@jbrowse/bandage-core 6.2.0 → 7.0.0
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.
- package/dist/chunks/{chunk-GOY6REMT.js → chunk-2LQ5BWT7.js} +1 -1
- package/dist/chunks/{chunk-N62KBLFC.js → chunk-3ZZSX5HN.js} +1 -1
- package/dist/chunks/{chunk-R6ZUK4Y3.js → chunk-4FQTTG5F.js} +1 -1
- package/dist/chunks/{chunk-YFRTTBCZ.js → chunk-6UFS3EWI.js} +3 -3
- package/dist/chunks/{chunk-5HF753RL.js → chunk-7PWMTUAK.js} +21 -18
- package/dist/chunks/{chunk-M6SAUIYR.js → chunk-AWCMVPVP.js} +1 -1
- package/dist/chunks/{chunk-P2KU2TXS.js → chunk-CNQSHEBS.js} +1 -1
- package/dist/chunks/{chunk-CS3E4ETM.js → chunk-DRA7733Q.js} +1 -1
- package/dist/chunks/{chunk-X5L37W4J.js → chunk-E7FWQQHP.js} +1 -1
- package/dist/chunks/{chunk-HE3NRWH7.js → chunk-EOSVRILX.js} +1 -1
- package/dist/chunks/{chunk-3GMVZMKD.js → chunk-EXSXBIMH.js} +1 -1
- package/dist/chunks/{chunk-YMSSF2RK.js → chunk-FP4H7SFT.js} +1 -1
- package/dist/chunks/{chunk-DKOB2OPC.js → chunk-GJMC3PGM.js} +3 -3
- package/dist/chunks/{chunk-YQZWW2V6.js → chunk-JFNPL4UT.js} +2 -2
- package/dist/chunks/{chunk-A7VOULBP.js → chunk-MH5IA57M.js} +1 -1
- package/dist/chunks/{chunk-MREQ7GIA.js → chunk-MLSWIMZO.js} +1 -1
- package/dist/chunks/{chunk-7R2UGY4I.js → chunk-MZ7QQRUJ.js} +1 -1
- package/dist/chunks/{chunk-4EMPBO7S.js → chunk-N6FECAXP.js} +51 -1
- package/dist/chunks/{chunk-CTSBC2O6.js → chunk-OWFPAIJI.js} +1 -1
- package/dist/chunks/{chunk-6CO564AN.js → chunk-TQ7VCGJR.js} +1 -1
- package/dist/chunks/{chunk-GD7FYNGS.js → chunk-VECR253P.js} +1 -1
- package/dist/chunks/{chunk-VUBLSA6P.js → chunk-VST5SR4C.js} +2 -2
- package/dist/chunks/{chunk-T43W7NKK.js → chunk-WEMKWLDF.js} +1 -1
- package/dist/chunks/{chunk-Y3IOTZJA.js → chunk-WFB5TXRA.js} +1 -1
- package/dist/chunks/{chunk-STNG3Y5X.js → chunk-YZ5CCEDH.js} +0 -30
- package/dist/cli/figure.js +22 -22
- package/dist/deletionEdges.js +5 -1
- package/dist/figure.js +19 -19
- package/dist/graphLabels.js +2 -2
- package/dist/index.js +27 -25
- package/dist/labelLayout.js +6 -6
- package/dist/layout/deletionRoutes.js +1 -3
- package/dist/layout/tubeMapLayout.js +4 -4
- package/dist/layout/walkRowDraw.js +7 -7
- package/dist/layout/walkStrip.js +8 -8
- package/dist/layoutModes.js +5 -5
- package/dist/pathColors.js +3 -3
- package/dist/pipeline.js +3 -3
- package/dist/referenceRampCss.js +6 -6
- package/dist/referenceStrip.js +6 -6
- package/dist/renderer/GeometryBuilder.js +5 -5
- package/dist/tubeMap/axis.js +3 -3
- package/dist/tubeMap/coarsen.js +4 -4
- package/dist/tubeMap/genes.js +4 -4
- package/dist/tubeMap/nodeColors.js +6 -6
- package/dist/types/deletionEdges.d.ts +7 -0
- package/dist/types/index.d.ts +2 -2
- package/dist/types/labelLayout.d.ts +0 -1
- package/dist/types/layout/deletionRoutes.d.ts +0 -1
- package/dist/types/version.d.ts +1 -1
- package/dist/util/SpatialIndex.js +3 -3
- package/dist/util/edgeCurves.js +2 -2
- package/dist/util/hitDetection.js +4 -4
- package/dist/version.js +1 -1
- package/dist/viewport.js +4 -4
- package/dist/walkEncoding.js +6 -6
- package/dist/walkHighlight.js +7 -7
- package/dist/walkKey.js +3 -3
- package/package.json +1 -1
package/dist/index.js
CHANGED
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@@ -22,17 +22,17 @@ import {
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import {
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drawTubeMapGenes,
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tubeMapGenes
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} from "./chunks/chunk-
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} from "./chunks/chunk-OWFPAIJI.js";
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import "./chunks/chunk-EJ5OZTCK.js";
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import {
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tubeMapNodeColors
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} from "./chunks/chunk-
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} from "./chunks/chunk-CNQSHEBS.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-
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} from "./chunks/chunk-DRA7733Q.js";
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import {
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bubbleHalos
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} from "./chunks/chunk-ISEI2FH3.js";
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drawReferenceStrip,
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referenceStripBlocks,
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stripBlockAt
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} from "./chunks/chunk-
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} from "./chunks/chunk-EXSXBIMH.js";
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import {
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layoutEngine
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} from "./chunks/chunk-L53SXJZI.js";
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LAYOUT_MODES,
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layoutModeByValue,
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modeUsesLayoutEngine
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} from "./chunks/chunk-
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import "./chunks/chunk-
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import "./chunks/chunk-4FQTTG5F.js";
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import "./chunks/chunk-TEDQJPMI.js";
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import "./chunks/chunk-LOEA5IHZ.js";
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import "./chunks/chunk-L3O7AWLI.js";
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} from "./chunks/chunk-7XHHVYG7.js";
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import {
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figureSvg
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} from "./chunks/chunk-
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} from "./chunks/chunk-7PWMTUAK.js";
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import {
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svgCanvas
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} from "./chunks/chunk-47DYCZOK.js";
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walkMarksTree,
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walkStripFrame,
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walkStripLabelsTree
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} from "./chunks/chunk-
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} from "./chunks/chunk-MZ7QQRUJ.js";
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import {
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BAR_PX,
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walkRowsKey,
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walkRowsKeyTree,
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walkRowsTree
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} from "./chunks/chunk-
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} from "./chunks/chunk-JFNPL4UT.js";
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import {
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Canvas2DRenderer
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} from "./chunks/chunk-CH3DLBUT.js";
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} from "./chunks/chunk-BUBZ32IC.js";
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import {
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version
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} from "./chunks/chunk-
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} from "./chunks/chunk-EOSVRILX.js";
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import {
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axisScaleOf,
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contains,
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screenToLayout,
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viewportOf,
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zoomAbout
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} from "./chunks/chunk-
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} from "./chunks/chunk-AWCMVPVP.js";
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import {
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facetLifts,
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walkHighlight,
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walkLift
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} from "./chunks/chunk-
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} from "./chunks/chunk-MH5IA57M.js";
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import {
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WALK_FIELDS,
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schemeCss
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} from "./chunks/chunk-
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} from "./chunks/chunk-TQ7VCGJR.js";
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} from "./chunks/chunk-2LQ5BWT7.js";
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forceLayout,
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loadGraph
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} from "./chunks/chunk-
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} from "./chunks/chunk-6UFS3EWI.js";
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import "./chunks/chunk-YZ5CCEDH.js";
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} from "./chunks/chunk-VECR253P.js";
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} from "./chunks/chunk-VST5SR4C.js";
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package/dist/layout/walkStrip.js
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CHANGED
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layoutModeByValue,
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CHANGED
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pathGreyCssColor,
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9
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pathHueAt,
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pathLegend
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} from "./chunks/chunk-
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} from "./chunks/chunk-E7FWQQHP.js";
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CHANGED
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|
forceLayout,
|
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|
layoutExtent,
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|
loadGraph
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} from "./chunks/chunk-
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} from "./chunks/chunk-6UFS3EWI.js";
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package/dist/referenceRampCss.js
CHANGED
|
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4
4
|
rampHue,
|
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5
5
|
rampHueCss,
|
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|
rampStops
|
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7
|
-
} from "./chunks/chunk-
|
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|
-
import "./chunks/chunk-
|
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7
|
+
} from "./chunks/chunk-VECR253P.js";
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import "./chunks/chunk-VST5SR4C.js";
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import "./chunks/chunk-UMNCCYBN.js";
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import "./chunks/chunk-PBENCR5L.js";
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import "./chunks/chunk-
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import "./chunks/chunk-
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import "./chunks/chunk-WFB5TXRA.js";
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import "./chunks/chunk-E7FWQQHP.js";
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import "./chunks/chunk-ES2N6V56.js";
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import "./chunks/chunk-ST2IBUAN.js";
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import "./chunks/chunk-
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import "./chunks/chunk-3ZZSX5HN.js";
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import "./chunks/chunk-
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import "./chunks/chunk-N6FECAXP.js";
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|
import "./chunks/chunk-2CVHXFK7.js";
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import "./chunks/chunk-CPMHA4W5.js";
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import "./chunks/chunk-BPLIXMH7.js";
|
package/dist/referenceStrip.js
CHANGED
|
@@ -7,18 +7,18 @@ import {
|
|
|
7
7
|
stripBlockAt,
|
|
8
8
|
stripOverhang,
|
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9
9
|
stripPixels
|
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|
-
} from "./chunks/chunk-
|
|
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|
-
import "./chunks/chunk-
|
|
10
|
+
} from "./chunks/chunk-EXSXBIMH.js";
|
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|
+
import "./chunks/chunk-VST5SR4C.js";
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import "./chunks/chunk-
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import "./chunks/chunk-
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import "./chunks/chunk-WFB5TXRA.js";
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import "./chunks/chunk-
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import "./chunks/chunk-3ZZSX5HN.js";
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import "./chunks/chunk-
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|
import "./chunks/chunk-CPMHA4W5.js";
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import "./chunks/chunk-BPLIXMH7.js";
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|
@@ -11,17 +11,17 @@ import {
|
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11
11
|
endTangent,
|
|
12
12
|
getNodeColor,
|
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13
13
|
hslToRgb
|
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|
-
} from "../chunks/chunk-
|
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|
+
} from "../chunks/chunk-VST5SR4C.js";
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import "../chunks/chunk-UMNCCYBN.js";
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import "../chunks/chunk-
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import "../chunks/chunk-
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import "../chunks/chunk-WFB5TXRA.js";
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|
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|
package/dist/tubeMap/axis.js
CHANGED
|
@@ -6,11 +6,11 @@ import {
|
|
|
6
6
|
rulerMarks,
|
|
7
7
|
tubeSpan,
|
|
8
8
|
tubeX
|
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|
-
} from "../chunks/chunk-
|
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|
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import "../chunks/chunk-
|
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9
|
+
} from "../chunks/chunk-DRA7733Q.js";
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import "../chunks/chunk-FYQWPEEY.js";
|
package/dist/tubeMap/coarsen.js
CHANGED
|
@@ -1,18 +1,18 @@
|
|
|
1
1
|
import {
|
|
2
2
|
visitStrands
|
|
3
|
-
} from "../chunks/chunk-
|
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3
|
+
} from "../chunks/chunk-4FQTTG5F.js";
|
|
4
4
|
import {
|
|
5
5
|
canonicalStrand
|
|
6
6
|
} from "../chunks/chunk-TEDQJPMI.js";
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7
|
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|
-
import "../chunks/chunk-
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|
+
import "../chunks/chunk-E7FWQQHP.js";
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|
import {
|
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|
pathOrigin
|
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|
} from "../chunks/chunk-ST2IBUAN.js";
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import "../chunks/chunk-
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import "../chunks/chunk-
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|
package/dist/tubeMap/genes.js
CHANGED
|
@@ -3,12 +3,12 @@ import {
|
|
|
3
3
|
drawTubeMapGenes,
|
|
4
4
|
tubeMapGeneRows,
|
|
5
5
|
tubeMapGenes
|
|
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|
-
} from "../chunks/chunk-
|
|
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|
-
import "../chunks/chunk-
|
|
8
|
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|
|
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|
+
} from "../chunks/chunk-OWFPAIJI.js";
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|
+
import "../chunks/chunk-DRA7733Q.js";
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|
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|
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|
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|
+
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|
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|
import "../chunks/chunk-CPMHA4W5.js";
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14
|
import "../chunks/chunk-FYQWPEEY.js";
|
|
@@ -1,17 +1,17 @@
|
|
|
1
1
|
import {
|
|
2
2
|
tubeMapNodeColors
|
|
3
|
-
} from "../chunks/chunk-
|
|
4
|
-
import "../chunks/chunk-
|
|
3
|
+
} from "../chunks/chunk-CNQSHEBS.js";
|
|
4
|
+
import "../chunks/chunk-VST5SR4C.js";
|
|
5
5
|
import "../chunks/chunk-UMNCCYBN.js";
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|
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|
|
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|
-
import "../chunks/chunk-
|
|
8
|
-
import "../chunks/chunk-
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|
+
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|
+
import "../chunks/chunk-E7FWQQHP.js";
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|
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|
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|
-
import "../chunks/chunk-
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|
+
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|
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|
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import "../chunks/chunk-
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|
+
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|
import "../chunks/chunk-2CVHXFK7.js";
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|
import "../chunks/chunk-CPMHA4W5.js";
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|
import "../chunks/chunk-BPLIXMH7.js";
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|
@@ -24,3 +24,10 @@ export declare function deletionArcCurves(nodePositions: Record<string, {
|
|
|
24
24
|
y: number;
|
|
25
25
|
}[]>, deletion: DeletionEdge, axis: AxisScale, route?: NodeSegment[], stranded?: boolean): import("./util/geometry.js").BezierCurve[] | undefined;
|
|
26
26
|
export declare function deletionEdges(graph: Graph): DeletionEdge[];
|
|
27
|
+
export declare function closableDeletions(graph: Graph, deletions: DeletionEdge[]): Set<number>;
|
|
28
|
+
export interface DeletionDrawing {
|
|
29
|
+
shown: DeletionEdge[];
|
|
30
|
+
bypassed: Map<number, string[]>;
|
|
31
|
+
hidden: ReadonlySet<number>;
|
|
32
|
+
}
|
|
33
|
+
export declare function deletionDrawing(graph: Graph, deletions: DeletionEdge[], show?: boolean): DeletionDrawing;
|
package/dist/types/index.d.ts
CHANGED
|
@@ -34,8 +34,8 @@ export type { TubeMapGene } from './tubeMap/genes.js';
|
|
|
34
34
|
export { connectorAt, drawTubeMapConnectors, referenceNodes, tubeMapConnectors, } from './tubeMap/connectors.js';
|
|
35
35
|
export type { Connector, ReferenceNode } from './tubeMap/connectors.js';
|
|
36
36
|
export type { TubeMapColumn, TubeMapDrawing } from './layout/tubeMapLayout.js';
|
|
37
|
-
export { deletionEdges } from './deletionEdges.js';
|
|
38
|
-
export type { DeletionEdge } from './deletionEdges.js';
|
|
37
|
+
export { deletionDrawing, deletionEdges } from './deletionEdges.js';
|
|
38
|
+
export type { DeletionDrawing, DeletionEdge } from './deletionEdges.js';
|
|
39
39
|
export { facetLifts, walkHighlight, walkLift } from './walkHighlight.js';
|
|
40
40
|
export { rangeText, walkKey, walkPosition } from './walkKey.js';
|
|
41
41
|
export { figureSvg } from './figure.js';
|
|
@@ -32,7 +32,6 @@ export interface LabelLayoutSource {
|
|
|
32
32
|
nodePositions?: Record<string, NodeSegment[]>;
|
|
33
33
|
labelsNodeSizes: boolean;
|
|
34
34
|
nodeLengths: Map<string, number>;
|
|
35
|
-
showDeletionEdges: boolean;
|
|
36
35
|
deletions: DeletionEdge[];
|
|
37
36
|
deletionRoutes?: DeletionRoutes;
|
|
38
37
|
stranded?: boolean;
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@@ -22,7 +22,6 @@ export declare function withDeletionRoutes(graph: Graph, deletions: DeletionEdge
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22
22
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routes: Map<number, string>;
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23
23
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ids: Set<string>;
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24
24
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};
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25
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-
export declare function closableDeletions(graph: Graph, deletions: DeletionEdge[]): Set<number>;
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26
25
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export declare function routeNodes(graph: Graph, deletions: DeletionEdge[], routes: Map<number, string>, drawnOf: (bp: number) => number, opts: BandageScaleOpts): GraphNode[];
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27
26
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export declare function takeRoutes(positions: Record<string, NodeSegment[]>, routes: Map<number, string>): {
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28
27
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nodePositions: {
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package/dist/types/version.d.ts
CHANGED
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@@ -1 +1 @@
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1
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-
export declare const version = "
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1
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+
export declare const version = "7.0.0";
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@@ -1,9 +1,9 @@
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1
1
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import {
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2
2
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EdgeSpatialIndex,
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3
3
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SpatialIndex
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4
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-
} from "../chunks/chunk-
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5
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-
import "../chunks/chunk-
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6
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-
import "../chunks/chunk-
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4
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+
} from "../chunks/chunk-MLSWIMZO.js";
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5
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+
import "../chunks/chunk-WFB5TXRA.js";
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6
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+
import "../chunks/chunk-N6FECAXP.js";
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7
7
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import "../chunks/chunk-2CVHXFK7.js";
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8
8
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import "../chunks/chunk-CPMHA4W5.js";
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9
9
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import "../chunks/chunk-FYQWPEEY.js";
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package/dist/util/edgeCurves.js
CHANGED
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@@ -1,7 +1,7 @@
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1
1
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import {
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2
2
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baseEdgeCurves
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3
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-
} from "../chunks/chunk-
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4
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-
import "../chunks/chunk-
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3
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+
} from "../chunks/chunk-WFB5TXRA.js";
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4
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+
import "../chunks/chunk-N6FECAXP.js";
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5
5
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import "../chunks/chunk-2CVHXFK7.js";
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6
6
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import "../chunks/chunk-CPMHA4W5.js";
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7
7
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import "../chunks/chunk-FYQWPEEY.js";
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@@ -4,10 +4,10 @@ import {
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4
4
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findHoveredEdge,
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5
5
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findHoveredNode,
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6
6
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nodesUnderBox
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|
7
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-
} from "../chunks/chunk-
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|
8
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-
import "../chunks/chunk-
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|
9
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-
import "../chunks/chunk-
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|
10
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-
import "../chunks/chunk-
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7
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+
} from "../chunks/chunk-FP4H7SFT.js";
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8
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+
import "../chunks/chunk-MLSWIMZO.js";
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9
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+
import "../chunks/chunk-WFB5TXRA.js";
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|
10
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+
import "../chunks/chunk-N6FECAXP.js";
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11
11
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import "../chunks/chunk-2CVHXFK7.js";
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12
12
|
import "../chunks/chunk-CPMHA4W5.js";
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13
13
|
import "../chunks/chunk-FYQWPEEY.js";
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