@jbrowse/bandage-core 11.16.0 → 11.17.0

package/dist/figureScene.js

@@ -1,10 +1,10 @@
 import {
   figureScene
-} from "./chunks/chunk-F3254CLY.js";
+} from "./chunks/chunk-47R7GMU3.js";
 import "./chunks/chunk-LOCJN3BZ.js";
-import "./chunks/chunk-WRSI6VK7.js";
-import "./chunks/chunk-JWXSEGEA.js";
-import "./chunks/chunk-72JZSR4B.js";
+import "./chunks/chunk-PL6X2IJC.js";
+import "./chunks/chunk-BDMISSNR.js";
+import "./chunks/chunk-DTBQNR7P.js";
 import "./chunks/chunk-YUIKEUKY.js";
 import "./chunks/chunk-G2FD7S3C.js";
 import "./chunks/chunk-OKH32P3Z.js";
@@ -14,14 +14,14 @@ import "./chunks/chunk-VCUOYVLC.js";
 import "./chunks/chunk-C3KAPREU.js";
 import "./chunks/chunk-LODKC7PJ.js";
 import "./chunks/chunk-EHEIS3TE.js";
-import "./chunks/chunk-ZANALBSX.js";
-import "./chunks/chunk-CF2AXV5I.js";
-import "./chunks/chunk-3KGUENAV.js";
+import "./chunks/chunk-XWH4LB56.js";
+import "./chunks/chunk-XESCKKKT.js";
+import "./chunks/chunk-5LTWXDXK.js";
 import "./chunks/chunk-OPPVSPEF.js";
 import "./chunks/chunk-NAYS472K.js";
 import "./chunks/chunk-4FRX2SPT.js";
 import "./chunks/chunk-VPE4AYP7.js";
-import "./chunks/chunk-TUMJNAOL.js";
+import "./chunks/chunk-MSVYSCAH.js";
 import "./chunks/chunk-QYBZZI5H.js";
 import "./chunks/chunk-CFXXFHRK.js";
 import "./chunks/chunk-7L7MN2OM.js";

package/dist/figureSettings.js

@@ -1,13 +1,13 @@
 import {
   FIGURE_DEFAULTS,
   figureSpecSettings
-} from "./chunks/chunk-CF2AXV5I.js";
-import "./chunks/chunk-3KGUENAV.js";
+} from "./chunks/chunk-XESCKKKT.js";
+import "./chunks/chunk-5LTWXDXK.js";
 import "./chunks/chunk-OPPVSPEF.js";
 import "./chunks/chunk-NAYS472K.js";
 import "./chunks/chunk-4FRX2SPT.js";
 import "./chunks/chunk-VPE4AYP7.js";
-import "./chunks/chunk-TUMJNAOL.js";
+import "./chunks/chunk-MSVYSCAH.js";
 import "./chunks/chunk-QYBZZI5H.js";
 import "./chunks/chunk-CFXXFHRK.js";
 import "./chunks/chunk-7L7MN2OM.js";

package/dist/gfa/gfaConverter.js

@@ -1,6 +1,6 @@
 import {
   convertGFAToGraph
-} from "../chunks/chunk-TUMJNAOL.js";
+} from "../chunks/chunk-MSVYSCAH.js";
 import "../chunks/chunk-QYBZZI5H.js";
 import "../chunks/chunk-CFXXFHRK.js";
 import "../chunks/chunk-LG2UK4MB.js";

package/dist/index.js

@@ -19,7 +19,7 @@ import {
 import "./chunks/chunk-BX4AUMZE.js";
 import {
   tubeMapNodeColors
-} from "./chunks/chunk-U7JDTZSK.js";
+} from "./chunks/chunk-GZ2F2CDT.js";
 import {
   referenceKnots,
   warpX
@@ -47,7 +47,7 @@ import {
 } from "./chunks/chunk-YYIU7P73.js";
 import {
   createForceLayoutCache
-} from "./chunks/chunk-7UR5EXC2.js";
+} from "./chunks/chunk-CIMRLDRO.js";
 import {
   backboneGenes
 } from "./chunks/chunk-376YFQOY.js";
@@ -82,7 +82,7 @@ import {
   drawReferenceStrip,
   referenceStripBlocks,
   stripBlockAt
-} from "./chunks/chunk-Z5T6EOPF.js";
+} from "./chunks/chunk-OND5MXTK.js";
 import {
   edgeHoverText,
   regionLabel
@@ -97,7 +97,7 @@ import {
 import {
   figureData,
   gfaFigureData
-} from "./chunks/chunk-KMYMAPQ3.js";
+} from "./chunks/chunk-FKMZG7HI.js";
 import {
   LAYOUT_ENGINES,
   layoutEngine
@@ -134,7 +134,7 @@ import {
 import "./chunks/chunk-HNWJ4B7S.js";
 import {
   figureSvg
-} from "./chunks/chunk-SR6LCQ5U.js";
+} from "./chunks/chunk-IWPINV4U.js";
 import {
   svgCanvas
 } from "./chunks/chunk-V4YML3GR.js";
@@ -149,7 +149,7 @@ import {
   walkStripApplies,
   walkStripFrame,
   walkStripLabelsTree
-} from "./chunks/chunk-BMO5MVPB.js";
+} from "./chunks/chunk-STUG7I25.js";
 import {
   Canvas2DRenderer
 } from "./chunks/chunk-4DMSPNYV.js";
@@ -183,7 +183,7 @@ import {
   walkRowsKey,
   walkRowsKeyTree,
   walkRowsTree
-} from "./chunks/chunk-5KQRVX4N.js";
+} from "./chunks/chunk-PIPNW3VY.js";
 import {
   EXON_COLOR,
   exonOutlineTree,
@@ -205,7 +205,7 @@ import {
 } from "./chunks/chunk-HEYIAMTC.js";
 import {
   version
-} from "./chunks/chunk-NIB2A2UZ.js";
+} from "./chunks/chunk-42MMT5QM.js";
 import {
   axisScaleOf,
   contains,
@@ -213,8 +213,8 @@ import {
   screenToLayout,
   viewportOf,
   zoomAbout
-} from "./chunks/chunk-ZB5ADQYK.js";
-import "./chunks/chunk-F3254CLY.js";
+} from "./chunks/chunk-ZZUSCQVT.js";
+import "./chunks/chunk-47R7GMU3.js";
 import {
   layoutGeometryInputs
 } from "./chunks/chunk-LOCJN3BZ.js";
@@ -223,7 +223,7 @@ import {
   fadedKey,
   walkHighlight,
   walkLift
-} from "./chunks/chunk-WRSI6VK7.js";
+} from "./chunks/chunk-PL6X2IJC.js";
 import {
   WALK_FIELDS,
   WALK_SCHEMES,
@@ -231,11 +231,11 @@ import {
   encodingSwatchCss,
   resolveEncoding,
   schemeCss
-} from "./chunks/chunk-JWXSEGEA.js";
+} from "./chunks/chunk-BDMISSNR.js";
 import {
   buildGeometry,
   computeReferenceRamp
-} from "./chunks/chunk-72JZSR4B.js";
+} from "./chunks/chunk-DTBQNR7P.js";
 import "./chunks/chunk-YUIKEUKY.js";
 import "./chunks/chunk-G2FD7S3C.js";
 import {
@@ -272,15 +272,20 @@ import {
 } from "./chunks/chunk-EHEIS3TE.js";
 import {
   NODE_WIDTHS,
+  frequencyKey,
+  haplotypeCount,
   maxNodeWidthPx,
   meanDepth,
+  nodeFrequency,
   nodeInk,
-  nodeWidthPx
-} from "./chunks/chunk-ZANALBSX.js";
+  nodeWidthPx,
+  widthNorm,
+  withFrequencies
+} from "./chunks/chunk-XWH4LB56.js";
 import {
   FIGURE_DEFAULTS,
   figureSpecSettings
-} from "./chunks/chunk-CF2AXV5I.js";
+} from "./chunks/chunk-XESCKKKT.js";
 import {
   ENGINE_DEFAULTS,
   FIT_PADDING,
@@ -293,12 +298,12 @@ import {
   forceLayout,
   layoutExtent,
   loadGraph
-} from "./chunks/chunk-3KGUENAV.js";
+} from "./chunks/chunk-5LTWXDXK.js";
 import "./chunks/chunk-OPPVSPEF.js";
 import "./chunks/chunk-NAYS472K.js";
 import "./chunks/chunk-4FRX2SPT.js";
 import "./chunks/chunk-VPE4AYP7.js";
-import "./chunks/chunk-TUMJNAOL.js";
+import "./chunks/chunk-MSVYSCAH.js";
 import "./chunks/chunk-QYBZZI5H.js";
 import "./chunks/chunk-CFXXFHRK.js";
 import {
@@ -503,6 +508,7 @@ export {
   forceLayout,
   formatBp,
   formatLocus,
+  frequencyKey,
   gapParts,
   gapStyle,
   geneCoverageNote,
@@ -518,6 +524,7 @@ export {
   graphBubbles,
   graphFromTables,
   graphTablesGFA,
+  haplotypeCount,
   haplotypeWanted,
   layoutEngine,
   layoutExtent,
@@ -530,6 +537,7 @@ export {
   meanDepth,
   mergeOverlappingByName,
   modeUsesLayoutEngine,
+  nodeFrequency,
   nodeInk,
   nodeWidthPx,
   openGbz,
@@ -615,5 +623,7 @@ export {
   warpX,
   wellKnownSample,
   wheelZoomFactor,
+  widthNorm,
+  withFrequencies,
   zoomAbout
 };

package/dist/layout/forceCache.js

@@ -1,12 +1,12 @@
 import {
   createForceLayoutCache
-} from "../chunks/chunk-7UR5EXC2.js";
-import "../chunks/chunk-3KGUENAV.js";
+} from "../chunks/chunk-CIMRLDRO.js";
+import "../chunks/chunk-5LTWXDXK.js";
 import "../chunks/chunk-OPPVSPEF.js";
 import "../chunks/chunk-NAYS472K.js";
 import "../chunks/chunk-4FRX2SPT.js";
 import "../chunks/chunk-VPE4AYP7.js";
-import "../chunks/chunk-TUMJNAOL.js";
+import "../chunks/chunk-MSVYSCAH.js";
 import "../chunks/chunk-QYBZZI5H.js";
 import "../chunks/chunk-CFXXFHRK.js";
 import "../chunks/chunk-7L7MN2OM.js";

package/dist/layout/walkRowDraw.js

@@ -30,14 +30,14 @@ import {
   walkRowsKey,
   walkRowsKeyTree,
   walkRowsTree
-} from "../chunks/chunk-5KQRVX4N.js";
-import "../chunks/chunk-72JZSR4B.js";
+} from "../chunks/chunk-PIPNW3VY.js";
+import "../chunks/chunk-DTBQNR7P.js";
 import "../chunks/chunk-YUIKEUKY.js";
 import "../chunks/chunk-G2FD7S3C.js";
 import "../chunks/chunk-GQZVR5DW.js";
 import "../chunks/chunk-AGUBPT45.js";
 import "../chunks/chunk-EHEIS3TE.js";
-import "../chunks/chunk-ZANALBSX.js";
+import "../chunks/chunk-XWH4LB56.js";
 import "../chunks/chunk-L4DBSRA2.js";
 import "../chunks/chunk-LG2UK4MB.js";
 import "../chunks/chunk-ENBFQH7Y.js";

package/dist/layout/walkStrip.js

@@ -9,11 +9,11 @@ import {
   walkStripApplies,
   walkStripFrame,
   walkStripLabelsTree
-} from "../chunks/chunk-BMO5MVPB.js";
+} from "../chunks/chunk-STUG7I25.js";
 import {
   LABELLED_ROW_PX
-} from "../chunks/chunk-5KQRVX4N.js";
-import "../chunks/chunk-72JZSR4B.js";
+} from "../chunks/chunk-PIPNW3VY.js";
+import "../chunks/chunk-DTBQNR7P.js";
 import "../chunks/chunk-YUIKEUKY.js";
 import "../chunks/chunk-G2FD7S3C.js";
 import "../chunks/chunk-GQZVR5DW.js";
@@ -22,7 +22,7 @@ import "../chunks/chunk-VCUOYVLC.js";
 import "../chunks/chunk-C3KAPREU.js";
 import "../chunks/chunk-LODKC7PJ.js";
 import "../chunks/chunk-EHEIS3TE.js";
-import "../chunks/chunk-ZANALBSX.js";
+import "../chunks/chunk-XWH4LB56.js";
 import "../chunks/chunk-7L7MN2OM.js";
 import "../chunks/chunk-L4DBSRA2.js";
 import "../chunks/chunk-LG2UK4MB.js";

package/dist/nodeWidths.js

@@ -1,16 +1,27 @@
 import {
   NODE_WIDTHS,
+  frequencyKey,
+  haplotypeCount,
   maxNodeWidthPx,
   meanDepth,
+  nodeFrequency,
   nodeInk,
   nodeWidthPx,
-  walkLaneWidthPx
-} from "./chunks/chunk-ZANALBSX.js";
+  walkLaneWidthPx,
+  widthNorm,
+  withFrequencies
+} from "./chunks/chunk-XWH4LB56.js";
+import "./chunks/chunk-2JL2JVZ2.js";
 export {
   NODE_WIDTHS,
+  frequencyKey,
+  haplotypeCount,
   maxNodeWidthPx,
   meanDepth,
+  nodeFrequency,
   nodeInk,
   nodeWidthPx,
-  walkLaneWidthPx
+  walkLaneWidthPx,
+  widthNorm,
+  withFrequencies
 };

package/dist/pipeline.js

@@ -11,12 +11,12 @@ import {
   forceLayout,
   layoutExtent,
   loadGraph
-} from "./chunks/chunk-3KGUENAV.js";
+} from "./chunks/chunk-5LTWXDXK.js";
 import "./chunks/chunk-OPPVSPEF.js";
 import "./chunks/chunk-NAYS472K.js";
 import "./chunks/chunk-4FRX2SPT.js";
 import "./chunks/chunk-VPE4AYP7.js";
-import "./chunks/chunk-TUMJNAOL.js";
+import "./chunks/chunk-MSVYSCAH.js";
 import "./chunks/chunk-QYBZZI5H.js";
 import "./chunks/chunk-CFXXFHRK.js";
 import "./chunks/chunk-7L7MN2OM.js";

package/dist/referenceStrip.js

@@ -7,14 +7,14 @@ import {
   stripBlockAt,
   stripOverhang,
   stripPixels
-} from "./chunks/chunk-Z5T6EOPF.js";
-import "./chunks/chunk-72JZSR4B.js";
+} from "./chunks/chunk-OND5MXTK.js";
+import "./chunks/chunk-DTBQNR7P.js";
 import "./chunks/chunk-YUIKEUKY.js";
 import "./chunks/chunk-G2FD7S3C.js";
 import "./chunks/chunk-GQZVR5DW.js";
 import "./chunks/chunk-AGUBPT45.js";
 import "./chunks/chunk-EHEIS3TE.js";
-import "./chunks/chunk-ZANALBSX.js";
+import "./chunks/chunk-XWH4LB56.js";
 import "./chunks/chunk-L4DBSRA2.js";
 import "./chunks/chunk-ENBFQH7Y.js";
 import "./chunks/chunk-HMXCN6PG.js";

package/dist/renderer/GeometryBuilder.js

@@ -11,7 +11,7 @@ import {
   getNodeColor,
   hslToRgb,
   rampFraction
-} from "../chunks/chunk-72JZSR4B.js";
+} from "../chunks/chunk-DTBQNR7P.js";
 import "../chunks/chunk-YUIKEUKY.js";
 import "../chunks/chunk-G2FD7S3C.js";
 import {
@@ -19,7 +19,7 @@ import {
 } from "../chunks/chunk-GQZVR5DW.js";
 import "../chunks/chunk-AGUBPT45.js";
 import "../chunks/chunk-EHEIS3TE.js";
-import "../chunks/chunk-ZANALBSX.js";
+import "../chunks/chunk-XWH4LB56.js";
 import "../chunks/chunk-L4DBSRA2.js";
 import "../chunks/chunk-ENBFQH7Y.js";
 import "../chunks/chunk-HMXCN6PG.js";

package/dist/tubeMap/nodeColors.js

@@ -1,13 +1,13 @@
 import {
   tubeMapNodeColors
-} from "../chunks/chunk-U7JDTZSK.js";
-import "../chunks/chunk-72JZSR4B.js";
+} from "../chunks/chunk-GZ2F2CDT.js";
+import "../chunks/chunk-DTBQNR7P.js";
 import "../chunks/chunk-YUIKEUKY.js";
 import "../chunks/chunk-G2FD7S3C.js";
 import "../chunks/chunk-GQZVR5DW.js";
 import "../chunks/chunk-AGUBPT45.js";
 import "../chunks/chunk-EHEIS3TE.js";
-import "../chunks/chunk-ZANALBSX.js";
+import "../chunks/chunk-XWH4LB56.js";
 import "../chunks/chunk-L4DBSRA2.js";
 import "../chunks/chunk-ENBFQH7Y.js";
 import "../chunks/chunk-HMXCN6PG.js";

package/dist/types/figureData.d.ts

@@ -104,6 +104,10 @@ export declare function figureData(graph: Graph, layout: LayoutResult, o?: Figur
         deletions: number;
         deletionKey: string | null;
         fadedKey: string | null;
+        frequencyKey: {
+            label: string;
+            widthPx: number;
+        }[] | null;
     };
     panels: {
         panel: string[];
@@ -123,6 +127,7 @@ export declare function figureData(graph: Graph, layout: LayoutResult, o?: Figur
         name: string[];
         length: number[];
         depth: number[];
+        frequency: (number | null)[];
         backbone: boolean[];
         referenceVisits: number[];
         position: (number | null)[];
@@ -142,6 +147,7 @@ export interface GfaFigureSpec extends Omit<FigureDataOptions, 'region' | 'walks
     engine?: LayoutEngineKind;
     spacing?: number;
     componentSeparation?: number;
+    frequencies?: Record<string, number>;
 }
 export declare function laidOutGraph(text: string, name: string, region: FigureOptions['region'], spec: GfaFigureSpec): Promise<{
     graph: Graph;
@@ -165,6 +171,10 @@ export declare function gfaFigureData(text: string, name: string, spec?: GfaFigu
         deletions: number;
         deletionKey: string | null;
         fadedKey: string | null;
+        frequencyKey: {
+            label: string;
+            widthPx: number;
+        }[] | null;
     };
     panels: {
         panel: string[];
@@ -184,6 +194,7 @@ export declare function gfaFigureData(text: string, name: string, spec?: GfaFigu
         name: string[];
         length: number[];
         depth: number[];
+        frequency: (number | null)[];
         backbone: boolean[];
         referenceVisits: number[];
         position: (number | null)[];

package/dist/types/figureScene.d.ts

@@ -36,6 +36,6 @@ export declare function figureScene(graph: Graph, layout: LayoutResult, o: Figur
         scale: string | undefined;
     };
     contigThickness: number;
-    nodeWidth: "depth" | "uniform";
+    nodeWidth: "depth" | "frequency" | "uniform";
     geometry: (highlight: WalkLift | undefined, axis: AxisScale) => import("./renderer/types.js").RenderBatch;
 };

package/dist/types/index.d.ts

@@ -12,7 +12,7 @@ export { FORCE_LAYOUT_LABEL, LAYOUT_MODES, layoutModeByValue, modeUsesLayoutEngi
 export type { LayoutModeValue } from './layoutModes.js';
 export { COLOR_SCHEMES, resolveColorScheme } from './colorSchemes.js';
 export type { ColorScheme, ResolvedColorScheme } from './colorSchemes.js';
-export { NODE_WIDTHS, maxNodeWidthPx, meanDepth, nodeInk, nodeWidthPx, } from './nodeWidths.js';
+export { NODE_WIDTHS, frequencyKey, haplotypeCount, maxNodeWidthPx, meanDepth, nodeFrequency, nodeInk, nodeWidthPx, widthNorm, withFrequencies, } from './nodeWidths.js';
 export type { NodeWidth } from './nodeWidths.js';
 export { EDGE_WIDTHS, busiestEdge, edgeWidthFactor } from './edgeWidths.js';
 export type { EdgeWidth } from './edgeWidths.js';

package/dist/types/nodeWidths.d.ts

@@ -4,6 +4,10 @@ export declare const NODE_WIDTHS: readonly [{
     readonly value: "depth";
     readonly label: "By depth";
     readonly description: "Thicker the more paths carry a node, on the square root of its depth against the mean. A graph with one depth everywhere draws uniform.";
+}, {
+    readonly value: "frequency";
+    readonly label: "By frequency";
+    readonly description: "As wide as the share of haplotypes that pass a node, or its AF tag: full width at 100%, half at 50%, and wider where a haplotype passes it more than once.";
 }, {
     readonly value: "uniform";
     readonly label: "Uniform";
@@ -11,7 +15,15 @@ export declare const NODE_WIDTHS: readonly [{
 }];
 export type NodeWidth = (typeof NODE_WIDTHS)[number]['value'];
 export declare function meanDepth(graph: Graph): number;
-export declare function nodeWidthPx(node: GraphNode, contigThickness: number, nodeWidth: NodeWidth, mean: number): number;
+export declare function haplotypeCount(graph: Graph): number;
+export declare function nodeFrequency(node: GraphNode, haplotypes: number): number | undefined;
+export declare function withFrequencies(graph: Graph, frequencies: Readonly<Record<string, number>> | undefined): Graph;
+export declare function widthNorm(graph: Graph, nodeWidth: NodeWidth): number;
+export declare function frequencyKey(contigThickness: number): {
+    label: string;
+    widthPx: number;
+}[];
+export declare function nodeWidthPx(node: GraphNode, contigThickness: number, nodeWidth: NodeWidth, norm: number): number;
 export declare function maxNodeWidthPx(contigThickness: number, nodeWidth: NodeWidth): number;
 export declare function walkLaneWidthPx(width: number, lanes: number): number;
 export declare function nodeInk(graph: Graph | undefined, nodeById: ReadonlyMap<string, GraphNode> | undefined, contigThickness: number, nodeWidth: NodeWidth, lanes?: number): NodeInk;

package/dist/types/types.d.ts

@@ -7,6 +7,7 @@ export interface GraphNode {
     name: string;
     length: number;
     depth: number;
+    frequency?: number;
     stable?: StableCoordinate;
     samples?: string[];
     unclipped?: {

package/dist/types/version.d.ts

@@ -1 +1 @@
-export declare const version = "11.16.0";
+export declare const version = "11.17.0";

package/dist/version.js

@@ -1,6 +1,6 @@
 import {
   version
-} from "./chunks/chunk-NIB2A2UZ.js";
+} from "./chunks/chunk-42MMT5QM.js";
 export {
   version
 };

package/dist/viewport.js

@@ -5,13 +5,13 @@ import {
   screenToLayout,
   viewportOf,
   zoomAbout
-} from "./chunks/chunk-ZB5ADQYK.js";
-import "./chunks/chunk-3KGUENAV.js";
+} from "./chunks/chunk-ZZUSCQVT.js";
+import "./chunks/chunk-5LTWXDXK.js";
 import "./chunks/chunk-OPPVSPEF.js";
 import "./chunks/chunk-NAYS472K.js";
 import "./chunks/chunk-4FRX2SPT.js";
 import "./chunks/chunk-VPE4AYP7.js";
-import "./chunks/chunk-TUMJNAOL.js";
+import "./chunks/chunk-MSVYSCAH.js";
 import "./chunks/chunk-QYBZZI5H.js";
 import "./chunks/chunk-CFXXFHRK.js";
 import "./chunks/chunk-7L7MN2OM.js";

package/dist/walkEncoding.js

@@ -10,14 +10,14 @@ import {
   schemeCss,
   schemeRgb,
   splitFamilies
-} from "./chunks/chunk-JWXSEGEA.js";
-import "./chunks/chunk-72JZSR4B.js";
+} from "./chunks/chunk-BDMISSNR.js";
+import "./chunks/chunk-DTBQNR7P.js";
 import "./chunks/chunk-YUIKEUKY.js";
 import "./chunks/chunk-G2FD7S3C.js";
 import "./chunks/chunk-GQZVR5DW.js";
 import "./chunks/chunk-AGUBPT45.js";
 import "./chunks/chunk-EHEIS3TE.js";
-import "./chunks/chunk-ZANALBSX.js";
+import "./chunks/chunk-XWH4LB56.js";
 import "./chunks/chunk-L4DBSRA2.js";
 import "./chunks/chunk-ENBFQH7Y.js";
 import "./chunks/chunk-HMXCN6PG.js";

package/dist/walkHighlight.js

@@ -3,15 +3,15 @@ import {
   fadedKey,
   walkHighlight,
   walkLift
-} from "./chunks/chunk-WRSI6VK7.js";
-import "./chunks/chunk-JWXSEGEA.js";
-import "./chunks/chunk-72JZSR4B.js";
+} from "./chunks/chunk-PL6X2IJC.js";
+import "./chunks/chunk-BDMISSNR.js";
+import "./chunks/chunk-DTBQNR7P.js";
 import "./chunks/chunk-YUIKEUKY.js";
 import "./chunks/chunk-G2FD7S3C.js";
 import "./chunks/chunk-GQZVR5DW.js";
 import "./chunks/chunk-AGUBPT45.js";
 import "./chunks/chunk-EHEIS3TE.js";
-import "./chunks/chunk-ZANALBSX.js";
+import "./chunks/chunk-XWH4LB56.js";
 import "./chunks/chunk-L4DBSRA2.js";
 import "./chunks/chunk-LG2UK4MB.js";
 import "./chunks/chunk-ENBFQH7Y.js";

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/bandage-core",
-  "version": "11.16.0",
+  "version": "11.17.0",
   "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",
   "license": "GPL-3.0-or-later",
   "repository": {

package/dist/chunks/chunk-ZANALBSX.js

@@ -1,65 +0,0 @@
-// src/nodeWidths.ts
-var NODE_WIDTHS = [
-  {
-    value: "depth",
-    label: "By depth",
-    description: "Thicker the more paths carry a node, on the square root of its depth against the mean. A graph with one depth everywhere draws uniform."
-  },
-  {
-    value: "uniform",
-    label: "Uniform",
-    description: "Every node the same thickness."
-  }
-];
-var MIN_FACTOR = 0.3;
-var MAX_FACTOR = 3;
-function meanDepth(graph) {
-  let weighted = 0;
-  let length = 0;
-  for (const node of graph.nodes) {
-    weighted += node.depth * node.length;
-    length += node.length;
-  }
-  return length > 0 ? weighted / length : 0;
-}
-function depthWidthFactor(node, mean) {
-  if (!(mean > 0) || !(node.depth > 0)) {
-    return 1;
-  }
-  return Math.min(
-    MAX_FACTOR,
-    Math.max(MIN_FACTOR, Math.sqrt(node.depth / mean))
-  );
-}
-function nodeWidthPx(node, contigThickness, nodeWidth, mean) {
-  return contigThickness * (nodeWidth === "depth" ? depthWidthFactor(node, mean) : 1);
-}
-function maxNodeWidthPx(contigThickness, nodeWidth) {
-  return contigThickness * (nodeWidth === "depth" ? MAX_FACTOR : 1);
-}
-var MIN_WALK_LANE_PX = 4;
-function walkLaneWidthPx(width, lanes) {
-  return Math.max(width / lanes, MIN_WALK_LANE_PX);
-}
-function nodeInk(graph, nodeById, contigThickness, nodeWidth, lanes = 0) {
-  const mean = graph ? meanDepth(graph) : 0;
-  const reach = (width) => lanes > 0 ? walkLaneWidthPx(width, lanes) * lanes / 2 : width / 2;
-  return {
-    maxHalfWidthPx: reach(maxNodeWidthPx(contigThickness, nodeWidth)),
-    halfWidthPx: (id) => {
-      const node = nodeById?.get(id);
-      return reach(
-        node ? nodeWidthPx(node, contigThickness, nodeWidth, mean) : contigThickness
-      );
-    }
-  };
-}
-
-export {
-  NODE_WIDTHS,
-  meanDepth,
-  nodeWidthPx,
-  maxNodeWidthPx,
-  walkLaneWidthPx,
-  nodeInk
-};