOf,
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+ slideAt,
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+ slideCurves,
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  strandSides,
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  svgPath,
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  translateCurves,
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  yToXOf
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- } from "../chunks/chunk-VACK24HF.js";
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+ } from "../chunks/chunk-735MPLUL.js";
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  import "../chunks/chunk-CPMHA4W5.js";
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  export {
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  PATH_RIBBON_SPACING_PX,
@@ -27,6 +30,7 @@ export {
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  curveMidpoint,
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  curvePointAt,
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  dashCurves,
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+ dashSpans,
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  edgeJoinOf,
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  ownStrand,
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  pathRibbonOffsets,
@@ -34,6 +38,8 @@ export {
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  projectLine,
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  routedEdgeCurves,
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  selfLinkOf,
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+ slideAt,
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+ slideCurves,
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  strandSides,
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  svgPath,
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  translateCurves,
package/dist/util/hitDetection.js CHANGED
@@ -4,14 +4,14 @@ import {
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  findHoveredEdge,
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  findHoveredNode,
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  nodesUnderBox
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- } from "../chunks/chunk-LH436HS2.js";
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- import "../chunks/chunk-2US43KNG.js";
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- import "../chunks/chunk-33KUO34R.js";
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+ } from "../chunks/chunk-NHOXLUIL.js";
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+ import "../chunks/chunk-7PEYA3NA.js";
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+ import "../chunks/chunk-VSRRIFRF.js";
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  import "../chunks/chunk-HMXCN6PG.js";
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- import "../chunks/chunk-P276TWPM.js";
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+ import "../chunks/chunk-3CXZUC2Y.js";
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  import "../chunks/chunk-TLWXLNLY.js";
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  import "../chunks/chunk-3YBP46PB.js";
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- import "../chunks/chunk-VACK24HF.js";
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+ import "../chunks/chunk-735MPLUL.js";
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  import "../chunks/chunk-CPMHA4W5.js";
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  import "../chunks/chunk-ZPZ7GNBT.js";
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  import "../chunks/chunk-BSOZW3FC.js";
package/dist/version.js CHANGED
@@ -1,6 +1,6 @@
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  import {
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  version
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- } from "./chunks/chunk-AJQRKN3X.js";
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+ } from "./chunks/chunk-L2RQV23D.js";
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  export {
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  version
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  };
package/dist/viewport.js CHANGED
@@ -5,10 +5,10 @@ import {
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  screenToLayout,
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  viewportOf,
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  zoomAbout
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- } from "./chunks/chunk-F4CDC72I.js";
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- import "./chunks/chunk-XKPXOIWD.js";
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+ } from "./chunks/chunk-2RCKHCF7.js";
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+ import "./chunks/chunk-S3ICPPXC.js";
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  import "./chunks/chunk-OPPVSPEF.js";
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- import "./chunks/chunk-ZZZ6NVLW.js";
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+ import "./chunks/chunk-22ZMVREZ.js";
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  import "./chunks/chunk-CKUVEHSS.js";
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  import "./chunks/chunk-VPE4AYP7.js";
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  import "./chunks/chunk-TUMJNAOL.js";
@@ -18,13 +18,13 @@ import "./chunks/chunk-7L7MN2OM.js";
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  import "./chunks/chunk-VX656OAZ.js";
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  import "./chunks/chunk-VSSIYQYF.js";
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  import "./chunks/chunk-LG2UK4MB.js";
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- import "./chunks/chunk-2VMKQKVO.js";
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+ import "./chunks/chunk-YIWN32ZX.js";
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  import "./chunks/chunk-HKYXWZQS.js";
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  import "./chunks/chunk-34BOZKIE.js";
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- import "./chunks/chunk-P276TWPM.js";
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+ import "./chunks/chunk-3CXZUC2Y.js";
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  import "./chunks/chunk-TLWXLNLY.js";
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  import "./chunks/chunk-3YBP46PB.js";
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- import "./chunks/chunk-VACK24HF.js";
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+ import "./chunks/chunk-735MPLUL.js";
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  import "./chunks/chunk-ZPZ7GNBT.js";
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  import "./chunks/chunk-BSOZW3FC.js";
package/dist/walkEncoding.js CHANGED
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  schemeColor,
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  schemeCss,
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  schemeRgb
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- } from "./chunks/chunk-6RB5ZQ34.js";
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- import "./chunks/chunk-VXKL2ZLR.js";
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+ } from "./chunks/chunk-N4AJV4GH.js";
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+ import "./chunks/chunk-2H3ALI6L.js";
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+ import "./chunks/chunk-7GDNDQD7.js";
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  import "./chunks/chunk-G2FD7S3C.js";
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  import "./chunks/chunk-GQZVR5DW.js";
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- import "./chunks/chunk-33KUO34R.js";
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- import "./chunks/chunk-GD6RUZU5.js";
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+ import "./chunks/chunk-VSRRIFRF.js";
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+ import "./chunks/chunk-JKIAHYAW.js";
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  import "./chunks/chunk-ZANALBSX.js";
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  import "./chunks/chunk-VX656OAZ.js";
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- import "./chunks/chunk-N73RA4DR.js";
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+ import "./chunks/chunk-6CXLLJ2C.js";
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  import "./chunks/chunk-HMXCN6PG.js";
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  import "./chunks/chunk-AB35TJST.js";
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- import "./chunks/chunk-2VMKQKVO.js";
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- import "./chunks/chunk-P276TWPM.js";
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+ import "./chunks/chunk-YIWN32ZX.js";
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+ import "./chunks/chunk-3CXZUC2Y.js";
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  import "./chunks/chunk-TLWXLNLY.js";
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- import "./chunks/chunk-VACK24HF.js";
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+ import "./chunks/chunk-735MPLUL.js";
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package/dist/walkHighlight.js CHANGED
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  walkLift
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- } from "./chunks/chunk-Z4HXW6ZH.js";
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- import "./chunks/chunk-6RB5ZQ34.js";
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- import "./chunks/chunk-VXKL2ZLR.js";
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+ } from "./chunks/chunk-YF6T33PU.js";
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+ import "./chunks/chunk-N4AJV4GH.js";
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+ import "./chunks/chunk-2H3ALI6L.js";
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+ import "./chunks/chunk-7GDNDQD7.js";
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  import "./chunks/chunk-G2FD7S3C.js";
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- import "./chunks/chunk-33KUO34R.js";
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- import "./chunks/chunk-GD6RUZU5.js";
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+ import "./chunks/chunk-VSRRIFRF.js";
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+ import "./chunks/chunk-JKIAHYAW.js";
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  import "./chunks/chunk-VX656OAZ.js";
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  import "./chunks/chunk-LG2UK4MB.js";
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- import "./chunks/chunk-N73RA4DR.js";
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+ import "./chunks/chunk-6CXLLJ2C.js";
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  import "./chunks/chunk-AB35TJST.js";
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- import "./chunks/chunk-2VMKQKVO.js";
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- import "./chunks/chunk-P276TWPM.js";
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+ import "./chunks/chunk-YIWN32ZX.js";
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+ import "./chunks/chunk-3CXZUC2Y.js";
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- import "./chunks/chunk-VACK24HF.js";
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+ import "./chunks/chunk-735MPLUL.js";
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package/dist/walkKey.js CHANGED
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- } from "./chunks/chunk-SG7VQB4F.js";
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+ } from "./chunks/chunk-SDDMV2MM.js";
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- import "./chunks/chunk-N73RA4DR.js";
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+ import "./chunks/chunk-6CXLLJ2C.js";
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+ import "./chunks/chunk-YIWN32ZX.js";
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+ import "./chunks/chunk-3CXZUC2Y.js";
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package/package.json CHANGED
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  {
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  "name": "@jbrowse/bandage-core",
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- "version": "11.7.3",
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+ "version": "11.8.0",
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  "description": "Pangenome graph layout and drawing with no host: GFA in, the Bandage force-directed engine and reference-anchored layouts, a Canvas2D renderer, hit testing and labels out",
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  "license": "GPL-3.0-or-later",
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  "repository": {