jbrowse-plugin-graphgenomeviewer 7.1.0 → 7.1.2

package/dist/chunks/chunk-MURN3JPK.js.map

@@ -0,0 +1,7 @@
+{
+  "version": 3,
+  "sources": ["host:@jbrowse/render-core/useRenderingBackend", "../../src/GraphGenomeView/components/HoverLayer.tsx", "../../src/GraphGenomeView/components/legendStyles.ts", "../../src/GraphGenomeView/components/Legend.tsx", "../../node_modules/.pnpm/@jbrowse+bandage-core@10.2.6/node_modules/@jbrowse/bandage-core/dist/chunks/chunk-TDQLINVI.js", "../../src/GraphGenomeView/components/usePaneGestures.ts", "../../src/GraphGenomeView/components/FacetPanels.tsx", "../../node_modules/.pnpm/@mui+icons-material@9.5.0_@mui+material@9.5.0_@emotion+react@11.14.0_@types+react@19.3._be9a1cae12a24c212d9554fb2bd39b80/node_modules/@mui/icons-material/CropFree.mjs", "../../node_modules/.pnpm/@mui+icons-material@9.5.0_@mui+material@9.5.0_@emotion+react@11.14.0_@types+react@19.3._be9a1cae12a24c212d9554fb2bd39b80/node_modules/@mui/icons-material/ZoomIn.mjs", "../../node_modules/.pnpm/@mui+icons-material@9.5.0_@mui+material@9.5.0_@emotion+react@11.14.0_@types+react@19.3._be9a1cae12a24c212d9554fb2bd39b80/node_modules/@mui/icons-material/ZoomOut.mjs", "../../src/GraphGenomeView/components/ColorSchemeSelect.tsx", "../../src/GraphGenomeView/components/GraphStats.tsx", "../../src/GraphGenomeView/components/LayoutSelect.tsx", "../../src/GraphGenomeView/components/RepeatSelect.tsx", "../../node_modules/.pnpm/@mui+icons-material@9.5.0_@mui+material@9.5.0_@emotion+react@11.14.0_@types+react@19.3._be9a1cae12a24c212d9554fb2bd39b80/node_modules/@mui/icons-material/Close.mjs", "../../node_modules/.pnpm/@mui+icons-material@9.5.0_@mui+material@9.5.0_@emotion+react@11.14.0_@types+react@19.3._be9a1cae12a24c212d9554fb2bd39b80/node_modules/@mui/icons-material/MoreVert.mjs", "../../src/GraphGenomeView/components/SettingsMenu.tsx", "../../src/GraphGenomeView/components/WalkSelect.tsx", "../../src/GraphGenomeView/components/GraphToolbar.tsx", "../../src/GraphGenomeView/components/HoverTooltip.tsx", "../../node_modules/.pnpm/@mui+icons-material@9.5.0_@mui+material@9.5.0_@emotion+react@11.14.0_@types+react@19.3._be9a1cae12a24c212d9554fb2bd39b80/node_modules/@mui/icons-material/FilterList.mjs", "../../node_modules/.pnpm/@mui+icons-material@9.5.0_@mui+material@9.5.0_@emotion+react@11.14.0_@types+react@19.3._be9a1cae12a24c212d9554fb2bd39b80/node_modules/@mui/icons-material/FilterListOff.mjs", "../../node_modules/.pnpm/@mui+icons-material@9.5.0_@mui+material@9.5.0_@emotion+react@11.14.0_@types+react@19.3._be9a1cae12a24c212d9554fb2bd39b80/node_modules/@mui/icons-material/Info.mjs", "../../src/GraphGenomeView/components/PaneContextMenu.tsx", "../../src/GraphGenomeView/components/WalkStrip.tsx", "../../src/GraphGenomeView/components/WalkStripLocator.tsx", "../../src/GraphGenomeView/renderer/GraphRenderer.ts", "../../src/GraphGenomeView/components/GraphCanvas.tsx"],
+  "sourcesContent": ["const host = JBrowseExports[\"@jbrowse/render-core/useRenderingBackend\"]\nconst read = name =>\n  host != null && name in Object(host)\n    ? host[name]\n    : Object.assign(\n        function () {\n          throw new Error(\n            \"This JBrowse does not provide '\" + name + \"' from '\" + \"@jbrowse/render-core/useRenderingBackend\" + \"' to plugins: GraphGenomeView was built for a different JBrowse version, so update the plugin or JBrowse\",\n          )\n        },\n        { jbrowseHostMissing: name },\n      )\nexport const CONTEXT_LOST_REPORT_GRACE_MS = /* @__PURE__ */ read(\"CONTEXT_LOST_REPORT_GRACE_MS\")\nexport const OFFSCREEN_RELEASE_BAND = /* @__PURE__ */ read(\"OFFSCREEN_RELEASE_BAND\")\nexport const createGpuContextLostError = /* @__PURE__ */ read(\"createGpuContextLostError\")\nexport const createGpuDeviceLostError = /* @__PURE__ */ read(\"createGpuDeviceLostError\")\nexport const createGpuSurfaceLostError = /* @__PURE__ */ read(\"createGpuSurfaceLostError\")\nexport const isGpuContextLostError = /* @__PURE__ */ read(\"isGpuContextLostError\")\nexport const useRenderingBackend = /* @__PURE__ */ read(\"useRenderingBackend\")\nexport default host && host.__esModule ? host.default : host", "import { useEffect, useState } from 'react'\n\nimport { Canvas2DRenderer } from '@jbrowse/bandage-core/renderer/Canvas2DRenderer'\nimport { autorun } from 'mobx'\n\nimport { paneLayerStyle } from './PaneLayer'\n\nimport type { GraphPaneModel } from '../model'\n\nexport const hoverLayerStyle = paneLayerStyle(1)\n\n// The pane's hover, on a transparent canvas over its drawing and tube map\nexport default function HoverLayer({ model }: { model: GraphPaneModel }) {\n  const [canvas, setCanvas] = useState<HTMLCanvasElement | null>(null)\n  useEffect(() => {\n    if (!canvas) {\n      return undefined\n    }\n    const renderer = new Canvas2DRenderer(canvas)\n    const dispose = autorun(() => {\n      renderer.resize(model.paneWidth, model.canvasHeight)\n      model.paintHover(renderer, model.drawnBatch)\n    })\n    return () => {\n      dispose()\n      renderer.dispose()\n    }\n  }, [canvas, model])\n  return (\n    <canvas\n      ref={setCanvas}\n      data-testid=\"graph-hover-layer\"\n      style={hoverLayerStyle}\n    />\n  )\n}\n", "// A key's section of the legend panel, and one row in it: a swatch beside its\n// words\nexport const legendBoxStyle = {\n  background: 'rgba(255,255,255,0.82)',\n  padding: '3px 6px',\n  fontSize: 11,\n  lineHeight: '15px',\n  whiteSpace: 'nowrap' as const,\n}\n\nexport const legendRowStyle = { display: 'flex', alignItems: 'center', gap: 5 }\n\n// A line with no swatch, such as what the drawing folded away\nexport const legendNoteStyle = { color: '#666' }\n", "import type { ReactNode } from 'react'\n\nimport { rulerInk } from '@jbrowse/bandage-core/tubeMap/axis'\nimport { observer } from 'mobx-react'\n\nimport { SWATCH_PX, legendSections, swatchWidth } from '../legendSections'\nimport { legendBoxStyle, legendNoteStyle, legendRowStyle } from './legendStyles'\n\nimport type { LegendRow, LegendSwatch, Stop } from '../legendSections'\nimport type { GraphPaneModel } from '../model'\n\nfunction stopsCss(stops: readonly Stop[]) {\n  return stops.length === 1\n    ? stops[0]!.color\n    : `linear-gradient(to right, ${stops.map(s => `${s.color} ${s.offset * 100}%`).join(', ')})`\n}\n\nconst glyphStyle = {\n  width: SWATCH_PX,\n  flex: 'none',\n  textAlign: 'center' as const,\n  fontFamily: 'monospace',\n  fontSize: 12,\n}\n\nexport function LegendSwatchView({ swatch }: { swatch: LegendSwatch }) {\n  const width = swatchWidth(swatch)\n  const box = { width, flex: 'none' }\n  switch (swatch.kind) {\n    case 'fill':\n      return (\n        <div\n          style={{\n            ...box,\n            height: swatch.height ?? 8,\n            borderRadius: swatch.square ? 0 : 2,\n            background: stopsCss(swatch.stops),\n          }}\n        />\n      )\n    case 'bands':\n      return (\n        <div style={box}>\n          {swatch.bands.map((stops, i) => (\n            <div\n              key={i}\n              style={{\n                height: swatch.bands.length > 1 ? 3 : 4,\n                background: stopsCss(stops),\n              }}\n            />\n          ))}\n        </div>\n      )\n    case 'line':\n      return (\n        <div\n          style={{\n            ...box,\n            height: 3,\n            borderRadius: 2,\n            background: swatch.color,\n          }}\n        />\n      )\n    case 'halo':\n      return (\n        <svg width={width} height={10} style={{ flex: 'none' }}>\n          <line\n            x1={5}\n            y1={5}\n            x2={13}\n            y2={5}\n            stroke={swatch.color}\n            strokeOpacity={0.35}\n            strokeWidth={8}\n            strokeLinecap=\"round\"\n          />\n        </svg>\n      )\n    case 'outline':\n      return (\n        <div\n          style={{\n            ...box,\n            height: swatch.height,\n            boxSizing: 'border-box',\n            border: `${swatch.stroke}px solid ${swatch.color}`,\n            borderRadius: swatch.radius,\n          }}\n        />\n      )\n    case 'overhang':\n      return (\n        <svg width={width} height={10} style={{ flex: 'none' }}>\n          <path d=\"M0,5 L8,0 L8,10 Z M18,5 L10,0 L10,10 Z\" fill=\"#18181c\" />\n        </svg>\n      )\n    case 'glyph':\n      return <span style={glyphStyle}>{swatch.char}</span>\n    case 'tick':\n      return (\n        <div\n          style={{\n            ...box,\n            height: swatch.height,\n            display: 'flex',\n            justifyContent: 'center',\n            background: swatch.backing,\n          }}\n        >\n          <div style={{ width: 2, backgroundColor: swatch.color }} />\n        </div>\n      )\n    case 'bracket':\n      return (\n        <svg width={width} height={7} style={{ flex: 'none' }}>\n          <path\n            d={`M0.5,6 V1.5 H5.5 V6 M8.5,6 V1.5 H${SWATCH_PX - 0.5} V6`}\n            fill=\"none\"\n            stroke={rulerInk()}\n          />\n        </svg>\n      )\n    case 'blank':\n      return <span style={box} />\n  }\n}\n\n// One row: its swatch then its words, or a note with neither. `at`, where\n// the hovered node sits on a walk, stands in for the line under it.\nexport function LegendRowView({\n  row,\n  at,\n  hint,\n  after,\n}: {\n  row: LegendRow\n  at?: string\n  hint?: string\n  after?: ReactNode\n}) {\n  return row.swatch ? (\n    <div title={[row.title, hint].filter(Boolean).join(' \u00B7 ') || undefined}>\n      <div style={legendRowStyle}>\n        <LegendSwatchView swatch={row.swatch} />\n        <span>\n          {row.strong ? <strong>{row.strong}</strong> : null}\n          {row.label}\n        </span>\n        {after}\n      </div>\n      {at ? (\n        <div data-testid=\"graph-walk-at\">{at}</div>\n      ) : row.under ? (\n        <div>{row.under}</div>\n      ) : null}\n    </div>\n  ) : (\n    <div style={legendNoteStyle}>{row.label}</div>\n  )\n}\n\nconst closeStyle = {\n  pointerEvents: 'auto' as const,\n  cursor: 'pointer',\n  border: 'none',\n  background: 'none',\n  padding: '0 2px',\n  font: 'inherit',\n  textDecoration: 'underline',\n}\n\n// Every key the drawing needs, a section each\nexport const LegendPanel = observer(function LegendPanel({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  return (\n    <>\n      {legendSections(model).map(({ testid, rows }) => (\n        <div key={testid} style={legendBoxStyle} data-testid={testid}>\n          {rows.map(row => (\n            <LegendRowView\n              key={row.key}\n              row={row}\n              at={row.walk ? model.hoveredOn(row.walk) : undefined}\n              after={\n                row.closesBubble ? (\n                  <button\n                    type=\"button\"\n                    style={closeStyle}\n                    data-testid=\"graph-close-bubble\"\n                    onClick={() => {\n                      model.closeBubbles()\n                    }}\n                  >\n                    close\n                  </button>\n                ) : null\n              }\n            />\n          ))}\n        </div>\n      ))}\n    </>\n  )\n})\n", "// src/util/wheelZoom.ts\nvar ZOOM_PER_NOTCH = 1.1;\nvar NOTCH_PX = 100;\nvar LINE_PX = 40;\nvar PAGE_PX = 800;\nvar PINCH_GAIN = 10;\nvar MAX_NOTCHES_PER_EVENT = 2;\nfunction wheelZoomFactor(e) {\n  const px = e.deltaY * (e.deltaMode === 1 ? LINE_PX : e.deltaMode === 2 ? PAGE_PX : 1);\n  const notches = (e.ctrlKey ? PINCH_GAIN : 1) * px / NOTCH_PX;\n  return ZOOM_PER_NOTCH ** -Math.max(-MAX_NOTCHES_PER_EVENT, Math.min(MAX_NOTCHES_PER_EVENT, notches));\n}\n\nexport {\n  wheelZoomFactor\n};\n", "import { useEffect, useRef, useState } from 'react'\n\nimport {\n  findHoveredEdge,\n  findHoveredNode,\n} from '@jbrowse/bandage-core/util/hitDetection'\nimport { wheelZoomFactor } from '@jbrowse/bandage-core/util/wheelZoom'\nimport { screenToLayout } from '@jbrowse/bandage-core/viewport'\nimport { isAlive } from '@jbrowse/mobx-state-tree'\n\nimport { chipReadoutAt } from './LabelLayer'\n\nimport type { PaneContextAt } from './PaneContextMenu'\nimport type { GraphPaneModel } from '../model'\n\n// wheel events need passive:false to call preventDefault \u2014 React registers\n// wheel listeners as passive, so we must add this imperatively\nexport function useWheelZoom(\n  canvas: HTMLCanvasElement | null | undefined,\n  model: GraphPaneModel,\n) {\n  useEffect(() => {\n    if (!canvas) {\n      return undefined\n    }\n    const handleWheel = (e: WheelEvent) => {\n      if (model.hostPlacesX) {\n        return\n      }\n      if (model.host) {\n        e.stopPropagation()\n      }\n      e.preventDefault()\n      const rect = canvas.getBoundingClientRect()\n      model.zoom(\n        wheelZoomFactor(e),\n        e.clientX - rect.left,\n        e.clientY - rect.top,\n      )\n    }\n    canvas.addEventListener('wheel', handleWheel, { passive: false })\n    return () => {\n      canvas.removeEventListener('wheel', handleWheel)\n    }\n  }, [canvas, model])\n}\n\nconst CLICK_SLOP_PX = 3\n\n// The pointer on a canvas drawing the pane's transform: the pane's own, or any\n// facet panel, since the panels share it. Coordinates are read against the\n// canvas the event is on.\nexport function usePaneGestures(model: GraphPaneModel) {\n  // Where the pointer was last, and whether it has travelled since mousedown \u2014\n  // per-gesture scratch that nothing renders from, which is what a ref is for.\n  // Whether a drag is in progress is model state (`isPanning`/`draggingNode`),\n  // because the cursor renders from it.\n  const lastMouseRef = useRef({ x: 0, y: 0 })\n  const downRef = useRef({ x: 0, y: 0 })\n  const hasMovedRef = useRef(false)\n  // A pan and a hover are applied once per frame, not once per mousemove:\n  // mousemove fires in bursts well above the frame rate, and each pan step\n  // repainted the canvas and re-placed every overlay label, while each hover\n  // step ran both hit indexes. The pending pan is the summed delta; the pending\n  // hover is the last pointer position, since only the last one can be right.\n  const pendingRef = useRef<{\n    frame: number\n    pan: { dx: number; dy: number } | null\n    hover: { x: number; y: number } | null\n  }>({ frame: 0, pan: null, hover: null })\n  useEffect(\n    () => () => {\n      cancelAnimationFrame(pendingRef.current.frame)\n    },\n    [],\n  )\n  const [contextMenu, setContextMenu] = useState<PaneContextAt>()\n  const [hoveredChip, setHoveredChip] =\n    useState<ReturnType<typeof chipReadoutAt>>(undefined)\n\n  // the event's point in pane px, against the canvas it is on\n  function pointerAt(e: React.MouseEvent) {\n    const rect = (e.currentTarget as HTMLCanvasElement).getBoundingClientRect()\n    return { x: e.clientX - rect.left, y: e.clientY - rect.top }\n  }\n\n  // The node at a pane point, which mousedown, mousemove and click all need.\n  // Takes the point rather than the event so a caller that already has one\n  // does not pay for a second getBoundingClientRect.\n  function nodeAt(sx: number, sy: number) {\n    if (model.layoutResult?.tubeMap) {\n      return model.tubeMapNodeAt(sx, sy)\n    }\n    const onStrip = model.referenceStripNodeAt(sx, sy)\n    if (onStrip) {\n      return onStrip\n    }\n    const { nodePositions } = model\n    if (!nodePositions) {\n      return null\n    }\n    const { x, y } = screenToLayout(sx, sy, model, model.axisScale)\n    return findHoveredNode(\n      nodePositions,\n      x,\n      y,\n      model.axisScale,\n      model.positionsVersion,\n      model.nodeInk,\n    )\n  }\n\n  function edgeAt(sx: number, sy: number) {\n    const { nodePositions, graph } = model\n    if (!nodePositions || !graph) {\n      return null\n    }\n    const { x, y } = screenToLayout(sx, sy, model, model.axisScale)\n    return findHoveredEdge(\n      nodePositions,\n      graph,\n      x,\n      y,\n      model.axisScale,\n      // resolved, so the hit index bounds the ribbons that are actually\n      // drawn \u2014 see effectiveDrawPaths. Facet panels draw none.\n      model.effectiveDrawPaths && !model.facetPanels,\n      model.positionsVersion,\n      model.deletionEdgeIndexes,\n      model.hiddenEdgeIndexes,\n      model.deletionRoutes,\n      model.layoutResult?.stranded,\n    )\n  }\n\n  // The linear view drags by mouse events, so a hosted pane that pans itself\n  // keeps the mousedown from it; the gesture itself is the pointer's\n  function onMouseDown(e: React.MouseEvent) {\n    if (e.button === 0) {\n      e.preventDefault()\n      if (model.host && !model.hostPlacesX) {\n        e.stopPropagation()\n      }\n    }\n  }\n\n  // Captured, so a drag keeps going over a bubble chip or the gap between\n  // facet panels, and a finger drags as a mouse does\n  function onPointerDown(e: React.PointerEvent) {\n    if (e.button === 0) {\n      hasMovedRef.current = false\n      downRef.current = { x: e.clientX, y: e.clientY }\n      if (model.hostPlacesX) {\n        return\n      }\n      e.currentTarget.setPointerCapture(e.pointerId)\n      const { x, y } = pointerAt(e)\n      // a tube map's boxes are the layout's, and the strip's are bp, not\n      // positions to drag\n      const node =\n        model.layoutResult?.tubeMap ||\n        e.nativeEvent.offsetY < model.referenceStripZonePx\n          ? null\n          : nodeAt(x, y)\n      if (node) {\n        model.setDraggingNode(node)\n      } else {\n        model.setPanning(true)\n      }\n      lastMouseRef.current = { x: e.clientX, y: e.clientY }\n    }\n  }\n\n  function applyPending() {\n    const pending = pendingRef.current\n    const { pan, hover } = pending\n    pending.frame = 0\n    pending.pan = null\n    pending.hover = null\n    if (pan) {\n      model.setTransform(\n        model.scale,\n        model.translateX + pan.dx,\n        model.translateY + pan.dy,\n      )\n    }\n    if (!hover) {\n      return\n    }\n    const { x: sx, y: sy } = hover\n    const chip = model.facetPanels\n      ? undefined\n      : chipReadoutAt(model.overlayLabels, sx, sy)\n    setHoveredChip(was =>\n      was?.label === chip?.label && was?.readout === chip?.readout ? was : chip,\n    )\n    const bars = model.walkRowBars\n    if (bars) {\n      const i = model.walkRowAt(sx, sy)\n      model.setHoveredWalkRow(\n        i === undefined ? null : [bars.reference, ...bars.rows][i]!.name,\n      )\n    }\n    if (model.nodePositions && model.graph) {\n      const node = nodeAt(sx, sy)\n      model.setHoveredPanel(model.tubeMapPanelAt(sy))\n      model.setHoveredNode(node, { x: sx, y: sy })\n      model.setHoveredTube(\n        node === null && model.layoutResult?.tubeMap\n          ? model.tubeAt(sx, sy)\n          : null,\n      )\n      model.setHoveredEdge(\n        node || model.layoutResult?.tubeMap || !model.hoverLightsEverything\n          ? null\n          : edgeAt(sx, sy),\n      )\n    }\n  }\n\n  function scheduleFrame() {\n    if (!pendingRef.current.frame) {\n      pendingRef.current.frame = requestAnimationFrame(applyPending)\n    }\n  }\n\n  function dropPending() {\n    const pending = pendingRef.current\n    cancelAnimationFrame(pending.frame)\n    pending.frame = 0\n    pending.pan = null\n    pending.hover = null\n  }\n\n  function onPointerMove(e: React.PointerEvent) {\n    const dx = e.clientX - lastMouseRef.current.x\n    const dy = e.clientY - lastMouseRef.current.y\n    lastMouseRef.current = { x: e.clientX, y: e.clientY }\n\n    // from where the button went down, not per event: a slow drag moves a\n    // pixel at a time\n    if (\n      Math.hypot(e.clientX - downRef.current.x, e.clientY - downRef.current.y) >\n      CLICK_SLOP_PX\n    ) {\n      hasMovedRef.current = true\n    }\n\n    const pending = pendingRef.current\n    if (model.draggingNode) {\n      model.moveNode(model.draggingNode, dx / model.scaleX, dy / model.scaleY)\n    } else if (model.isPanning) {\n      pending.pan = {\n        dx: (pending.pan?.dx ?? 0) + dx,\n        dy: (pending.pan?.dy ?? 0) + dy,\n      }\n      scheduleFrame()\n    } else {\n      const rect = (\n        e.currentTarget as HTMLCanvasElement\n      ).getBoundingClientRect()\n      pending.hover = { x: e.clientX - rect.left, y: e.clientY - rect.top }\n      scheduleFrame()\n    }\n  }\n\n  // also the end of a capture the browser took back\n  function onPointerUp() {\n    if (isAlive(model)) {\n      model.stopDragging()\n    }\n  }\n\n  // also fired by the canvas unmounting under a resting pointer, after the\n  // view closing it has destroyed the model\n  function onPointerLeave() {\n    dropPending()\n    setHoveredChip(undefined)\n    if (!isAlive(model)) {\n      return\n    }\n    model.stopDragging()\n    model.clearHover()\n  }\n\n  // Right-clicking a node is the gesture that asks \"where is this?\", and until\n  // now the graph had no answer: a node named an assembly and an offset in its\n  // tags that nothing surfaced. The items come from the model's launch targets,\n  // so what is offered is what can actually be opened.\n  function onContextMenu(e: React.MouseEvent) {\n    const { x, y } = pointerAt(e)\n    const node = nodeAt(x, y)\n    const { clientX, clientY } = e\n    if (node) {\n      e.preventDefault()\n      setContextMenu({ clientX, clientY, nodeId: node })\n      return\n    }\n    const row = model.walkRowAt(x, y)\n    if (row !== undefined) {\n      e.preventDefault()\n      setContextMenu({ clientX, clientY, row })\n    }\n  }\n\n  function onClick(e: React.MouseEvent) {\n    // a click that ended a drag selects nothing\n    if (!hasMovedRef.current) {\n      const { x, y } = pointerAt(e)\n      const node = nodeAt(x, y)\n      model.setSelectedNode(node)\n      if (node) {\n        model.showNodeDetails(node)\n      }\n    }\n  }\n\n  const canvasStyle: React.CSSProperties = {\n    cursor: model.isPanning || model.draggingNode ? 'grabbing' : 'grab',\n    // a pane the linear view drags leaves a finger its scroll\n    touchAction: model.hostPlacesX ? 'auto' : 'none',\n    overscrollBehavior: 'contain',\n  }\n\n  return {\n    canvasStyle,\n    handlers: {\n      onMouseDown,\n      onPointerDown,\n      onPointerMove,\n      onPointerUp,\n      onPointerCancel: onPointerUp,\n      onLostPointerCapture: onPointerUp,\n      onPointerLeave,\n      onClick,\n      onContextMenu,\n    },\n    contextMenu,\n    hoveredChip,\n    closeContextMenu: () => {\n      setContextMenu(undefined)\n    },\n  }\n}\n\nexport type PaneHandlers = ReturnType<typeof usePaneGestures>['handlers']\n", "import { useEffect, useState } from 'react'\n\nimport { FACET_GAP_PX, FACET_TITLE_PX } from '@jbrowse/bandage-core/facetGrid'\nimport { Canvas2DRenderer } from '@jbrowse/bandage-core/renderer/Canvas2DRenderer'\nimport { autorun, computed } from 'mobx'\nimport { observer } from 'mobx-react'\n\nimport { hoverLayerStyle } from './HoverLayer'\nimport { LegendRowView } from './Legend'\nimport { useWheelZoom } from './usePaneGestures'\nimport { facetKeyRows, walkKeyRow } from '../legendSections'\nimport { FACET_KEY_ROW_PX } from '../pane/fitViews'\nimport { PAPER_CSS } from '../pane/paneBase'\n\nimport type { PaneHandlers } from './usePaneGestures'\nimport type { GraphPaneModel } from '../model'\nimport type { WalkLift } from '@jbrowse/bandage-core/walkHighlight'\n\n// The pane faceted by walk: the same layout drawn once per lifted walk, each\n// panel with that walk alone shading along itself, so walks compare by where\n// they go rather than by which lane is which colour. The panels share the\n// pane's transform, so a pan, zoom or hover in one is in all of them.\n\nconst gridStyle = {\n  position: 'absolute' as const,\n  left: 0,\n  top: 0,\n  zIndex: 4,\n  display: 'grid',\n  gap: FACET_GAP_PX,\n  lineHeight: 'normal',\n}\n\nconst titleStyle = {\n  height: FACET_TITLE_PX,\n  padding: '2px 6px',\n  boxSizing: 'border-box' as const,\n  fontFamily: 'inherit',\n  fontSize: 11,\n  color: 'inherit',\n  cursor: 'pointer',\n  border: 'none',\n  background: 'none',\n  textAlign: 'left' as const,\n  display: 'block',\n}\n\nconst panelStyle = { position: 'relative' as const }\n\nconst keyStyle = {\n  gridColumn: '1 / -1',\n  height: FACET_KEY_ROW_PX,\n  padding: '2px 6px',\n  boxSizing: 'border-box' as const,\n  display: 'flex',\n  gap: 14,\n  fontSize: 11,\n  lineHeight: '15px',\n}\n\nconst FacetPanel = observer(function FacetPanel({\n  model,\n  lift,\n  width,\n  height,\n  cell,\n  handlers,\n  canvasStyle,\n}: {\n  model: GraphPaneModel\n  lift: WalkLift\n  width: number\n  height: number\n  cell: { gridRow: number; gridColumn: number }\n  handlers: PaneHandlers\n  canvasStyle: React.CSSProperties\n}) {\n  const [canvas, setCanvas] = useState<HTMLCanvasElement | null>(null)\n  const [hoverCanvas, setHoverCanvas] = useState<HTMLCanvasElement | null>(null)\n  const walk = lift.walks[0]!\n  useWheelZoom(canvas, model)\n\n  useEffect(() => {\n    if (!canvas || !hoverCanvas) {\n      return undefined\n    }\n    const renderer = new Canvas2DRenderer(canvas)\n    const hover = new Canvas2DRenderer(hoverCanvas)\n    const drawing = computed(() => model.buildDrawing(lift, false))\n    let uploaded: ReturnType<typeof model.buildDrawing>\n    const disposers = [\n      autorun(() => {\n        const grid = model.facetGrid\n        if (grid) {\n          renderer.resize(grid.width, grid.height)\n        }\n        const built = drawing.get()\n        if (!built) {\n          return\n        }\n        if (built !== uploaded) {\n          renderer.uploadGeometry(built.batch)\n          uploaded = built\n        }\n        model.applySelection(renderer)\n        model.paint(renderer)\n      }),\n      autorun(() => {\n        const grid = model.facetGrid\n        if (grid) {\n          hover.resize(grid.width, grid.height)\n        }\n        const built = drawing.get()\n        if (built) {\n          model.paintHover(hover, built.batch)\n        }\n      }),\n    ]\n    return () => {\n      for (const dispose of disposers) {\n        dispose()\n      }\n      renderer.dispose()\n      hover.dispose()\n    }\n  }, [canvas, hoverCanvas, model, lift])\n\n  const label = model.walkLabel(walk.name)\n  return (\n    <div style={cell}>\n      <button\n        type=\"button\"\n        style={titleStyle}\n        data-testid=\"graph-facet-title\"\n        onClick={() => {\n          model.liftWalks([walk.name])\n          model.setFacet('')\n        }}\n      >\n        <LegendRowView\n          row={walkKeyRow(model, walk)}\n          hint={`click to lift ${label} alone`}\n          at={model.hoveredOn(walk)}\n        />\n      </button>\n      <div style={panelStyle}>\n        <canvas\n          ref={setCanvas}\n          data-testid=\"graph-facet-canvas\"\n          style={{ ...canvasStyle, width, height, display: 'block' }}\n          {...handlers}\n        />\n        <canvas ref={setHoverCanvas} style={hoverLayerStyle} />\n      </div>\n    </div>\n  )\n})\n\nconst FacetPanels = observer(function FacetPanels({\n  model,\n  handlers,\n  canvasStyle,\n}: {\n  model: GraphPaneModel\n  handlers: PaneHandlers\n  canvasStyle: React.CSSProperties\n}) {\n  const panels = model.facetPanels\n  const grid = model.facetGrid\n  const place = model.facetPlacement\n  if (!panels || !grid || !place) {\n    return null\n  }\n  const { columns, width, height } = grid\n  return (\n    <div\n      data-testid=\"graph-facet-panels\"\n      style={{\n        ...gridStyle,\n        width: model.paneWidth,\n        minHeight: model.canvasHeight,\n        gridTemplateColumns: `repeat(${columns}, ${width}px)`,\n        background: PAPER_CSS,\n      }}\n    >\n      {panels.map((lift, i) => (\n        <FacetPanel\n          key={lift.walks[0]!.name}\n          model={model}\n          lift={lift}\n          width={width}\n          height={height}\n          cell={{\n            gridRow: Math.floor(place.cells[i]! / columns) + 1,\n            gridColumn: (place.cells[i]! % columns) + 1,\n          }}\n          handlers={handlers}\n          canvasStyle={canvasStyle}\n        />\n      ))}\n      <div\n        style={{\n          ...keyStyle,\n          gridRow: Math.floor(Math.max(...place.cells) / columns) + 2,\n        }}\n        data-testid=\"graph-facet-key\"\n      >\n        {facetKeyRows(model).map(row => (\n          <LegendRowView key={row.key} row={row} />\n        ))}\n      </div>\n    </div>\n  )\n})\n\nexport default FacetPanels\n", "\"use client\";\n\nimport createSvgIcon from \"./utils/createSvgIcon.mjs\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nexport default createSvgIcon(/*#__PURE__*/_jsx(\"path\", {\n  d: \"M3 5v4h2V5h4V3H5c-1.1 0-2 .9-2 2m2 10H3v4c0 1.1.9 2 2 2h4v-2H5zm14 4h-4v2h4c1.1 0 2-.9 2-2v-4h-2zm0-16h-4v2h4v4h2V5c0-1.1-.9-2-2-2\"\n}), 'CropFree');", "\"use client\";\n\nimport createSvgIcon from \"./utils/createSvgIcon.mjs\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nexport default createSvgIcon([/*#__PURE__*/_jsx(\"path\", {\n  d: \"M15.5 14h-.79l-.28-.27C15.41 12.59 16 11.11 16 9.5 16 5.91 13.09 3 9.5 3S3 5.91 3 9.5 5.91 16 9.5 16c1.61 0 3.09-.59 4.23-1.57l.27.28v.79l5 4.99L20.49 19zm-6 0C7.01 14 5 11.99 5 9.5S7.01 5 9.5 5 14 7.01 14 9.5 11.99 14 9.5 14\"\n}, \"0\"), /*#__PURE__*/_jsx(\"path\", {\n  d: \"M12 10h-2v2H9v-2H7V9h2V7h1v2h2z\"\n}, \"1\")], 'ZoomIn');", "\"use client\";\n\nimport createSvgIcon from \"./utils/createSvgIcon.mjs\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nexport default createSvgIcon(/*#__PURE__*/_jsx(\"path\", {\n  d: \"M15.5 14h-.79l-.28-.27C15.41 12.59 16 11.11 16 9.5 16 5.91 13.09 3 9.5 3S3 5.91 3 9.5 5.91 16 9.5 16c1.61 0 3.09-.59 4.23-1.57l.27.28v.79l5 4.99L20.49 19zm-6 0C7.01 14 5 11.99 5 9.5S7.01 5 9.5 5 14 7.01 14 9.5 11.99 14 9.5 14M7 9h5v1H7z\"\n}), 'ZoomOut');", "import { COLOR_SCHEMES } from '@jbrowse/bandage-core/colorSchemes'\nimport { observer } from 'mobx-react'\n\nimport LabelledSelect from './LabelledSelect'\n\nimport type { GraphPaneModel } from '../model'\n\nconst ColorSchemeSelect = observer(function ColorSchemeSelect({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const fixed = model.colorSchemeLock\n  return (\n    <LabelledSelect\n      label=\"Color\"\n      size=\"small\"\n      sx={{ minWidth: 100 }}\n      disabled={fixed !== undefined}\n      title={fixed?.why}\n      shown={fixed?.value}\n      value={model.chosenColorScheme}\n      options={COLOR_SCHEMES}\n      onChange={scheme => {\n        model.setColorScheme(scheme)\n      }}\n    />\n  )\n})\n\nexport default ColorSchemeSelect\n", "import { Typography } from '@mui/material'\nimport { observer } from 'mobx-react'\nimport { makeStyles } from 'tss-react/mui'\n\nimport type { GraphPaneModel } from '../model'\n\nconst useStyles = makeStyles()({\n  stats: {\n    marginLeft: 'auto',\n  },\n  perf: {\n    color: '#888',\n    fontVariantNumeric: 'tabular-nums',\n  },\n})\n\nfunction fmtMs(ms: number | undefined) {\n  return ms === undefined ? '\u2013' : `${Math.round(ms)}ms`\n}\n\n// The perf READOUT, off by default: it sat in the toolbar of every published\n// graph figure, where one machine's fetch time is a number a reader has to work\n// out is not about them. `showPerf` is in the settings menu.\n//\n// The numbers themselves are not conditional \u2014 they ride the stats element's\n// data-* attributes either way (see GraphStats), so a browser test asserting a\n// timing budget never depends on a display setting, and turning the text off\n// costs no coverage. They live there rather than on this element so that\n// switching the text off leaves no empty node behind to carry them.\nconst GraphPerf = observer(function GraphPerf({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const { classes } = useStyles()\n  const { lastFetchMs, lastLayoutMs, lastGeometryMs } = model\n  const hasMetrics =\n    lastFetchMs !== undefined ||\n    lastLayoutMs !== undefined ||\n    lastGeometryMs !== undefined\n  return model.showPerf && hasMetrics ? (\n    <Typography\n      variant=\"caption\"\n      className={classes.perf}\n      data-testid=\"graph-perf-stats\"\n    >\n      fetch {fmtMs(lastFetchMs)} \u00B7 layout {fmtMs(lastLayoutMs)} \u00B7 geom{' '}\n      {fmtMs(lastGeometryMs)}\n    </Typography>\n  ) : null\n})\n\nconst GraphStats = observer(function GraphStats({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const { classes } = useStyles()\n  return (\n    <div\n      className={classes.stats}\n      data-testid=\"graph-stats\"\n      data-node-count={model.nodeCount}\n      data-edge-count={model.edgeCount}\n      data-path-count={model.pathCount}\n      // unconditional, whatever `showPerf` is doing to the text beside them \u2014\n      // see GraphPerf\n      data-fetch-ms={model.lastFetchMs ?? ''}\n      data-layout-ms={model.lastLayoutMs ?? ''}\n      data-geometry-ms={model.lastGeometryMs ?? ''}\n      data-geometry-strokes={model.lastGeometryStrokeCount ?? ''}\n    >\n      <Typography variant=\"body2\" component=\"span\">\n        {model.nodeCount} nodes, {model.edgeCount} edges\n        {model.pathCount > 0 ? `, ${model.pathCount} paths` : ''}\n      </Typography>{' '}\n      <GraphPerf model={model} />\n    </div>\n  )\n})\n\nexport default GraphStats\n", "import { LAYOUT_MODES } from '@jbrowse/bandage-core/layoutModes'\nimport { observer } from 'mobx-react'\n\nimport LabelledSelect from './LabelledSelect'\n\nimport type { GraphPaneModel } from '../model'\n\nconst LayoutSelect = observer(function LayoutSelect({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const { graph } = model\n  return (\n    <LabelledSelect\n      label=\"Layout\"\n      size=\"small\"\n      sx={{ minWidth: 140 }}\n      testId=\"graph-layout-select\"\n      value={model.chosenLayoutMode}\n      options={LAYOUT_MODES.map(({ value, label, description, available }) => ({\n        value,\n        label,\n        description,\n        disabled: graph ? !available(graph) : false,\n      }))}\n      onChange={mode => {\n        void model.switchLayout(mode)\n      }}\n    />\n  )\n})\n\nexport default LayoutSelect\n", "import { observer } from 'mobx-react'\n\nimport LabelledSelect from './LabelledSelect'\n\nimport type { GraphPaneModel } from '../model'\n\n// Which tandem repeat array walk rows slice each walk by and tile, or the\n// whole window\nconst RepeatSelect = observer(function RepeatSelect({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const { repeatChoices } = model\n  if (model.chosenLayoutMode !== 'walkrows' || repeatChoices.length === 0) {\n    return null\n  }\n  return (\n    <LabelledSelect\n      label=\"Repeat\"\n      size=\"small\"\n      sx={{ minWidth: 130, maxWidth: 260 }}\n      testId=\"graph-repeat-select\"\n      value={model.selectedRepeat?.key ?? ''}\n      options={[\n        { value: '', label: 'Whole window' },\n        ...repeatChoices.map(({ key, name, unit }) => ({\n          value: key,\n          label: `${name} \u00B7 ${unit.toLocaleString()} bp unit`,\n        })),\n      ]}\n      onChange={key => {\n        model.setRepeatKey(key)\n      }}\n    />\n  )\n})\n\nexport default RepeatSelect\n", "\"use client\";\n\nimport createSvgIcon from \"./utils/createSvgIcon.mjs\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nexport default createSvgIcon(/*#__PURE__*/_jsx(\"path\", {\n  d: \"M19 6.41 17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12z\"\n}), 'Close');", "\"use client\";\n\nimport createSvgIcon from \"./utils/createSvgIcon.mjs\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nexport default createSvgIcon(/*#__PURE__*/_jsx(\"path\", {\n  d: \"M12 8c1.1 0 2-.9 2-2s-.9-2-2-2-2 .9-2 2 .9 2 2 2m0 2c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2m0 6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2\"\n}), 'MoreVert');", "import { CascadingMenuButton } from '@jbrowse/core/ui'\nimport { getSession } from '@jbrowse/core/util'\nimport CloseIcon from '@mui/icons-material/Close'\nimport MoreVertIcon from '@mui/icons-material/MoreVert'\nimport RouteIcon from '@mui/icons-material/Route'\nimport SettingsIcon from '@mui/icons-material/Settings'\nimport VisibilityIcon from '@mui/icons-material/Visibility'\nimport { observer } from 'mobx-react'\n\nimport GraphSettingsDialog from './GraphSettingsDialog'\n\nimport type { GraphPaneModel } from '../model'\n\nconst SettingsMenu = observer(function SettingsMenu({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  // the toolbar beside this menu picks the walks and the repeat\n  const haplotypes = model.highlightMenuItems({ picks: false })\n\n  return (\n    <CascadingMenuButton\n      size=\"small\"\n      tooltip=\"Graph options\"\n      menuItems={[\n        ...(haplotypes.length > 0\n          ? [{ label: 'Haplotypes', icon: RouteIcon, subMenu: haplotypes }]\n          : []),\n        ...model.layoutOptionMenuItems({ repeat: false }),\n        {\n          label: 'Show...',\n          icon: VisibilityIcon,\n          subMenu: [\n            ...model.showMenuItems(),\n            ...(model.modeDrawsNodes && model.walkChoices.length > 1\n              ? [\n                  {\n                    type: 'checkbox' as const,\n                    label: 'Show walk rows under the graph',\n                    checked: model.walkStrip,\n                    onClick: () => {\n                      model.setWalkStrip(!model.walkStrip)\n                    },\n                  },\n                ]\n              : []),\n            {\n              type: 'checkbox' as const,\n              label: 'Show timings',\n              checked: model.showPerf,\n              onClick: () => {\n                model.setShowPerf(!model.showPerf)\n              },\n            },\n          ],\n        },\n        { type: 'divider' as const },\n        {\n          label: 'Graph settings...',\n          icon: SettingsIcon,\n          helpText:\n            'Subgraph node limit; node width and path colors; the force-directed layout engine',\n          onClick: () => {\n            getSession(model).queueDialog(onClose => [\n              GraphSettingsDialog,\n              { model, open: true, onClose },\n            ])\n          },\n        },\n        { type: 'divider' as const },\n        {\n          label: 'Close graph',\n          icon: CloseIcon,\n          onClick: () => {\n            model.clearGraph()\n          },\n        },\n      ]}\n    >\n      <MoreVertIcon />\n    </CascadingMenuButton>\n  )\n})\n\nexport default SettingsMenu\n", "import { useId } from 'react'\n\nimport { getSession } from '@jbrowse/core/util'\nimport {\n  Button,\n  Checkbox,\n  FormControl,\n  InputLabel,\n  ListItemText,\n  MenuItem,\n  Select,\n} from '@mui/material'\nimport { observer } from 'mobx-react'\nimport { makeStyles } from 'tss-react/mui'\n\nimport { ChooseWalksDialog, WALK_MENU_ITEMS } from '../pane/paneBase'\n\nimport type { GraphPaneModel } from '../model'\n\nconst useStyles = makeStyles()({\n  formControl: {\n    minWidth: 130,\n    maxWidth: 260,\n  },\n})\n\n// Which walks to lift out of the drawing: Bandage's path highlight, for as many\n// of the haplotypes a GBZ cut carries as the reader picks. Absent from a graph\n// with no walks, and from a tube map, whose tubes are the walks.\nconst WalkSelect = observer(function WalkSelect({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const { classes } = useStyles()\n  const labelId = useId()\n  const { walkChoices } = model\n  if (walkChoices.length === 0 || !model.liftsWalks) {\n    return null\n  }\n  const names = new Set(walkChoices.map(c => c.name))\n  const labels = new Map(walkChoices.map(c => [c.name, c.label]))\n  const picked = model.walkLayers\n    .map(layer => layer.walk)\n    .filter(name => names.has(name))\n  if (walkChoices.length > WALK_MENU_ITEMS) {\n    return (\n      <Button\n        size=\"small\"\n        variant=\"outlined\"\n        color=\"inherit\"\n        data-testid=\"graph-walk-choose\"\n        onClick={() => {\n          getSession(model).queueDialog(onClose => [\n            ChooseWalksDialog,\n            { model, onClose },\n          ])\n        }}\n      >\n        {picked.length > 0\n          ? `${picked.length} of ${walkChoices.length} haplotypes`\n          : 'Highlight haplotypes...'}\n      </Button>\n    )\n  }\n  return (\n    <FormControl size=\"small\" className={classes.formControl}>\n      <InputLabel id={labelId}>Highlight</InputLabel>\n      <Select\n        labelId={labelId}\n        multiple\n        value={picked}\n        label=\"Highlight\"\n        data-testid=\"graph-walk-select\"\n        renderValue={selected => selected.map(n => labels.get(n)).join(', ')}\n        onChange={e => {\n          const { value } = e.target\n          model.liftWalks(typeof value === 'string' ? value.split(',') : value)\n        }}\n      >\n        {walkChoices.map(({ name, label }) => (\n          <MenuItem key={name} value={name} dense>\n            <Checkbox size=\"small\" checked={picked.includes(name)} />\n            <ListItemText primary={label} />\n          </MenuItem>\n        ))}\n      </Select>\n    </FormControl>\n  )\n})\n\nexport default WalkSelect\n", "import CropFreeIcon from '@mui/icons-material/CropFree'\nimport ZoomInIcon from '@mui/icons-material/ZoomIn'\nimport ZoomOutIcon from '@mui/icons-material/ZoomOut'\nimport { IconButton, Tooltip, Typography } from '@mui/material'\nimport { observer } from 'mobx-react'\nimport { makeStyles } from 'tss-react/mui'\n\nimport ColorSchemeSelect from './ColorSchemeSelect'\nimport GraphStats from './GraphStats'\nimport LayoutSelect from './LayoutSelect'\nimport RepeatSelect from './RepeatSelect'\nimport SettingsMenu from './SettingsMenu'\nimport WalkSelect from './WalkSelect'\n\nimport type { GraphPaneModel } from '../model'\n\nconst useStyles = makeStyles()({\n  toolbar: {\n    display: 'flex',\n    alignItems: 'center',\n    gap: 4,\n    padding: '2px 4px',\n    borderBottom: '1px solid #ddd',\n  },\n})\n\nconst ZoomDisplay = observer(function ZoomDisplay({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  return <Typography variant=\"body2\">{model.zoomPercent}</Typography>\n})\n\nconst GraphToolbar = observer(function GraphToolbar({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const { classes } = useStyles()\n  const zoomAboutCentre = (factor: number) => {\n    model.zoom(factor, model.viewBox.width / 2, model.viewBox.height / 2)\n  }\n  return (\n    <div className={classes.toolbar}>\n      <LayoutSelect model={model} />\n      <ColorSchemeSelect model={model} />\n      <WalkSelect model={model} />\n      <RepeatSelect model={model} />\n      <Tooltip title=\"Zoom in\">\n        <IconButton\n          size=\"small\"\n          onClick={() => {\n            zoomAboutCentre(1.5)\n          }}\n        >\n          <ZoomInIcon />\n        </IconButton>\n      </Tooltip>\n      <Tooltip title=\"Zoom out\">\n        <IconButton\n          size=\"small\"\n          onClick={() => {\n            zoomAboutCentre(1 / 1.5)\n          }}\n        >\n          <ZoomOutIcon />\n        </IconButton>\n      </Tooltip>\n      <Tooltip title=\"Zoom to fit\">\n        <IconButton\n          size=\"small\"\n          onClick={() => {\n            model.refitView()\n          }}\n        >\n          <CropFreeIcon />\n        </IconButton>\n      </Tooltip>\n      <ZoomDisplay model={model} />\n      <GraphStats model={model} />\n      <SettingsMenu model={model} />\n    </div>\n  )\n})\n\nexport default GraphToolbar\n", "import type { ReactNode } from 'react'\n\nimport { edgeHoverText, regionLabel } from '@jbrowse/bandage-core/hoverText'\nimport { observer } from 'mobx-react'\n\nimport { nodeOwnLocation } from '../../launchFromGraph/contributors'\nimport { TOOLTIP_INSET_PX } from '../pane/fitViews'\n\nimport type { chipReadoutAt } from './LabelLayer'\nimport type { GraphPaneModel } from '../model'\n\n// Bottom right of the canvas, clear of the row labels on the left edge and of\n// a walk strip under the canvas. Where the legend reaches down to it, it moves\n// left of the legend.\nconst tooltipStyle = {\n  position: 'absolute' as const,\n  bottom: TOOLTIP_INSET_PX,\n  lineHeight: 'normal',\n  background: 'rgba(0,0,0,0.75)',\n  color: 'white',\n  padding: '4px 8px',\n  borderRadius: 4,\n  fontSize: 12,\n  pointerEvents: 'none' as const,\n  zIndex: 6,\n}\n\ntype Readout = NonNullable<ReturnType<typeof chipReadoutAt>>\n\nfunction labelled({ label, readout }: Readout) {\n  return (\n    <>\n      <strong>{label}</strong> \u2014 {readout}\n    </>\n  )\n}\n\n// What the pointer is on, the most specific first: a gene chip, a node, an\n// edge, then a walk row or a tube\nfunction hoverTip(\n  model: GraphPaneModel,\n  chip: Readout | undefined,\n): { testId?: string; body: ReactNode } | undefined {\n  if (chip) {\n    return { testId: 'graph-chip-tooltip', body: labelled(chip) }\n  }\n  const node = model.hoveredNode\n    ? model.hoverNodeById?.get(model.hoveredNode)\n    : undefined\n  if (node) {\n    const merged = model.hoverDrawing?.members.get(node.id)\n    const own = nodeOwnLocation(node)\n    return {\n      body: (\n        <>\n          <strong>{node.name}</strong>\n          {merged ? ` and ${merged.length - 1} more` : ''} \u2014{' '}\n          {node.length.toLocaleString()} bp, depth {node.depth.toFixed(1)}\n          {/* the assembly that contributed the segment, and where on it */}\n          {own ? (\n            <>\n              <br />\n              {own.sample} {regionLabel(own)} (rank {node.stable?.rank})\n            </>\n          ) : null}\n        </>\n      ),\n    }\n  }\n  const edge =\n    model.hoveredEdge === null\n      ? undefined\n      : model.graph?.edges[model.hoveredEdge]\n  if (edge) {\n    const text = edgeHoverText(\n      edge,\n      model.deletions.find(d => d.edgeIndex === model.hoveredEdge),\n      id => model.nodeById?.get(id)?.name ?? id,\n    )\n    // a deletion edge skips backbone that some haplotype lacks, so its\n    // readout gives the bp skipped\n    return {\n      body: text.deletion ? (\n        <>\n          <strong>Deletion</strong> {text.deletion.bp}\n          <br />\n          {text.deletion.where}\n        </>\n      ) : (\n        <>Edge: {text.ends}</>\n      ),\n    }\n  }\n  const walkRow = model.hoveredWalkRowText\n  if (walkRow) {\n    return { testId: 'graph-walk-row-tooltip', body: labelled(walkRow) }\n  }\n  const tube = model.hoveredTubeText\n  return tube\n    ? { testId: 'graph-tube-tooltip', body: labelled(tube) }\n    : undefined\n}\n\nconst HoverTooltip = observer(function HoverTooltip({\n  model,\n  chip,\n}: {\n  model: GraphPaneModel\n  chip: Readout | undefined\n}) {\n  const tip = hoverTip(model, chip)\n  return tip ? (\n    <div\n      style={{ ...tooltipStyle, right: model.tooltipRightPx }}\n      data-testid={tip.testId}\n    >\n      {tip.body}\n    </div>\n  ) : null\n})\n\nexport default HoverTooltip\n", "\"use client\";\n\nimport createSvgIcon from \"./utils/createSvgIcon.mjs\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nexport default createSvgIcon(/*#__PURE__*/_jsx(\"path\", {\n  d: \"M10 18h4v-2h-4zM3 6v2h18V6zm3 7h12v-2H6z\"\n}), 'FilterList');", "\"use client\";\n\nimport createSvgIcon from \"./utils/createSvgIcon.mjs\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nexport default createSvgIcon(/*#__PURE__*/_jsx(\"path\", {\n  d: \"M10.83 8H21V6H8.83zm5 5H18v-2h-4.17zM14 16.83V18h-4v-2h3.17l-3-3H6v-2h2.17l-3-3H3V6h.17L1.39 4.22 2.8 2.81l18.38 18.38-1.41 1.41z\"\n}), 'FilterListOff');", "\"use client\";\n\nimport createSvgIcon from \"./utils/createSvgIcon.mjs\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nexport default createSvgIcon(/*#__PURE__*/_jsx(\"path\", {\n  d: \"M12 2C6.48 2 2 6.48 2 12s4.48 10 10 10 10-4.48 10-10S17.52 2 12 2m1 15h-2v-6h2zm0-8h-2V7h2z\"\n}), 'Info');", "import { regionLabel } from '@jbrowse/bandage-core/hoverText'\nimport { ContextMenu } from '@jbrowse/core/ui'\nimport FilterListIcon from '@mui/icons-material/FilterList'\nimport FilterListOffIcon from '@mui/icons-material/FilterListOff'\nimport InfoIcon from '@mui/icons-material/Info'\nimport LineStyleIcon from '@mui/icons-material/LineStyle'\n\nimport { nodeLaunchMenuItems } from '../../launchFromGraph/graphMenuItems'\n\nimport type { GraphPaneModel } from '../model'\nimport type { WalkRows } from '@jbrowse/bandage-core/layout/walkRows'\nimport type { ContextMenuAnchor, MenuItem } from '@jbrowse/core/ui'\n\n// What a right-click landed on: a node, or a row of `bars`, walk rows' own\n// unless a strip's\nexport type PaneContextAt = ContextMenuAnchor &\n  ({ nodeId: string } | { row: number; bars?: WalkRows })\n\nconst AT_POINTER = { x: 0, y: 0 }\n\n// Flat rather than under a \"Launch view\" submenu, since its two or three items\n// are all about the node just clicked\nfunction nodeMenuItems(model: GraphPaneModel, nodeId: string): MenuItem[] {\n  const { own, reference, highlight } = model.nodeLaunchTargets(nodeId)\n  return [\n    {\n      label: 'Node details',\n      icon: InfoIcon,\n      onClick: () => {\n        model.showNodeDetails(nodeId)\n      },\n    },\n    ...nodeLaunchMenuItems({\n      own,\n      reference,\n      highlight,\n      onShowLinear: target => {\n        model.showInLinearView(target)\n      },\n      onHighlight: model.canHighlightInLinearView\n        ? target => {\n            model.highlightInLinearView(target)\n          }\n        : undefined,\n    }),\n  ]\n}\n\n// A walk row's bar stands for a span of its haplotype's own contig, so the\n// question a right-click asks is answered by a linear view on that assembly,\n// with its genes\nfunction walkRowMenuItems(\n  model: GraphPaneModel,\n  row: number,\n  bars: WalkRows | undefined,\n): MenuItem[] {\n  const rows = bars ?? model.walkRowBars\n  const target = model.walkRowLaunchTarget(row, rows)\n  const assembly = target?.assembly\n  const walk = row > 0 ? rows?.rows[row - 1] : undefined\n  const sample = walk?.sample\n  // the strip's rows are not walk rows', and take no sample filter\n  const filters = !bars && model.walkRowBars\n  const shown = model.walkRowSamples\n  return [\n    target && assembly\n      ? {\n          label: `Linear genome view \u2014 ${assembly} ${regionLabel(target.location)}`,\n          icon: LineStyleIcon,\n          onClick: () => {\n            model.showInLinearView({ location: target.location, assembly })\n          },\n        }\n      : {\n          label: 'Linear genome view',\n          icon: LineStyleIcon,\n          disabled: true,\n          disabledHelpText: target\n            ? `No assembly in this session is ${target.location.haplotype ?? target.label}`\n            : 'This walk states no contig coordinates',\n          onClick: () => {},\n        },\n    ...(walk && model.liftsWalks && model.modeDrawsNodes\n      ? [\n          {\n            type: 'checkbox' as const,\n            label: `Highlight ${walk.label}`,\n            checked: model.walkLayers.some(l => l.walk === walk.name),\n            onClick: () => {\n              model.toggleWalk(walk.name)\n            },\n          },\n        ]\n      : []),\n    ...(filters && sample && !(shown?.length === 1 && shown[0] === sample)\n      ? [\n          {\n            label: `Show only ${sample}`,\n            icon: FilterListIcon,\n            onClick: () => {\n              model.setWalkRowSamples([sample])\n            },\n          },\n        ]\n      : []),\n    ...(filters && shown\n      ? [\n          {\n            label: 'Show every sample',\n            icon: FilterListOffIcon,\n            onClick: () => {\n              model.setWalkRowSamples(undefined)\n            },\n          },\n        ]\n      : []),\n  ]\n}\n\n// core's context menu, opened at the pointer itself rather than beside it\nexport default function PaneContextMenu({\n  model,\n  at,\n  onClose,\n}: {\n  model: GraphPaneModel\n  at: PaneContextAt | undefined\n  onClose: () => void\n}) {\n  return (\n    <ContextMenu\n      anchor={at}\n      offset={AT_POINTER}\n      onClose={onClose}\n      menuItems={() =>\n        at === undefined\n          ? []\n          : 'nodeId' in at\n            ? nodeMenuItems(model, at.nodeId)\n            : walkRowMenuItems(model, at.row, at.bars)\n      }\n    />\n  )\n}\n", "import { useMemo, useState } from 'react'\n\nimport {\n  walkRowReadout,\n  walkRowsKey,\n  walkRowsTree,\n} from '@jbrowse/bandage-core/layout/walkRowDraw'\nimport {\n  stripGeneGaps,\n  stripRowAt,\n  walkMarksTree,\n  walkStripLabelsTree,\n} from '@jbrowse/bandage-core/layout/walkStrip'\nimport { RAMP_GRADIENT_CSS } from '@jbrowse/bandage-core/referenceRampCss'\nimport { isAlive } from '@jbrowse/mobx-state-tree'\nimport { observer } from 'mobx-react'\n\nimport ElTree, { useSvgId } from './ElTree'\nimport { LegendSwatchView } from './Legend'\nimport PaneContextMenu from './PaneContextMenu'\nimport { legendRowStyle } from './legendStyles'\nimport { walkRowSwatch } from '../legendSections'\n\nimport type { GraphPaneModel } from '../model'\nimport type { RowGene } from '@jbrowse/bandage-core/layout/walkRowDraw'\nimport type { WalkRows } from '@jbrowse/bandage-core/layout/walkRows'\nimport type { StripFrame } from '@jbrowse/bandage-core/layout/walkStrip'\n\n// Walk rows under a layout that draws nodes, each haplotype's walk on its own\n// bp, linked to the drawing above: the hovered node ticks every bar where its\n// walk passes it, and a point on a bar lights its node, ringed, above. The\n// bars share the drawing's colours, so under the reference-position ramp a hue\n// in the drawing is the same hue on each bar. Every row is shown; rows too\n// thin to letter say who they are on hover.\n\nconst keyStyle = {\n  display: 'flex',\n  flexWrap: 'wrap' as const,\n  gap: '2px 14px',\n  padding: '2px 8px 6px',\n  fontSize: 11,\n  color: '#333',\n}\n\nconst tipStyle = {\n  position: 'absolute' as const,\n  pointerEvents: 'none' as const,\n  background: 'rgba(255,255,255,0.92)',\n  border: '1px solid #ccc',\n  borderRadius: 3,\n  padding: '1px 6px',\n  fontSize: 11,\n  whiteSpace: 'nowrap' as const,\n  zIndex: 4,\n}\n\n// The bars, built once per rows, frame, colouring and genes rather than per\n// hover\nconst StripBars = observer(function StripBars({\n  bars,\n  frame,\n  ramp,\n  rowGenes,\n}: {\n  bars: WalkRows\n  frame: StripFrame\n  ramp: { start: number; end: number } | undefined\n  rowGenes: Map<string, RowGene[]> | undefined\n}) {\n  const idPrefix = useSvgId()\n  const tree = useMemo(\n    () => walkRowsTree(bars, frame, { ramp, rowGenes, idPrefix }),\n    [bars, frame, ramp, rowGenes, idPrefix],\n  )\n  return <ElTree el={tree} />\n})\n\n// The hovered row's readout where the rows are too thin to letter, at the\n// pointer's place on its bar. Its own observer, so a move along a bar redraws\n// the tip and not the strip.\nexport const StripTip = observer(function StripTip({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const bars = model.walkStripRows\n  const frame = model.walkStripFrame\n  const hover = model.stripHover\n  const all = bars ? [bars.reference, ...bars.rows] : []\n  const index = hover ? all.findIndex(r => r.name === hover.row) : -1\n  const row = all[index]\n  if (!bars || !frame || frame.labelled || !hover || !row) {\n    return null\n  }\n  return (\n    <div\n      data-testid=\"graph-walk-strip-tip\"\n      style={{\n        ...tipStyle,\n        left:\n          (bars.origin + hover.offset) * frame.scaleX + frame.translateX + 12,\n        top: index * frame.rowPx + frame.translateY - 18,\n      }}\n    >\n      {row.label} \u00B7{' '}\n      {walkRowReadout(row, index === 0 ? undefined : bars.reference)}\n    </div>\n  )\n})\n\nconst WalkStrip = observer(function WalkStrip({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const bars = model.walkStripRows\n  const frame = model.walkStripFrame\n  const [menu, setMenu] = useState<{\n    clientX: number\n    clientY: number\n    row: number\n  }>()\n  if (!bars || !frame) {\n    return null\n  }\n  const hit = (e: React.MouseEvent<SVGSVGElement>) => {\n    const box = e.currentTarget.getBoundingClientRect()\n    return stripRowAt(bars, frame, e.clientX - box.left, e.clientY - box.top)\n  }\n  const key = walkRowsKey(bars, {\n    ramp: model.referenceRampDomain,\n    rampCss: RAMP_GRADIENT_CSS,\n    genes: stripGeneGaps(frame, model.walkRowGenes, model.walkRowGeneGaps),\n  })\n  return (\n    <div\n      data-testid=\"graph-walk-strip\"\n      style={{ position: 'relative', borderTop: '1px solid #ddd' }}\n      onMouseEnter={() => {\n        model.setPointerInPane(true)\n      }}\n      onMouseLeave={() => {\n        if (isAlive(model)) {\n          model.setPointerInPane(false)\n          model.setStripHover(null)\n        }\n      }}\n    >\n      <svg\n        width={frame.width}\n        height={frame.height}\n        style={{ display: 'block' }}\n        onMouseMove={e => {\n          const at = hit(e)\n          e.currentTarget.style.cursor = at && at.index > 0 ? 'pointer' : ''\n          model.setStripHover(\n            at ? { row: at.row.name, offset: at.offset } : null,\n          )\n        }}\n        onClick={e => {\n          const at = hit(e)\n          if (at && at.index > 0) {\n            model.toggleWalk(at.row.name)\n          }\n        }}\n        onContextMenu={e => {\n          const at = hit(e)\n          if (at) {\n            e.preventDefault()\n            setMenu({ clientX: e.clientX, clientY: e.clientY, row: at.index })\n          }\n        }}\n      >\n        <title>\n          Ticks mark where each walk passes the node under the pointer. Click a\n          bar to lift its walk.\n        </title>\n        <StripBars\n          bars={bars}\n          frame={frame}\n          ramp={model.referenceRampDomain}\n          rowGenes={model.walkRowGenes}\n        />\n        <ElTree el={walkMarksTree(bars, frame, model.walkStripMarks)} />\n        <ElTree\n          el={walkStripLabelsTree(\n            bars,\n            frame,\n            new Set(model.walkLayers.map(l => l.walk)),\n          )}\n        />\n      </svg>\n      <StripTip model={model} />\n      <div style={keyStyle} data-testid=\"graph-walk-strip-key\">\n        {key.map(entry => (\n          <div key={entry.label} style={legendRowStyle}>\n            <LegendSwatchView swatch={walkRowSwatch(entry.swatch)} />\n            <span>{entry.label}</span>\n          </div>\n        ))}\n      </div>\n      <PaneContextMenu\n        model={model}\n        at={menu && { ...menu, bars }}\n        onClose={() => {\n          setMenu(undefined)\n        }}\n      />\n    </div>\n  )\n})\n\nexport default WalkStrip\n", "import { observer } from 'mobx-react'\n\nimport { PaneSvgLayer } from './PaneLayer'\n\nimport type { GraphPaneModel } from '../model'\n\n// A ring round the node a point on the walk strip lights, so a one-bp node\n// can be found in a hairball\nconst WalkStripLocator = observer(function WalkStripLocator({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const at = model.walkStripLocator\n  return at ? (\n    <PaneSvgLayer\n      model={model}\n      zIndex={4}\n      overflow=\"visible\"\n      testId=\"graph-walk-strip-locator\"\n    >\n      <circle\n        cx={at.x}\n        cy={at.y}\n        r={11}\n        fill=\"none\"\n        stroke=\"white\"\n        strokeWidth={4}\n      />\n      <circle\n        cx={at.x}\n        cy={at.y}\n        r={11}\n        fill=\"none\"\n        stroke=\"#111\"\n        strokeWidth={1.75}\n      />\n    </PaneSvgLayer>\n  ) : null\n})\n\nexport default WalkStripLocator\n", "import { Canvas2DRenderer } from '@jbrowse/bandage-core/renderer/Canvas2DRenderer'\n\n// Canvas2D only, and deliberately not through render-core's GPU ladder. The\n// batch is strokes and arrowheads in layout units, and stroking them batched by\n// colour is inside a frame budget at the node counts this view caps itself at\n// (agent-docs/reference/GRAPH_SCALE_AND_LOD.md), so a GPU backend would buy a few\n// milliseconds for ~30 KB of bundled HAL and a shader toolchain. If one is ever\n// wanted, it should take the same `Renderer` interface and draw the batch as\n// instances \u2014 a capsule per node segment, a bezier ribbon per edge stroke \u2014\n// rather than reviving a triangle mesh; agent-docs/ideas/waiting-on-a-number scopes it.\nexport function createGraphRenderer(canvas: HTMLCanvasElement) {\n  return Promise.resolve(new Canvas2DRenderer(canvas))\n}\n", "import { useEffect, useRef } from 'react'\n\nimport { LEGEND_INSET_PX } from '@jbrowse/bandage-core/labelLayout'\nimport { ErrorBanner, LoadingOverlay } from '@jbrowse/core/ui'\nimport { isAlive } from '@jbrowse/mobx-state-tree'\nimport { useRenderingBackend } from '@jbrowse/render-core/useRenderingBackend'\nimport { observer } from 'mobx-react'\n\nimport BubbleHalos from './BubbleHalos'\nimport FacetPanels from './FacetPanels'\nimport GenePins from './GenePins'\nimport GraphToolbar from './GraphToolbar'\nimport HoverLayer from './HoverLayer'\nimport HoverTooltip from './HoverTooltip'\nimport LabelLayer from './LabelLayer'\nimport { LegendPanel } from './Legend'\nimport PaneContextMenu from './PaneContextMenu'\nimport { PaneSvgLayer } from './PaneLayer'\nimport ReferenceStripOverlay from './ReferenceStripOverlay'\nimport TubeMapOverlay from './TubeMapOverlay'\nimport WalkRowsOverlay from './WalkRowsOverlay'\nimport WalkStrip from './WalkStrip'\nimport WalkStripLocator from './WalkStripLocator'\nimport { usePaneGestures, useWheelZoom } from './usePaneGestures'\nimport { PAPER_CSS } from '../pane/paneBase'\nimport { createGraphRenderer } from '../renderer/GraphRenderer'\n\nimport type { GraphPaneModel } from '../model'\n\nconst wrapperStyle = { position: 'relative' as const }\n\n// The overlay origin has to be the canvas, not the wrapper: the wrapper also\n// holds the toolbar, so anything positioned against it is offset by the\n// toolbar's height, and a row label lands a whole row off the row it names.\nconst canvasAreaStyle = {\n  position: 'relative' as const,\n  lineHeight: 0,\n  isolation: 'isolate' as const,\n}\n\n// Under a transparent canvas, from below the reference strip down, so the\n// linear view's gridlines show only behind the strip\nconst paperStyle = {\n  position: 'absolute' as const,\n  left: 0,\n  right: 0,\n  bottom: 0,\n  zIndex: 0,\n}\n\n// Above the labels, pins and legends drawn over the canvas, and with the line\n// height the canvas area zeroes, which would collapse the overlay's label\nconst loadingLayerStyle = {\n  position: 'absolute' as const,\n  inset: 0,\n  zIndex: 10,\n  lineHeight: 'normal',\n  pointerEvents: 'none' as const,\n}\n\nconst rowLabelStyle = {\n  position: 'absolute' as const,\n  left: 6,\n  transform: 'translateY(-50%)',\n  background: 'rgba(255,255,255,0.82)',\n  padding: '0 4px',\n  borderRadius: 3,\n  fontSize: 11,\n  // explicit, because the canvas container zeroes line-height to kill the\n  // inline-block gap under the canvas. Inherited, that collapses the label to a\n  // zero-height box: it still paints, but it has no layout, so anything asking\n  // whether it is visible (a screenshot spec's waitForVisible, a11y tooling)\n  // is told no.\n  lineHeight: '16px',\n  whiteSpace: 'nowrap' as const,\n  pointerEvents: 'none' as const,\n  zIndex: 4,\n}\n\n// Names the rows of a row-structured layout (anchored, sample rows). Without\n// them the layout draws real structure that cannot be read: a stack of bars\n// where every row means something and nothing says what.\n//\n// Positioned from the layout's own `rowLabels` through the same transform the\n// canvas draws with, so a label tracks its row across pan and zoom instead of\n// sitting at a measured pixel. It therefore has to be mounted in the canvas's\n// own positioning context (canvasAreaStyle) \u2014 against the wrapper it picks up\n// the toolbar's height and names the wrong row. Pinned to the left edge rather\n// than to the row's own x, because a row's leftmost node is wherever its first\n// allele happens to branch.\n//\n// Keyed on the row, not on the label: two rows can have the same words. The\n// sample-row layout names row 0 for the assembly the backbone comes from and\n// the rows below it for the samples contributing alleles, and a diploid\n// reference is in both lists \u2014 one haplotype is the reference path, the other\n// walks alleles of its own, and `parsePanSN` reduces both to one sample name.\nconst RowLabels = observer(function RowLabels({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  return (\n    <>\n      {model.visibleRowLabels.map(({ label, y, top }) => (\n        <div\n          key={y}\n          data-testid=\"graph-row-label\"\n          style={{ ...rowLabelStyle, top }}\n        >\n          {label}\n        </div>\n      ))}\n    </>\n  )\n})\n\n// Top RIGHT: the row labels own the left edge and the hover tooltip owns the\n// bottom right, so this is the one corner nothing else claims. Every key\n// stretches to the widest, so together they read as one panel. It takes the\n// pointer, for its rows' titles and its close button.\nconst legendStackStyle = {\n  position: 'absolute' as const,\n  top: LEGEND_INSET_PX,\n  right: LEGEND_INSET_PX,\n  display: 'flex',\n  flexDirection: 'column' as const,\n  borderRadius: 3,\n  overflow: 'hidden' as const,\n  zIndex: 4,\n}\n\nconst nodeLabelStyle = {\n  position: 'absolute' as const,\n  transform: 'translate(-50%, -50%)',\n  background: 'rgba(255,255,255,0.78)',\n  padding: '0 3px',\n  borderRadius: 3,\n  fontSize: 10,\n  lineHeight: '13px',\n  whiteSpace: 'nowrap' as const,\n  pointerEvents: 'none' as const,\n  zIndex: 3,\n}\n\n// Matches EDGE_DELETION_COLOR, so the words and the arc they name are one thing.\nconst deletionLabelStyle = {\n  ...nodeLabelStyle,\n  color: '#18181c',\n  fontWeight: 600,\n}\n\n// Measures itself for the model, so no label is placed under a legend and\n// none gives way to one that is not drawn.\n//\n// At rest only: the walk keys' hover readout would otherwise refit the view,\n// and the refit clears the hover that grew it\nconst Legends = observer(function Legends({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const ref = useRef<HTMLDivElement>(null)\n  useEffect(() => {\n    const el = ref.current\n    if (!el) {\n      return\n    }\n    // the last callback can land after the track is closed\n    const observer = new ResizeObserver(() => {\n      if (isAlive(model) && model.hoveredNode === null) {\n        model.setLegendSize({ width: el.offsetWidth, height: el.offsetHeight })\n      }\n    })\n    observer.observe(el)\n    return () => {\n      observer.disconnect()\n    }\n  }, [model])\n  return (\n    <div\n      ref={ref}\n      style={{\n        ...legendStackStyle,\n        top: LEGEND_INSET_PX + model.referenceStripZonePx,\n      }}\n    >\n      <LegendPanel model={model} />\n    </div>\n  )\n})\n\n// Writes each drawn thing's size onto it, which is what Bandage's Length label\n// does and what the tooltip alone could not: a graph you have to hover to read\n// is a graph nobody reads. graphLabels applies the same transform the canvas\n// draws with \u2014 so a label tracks its node across pan and zoom \u2014 and decides\n// which labels fit; this only paints them, mounted in the canvas's own\n// positioning context for the reason RowLabels is.\nconst GraphSizeLabels = observer(function GraphSizeLabels({\n  model,\n}: {\n  model: GraphPaneModel\n}) {\n  const labels = model.overlayLabels.sizes\n  // A label too wide for the arc it names is placed clear of it and tethered\n  // back; nothing else in the drawing carries one.\n  const leaders = labels.flatMap(({ key, leader }) =>\n    leader ? [{ key, ...leader }] : [],\n  )\n  return (\n    <>\n      {/* under the labels (z 3), so a leader runs beneath the text it points\n          from; the placement culls a label past the canvas edge, so the\n          layer leaves overflow visible */}\n      {leaders.length > 0 ? (\n        <PaneSvgLayer model={model} zIndex={2} overflow=\"visible\">\n          {leaders.map(({ key, arcX, arcY, labelX, labelY }) => (\n            <line\n              key={key}\n              data-testid=\"graph-label-leader\"\n              x1={arcX}\n              y1={arcY}\n              x2={labelX}\n              y2={labelY}\n              stroke=\"#18181c\"\n              strokeWidth={1}\n            />\n          ))}\n        </PaneSvgLayer>\n      ) : null}\n      {labels.map(({ key, text, x, y, kind }) => (\n        <div\n          key={key}\n          data-testid=\"graph-size-label\"\n          style={{\n            ...(kind === 'deletion' ? deletionLabelStyle : nodeLabelStyle),\n            left: x,\n            top: y,\n          }}\n        >\n          {text}\n        </div>\n      ))}\n    </>\n  )\n})\n\n// `ownChrome` false for a pane inside a track, whose controls, loading state\n// and errors are the track's. A hosted pane whose x the host places takes no pan or wheel of its\n// own: those are the linear view's, as on any other track. One drawing its\n// own coordinates inside a track keeps them, and keeps them from the view.\nconst GraphCanvas = observer(function GraphCanvas({\n  model,\n  ownChrome = true,\n}: {\n  model: GraphPaneModel\n  ownChrome?: boolean\n}) {\n  const {\n    canvasRef,\n    canvas,\n    error: renderError,\n    retry: retryRender,\n  } = useRenderingBackend(createGraphRenderer, model)\n  const { handlers, canvasStyle, contextMenu, closeContextMenu, hoveredChip } =\n    usePaneGestures(model)\n  useWheelZoom(canvas, model)\n  const faceted = model.facetPanels !== undefined\n\n  return (\n    <div style={wrapperStyle}>\n      {ownChrome ? <GraphToolbar model={model} /> : null}\n\n      <div\n        style={canvasAreaStyle}\n        onMouseEnter={() => {\n          model.setPointerInPane(true)\n        }}\n        onMouseLeave={() => {\n          if (isAlive(model)) {\n            model.setPointerInPane(false)\n          }\n        }}\n      >\n        {model.referenceStripShown ? (\n          <div\n            style={{\n              ...paperStyle,\n              top: model.referenceStripZonePx,\n              background: PAPER_CSS,\n            }}\n          />\n        ) : null}\n        <canvas\n          ref={canvasRef}\n          data-testid=\"graph-genome-canvas\"\n          style={{\n            ...canvasStyle,\n            width: model.paneWidth,\n            height: model.canvasHeight,\n            display: 'block',\n            position: 'relative',\n            zIndex: 1,\n          }}\n          {...handlers}\n        />\n\n        {faceted ? (\n          <FacetPanels\n            model={model}\n            handlers={handlers}\n            canvasStyle={canvasStyle}\n          />\n        ) : (\n          <>\n            <TubeMapOverlay model={model} />\n            <HoverLayer model={model} />\n            <ReferenceStripOverlay model={model} />\n            <RowLabels model={model} />\n            <GraphSizeLabels model={model} />\n            <BubbleHalos model={model} />\n            <GenePins model={model} />\n            <LabelLayer model={model} />\n            <WalkRowsOverlay model={model} />\n            <WalkStripLocator model={model} />\n            <Legends model={model} />\n          </>\n        )}\n\n        {ownChrome ? 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+}

package/dist/chunks/{chunk-3Q4RBDCL.js → chunk-N6PQZSAX.js}

@@ -1,3 +1,3 @@
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t=e.layoutResult;return!t?.tubeMapPanels&&(t?.tubeMap?.layout.reads.length??0)>0},get colorSchemeLock(){return this.walkLift?{value:"By walk",why:"Each highlighted haplotype colours its own lane: set it under Haplotypes, Color highlighted..."}:this.tubeMapReads?{value:"By strand",why:"Reads take the reds and blues, so the tube map leaves its nodes clear"}:void 0},get nodePositions(){return e.layoutResult?.nodePositions},get labelsNodeSizes(){return!e.layoutResult?.tubeMap&&!this.walkLift},get alleleDeletions(){return e.layoutResult?.alleleDeletions??[]},get deletionRoutes(){return e.layoutResult?.deletionRoutes},get stranded(){return e.layoutResult?.stranded},get pixelRows(){return e.layoutResult?.pixelRows??!1},get zoomPercent(){return`${(e.scale*100).toFixed(1)}%`},get isDefaultViewport(){return e.scale===1&&e.translateX===0&&e.translateY===0}})).views(e=>({get derivedBubbles(){return e.graph?Vt(e.graph):[]},get openBubbleInsides(){let{graph:t}=e;return 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t?cn(t):e.graph?Ie(e.graph,e.graphRegion):void 0},assemblySpellings(t){let{assemblyManager:n}=ne(e),o=n.has(t)?n.get(t):void 0,s=e.sourceAdapter?.assemblyNameToPanSN??{},r=[t,...o?[o.name,...o.aliases]:[]];return{name:t,aliases:[...r,...r.flatMap(a=>s[a]??[])]}},get drawsLoadedReference(){let t=e.graph;return t?.anchoredBy==="tags"||t?.referencePath!==void 0&&t.referencePath===e.loadedReferencePath}})).views(e=>({get geneAssembly(){let t=e.graphRegion;return t?e.assemblySpellings(t.assemblyName):void 0},get geneLaneFilter(){let t=e.containingView;if(!t)return;let n=Js(t,e.geneTrack?.trackId);return n.length?new Xs({filters:n,jexl:po(e).pluginManager.jexl}):void 0},get geneFeatures(){let t=e.geneTrackFeatures,n=this.geneLaneFilter;return t?Qs(n?t.filter(o=>n.passes(o)):t):void 0},get backboneGenes(){let{backbone:t}=e,{geneAssembly:n,geneFeatures:o}=this,s=e.drawsLoadedReference||n!==void 0&&rn(t,[n])!==void 0;return t&&o&&s?sn(o,t):void 0}})).views(e=>({get nodeNeighbors(){return e.drawnGraph?pe(e.drawnGraph):void 0},get nodeInk(){return xt(e.drawnGraph,e.nodeById,e.contigThickness,e.nodeWidth)},get allDeletions(){return e.graph&&this.drawsNodes?we(e.graph):[]},get cohortWalkRows(){if(e.chosenLayoutMode!=="walkrows"||!e.graph)return;let t=e.selectedRepeat,n=e.walkCut,o=t?n?uc(n,t,t.unit):Ie(e.graph,t,t.unit):e.cutWalkRows;if(!o)return;let[s,...r]=Nr([o.reference,...o.rows],t?.calls);return{...o,reference:s,rows:r}},get walkRowSampleChoices(){let t=this.cohortWalkRows?.rows??[];return{samples:[...new Set(t.map(n=>n.sample))].sort(),disagreeing:[...new Set(t.filter(n=>n.call?.agrees===!1).map(n=>n.sample))]}},get walkRowSamplesTsv(){let t=e.sourceAdapter?.samplesTsvLocation;return t&&fo(t)?t:void 0},get walkRowGroupFields(){return nr(e.walkRowSampleTable)},get tubeMapColoring(){let t=e.tubeMapColorBy,n=e.walkRowSampleTable;if(!t||!n||!this.walkRowGroupFields.includes(t))return;let o=dr(t,n),s=(e.graph?.paths??[]).map(r=>W(r.name).name).filter(r=>r!==e.graph?.referencePath);return{field:t,valueOf:o,palette:ir(s.map(o)),unvalued:s.some(r=>o(r)==="")}},get tableGroupBy(){let t=e.walkRowGroupBy,n=e.walkRowSampleTable;return t&&n&&this.walkRowGroupFields.includes(t.field)?{groupBy:t,table:n}:void 0},get tubeMapPanelSplit(){let{field:t,domain:n}=e.facetSetting,o=this.tableGroupBy;return t!==""?{by:t,domain:n}:o?{by:"column",...o.groupBy,table:o.table}:void 0},get keptCohortRows(){let t=this.cohortWalkRows;return t&&Qe(t.rows,e.walkRowSamples)},get walkRowGroups(){let t=this.keptCohortRows,n=this.tableGroupBy;return t&&n?rr(t,n.table,n.groupBy):void 0},get walkRowBars(){let t=this.cohortWalkRows,n=this.keptCohortRows;return t&&n?{...t,rows:this.walkRowGroups?.rows??n}:void 0},get drawsNodes(){return Q(e.drawnLayoutMode??e.chosenLayoutMode).drawsNodes},get genePins(){Je(e.positionsVersion);let t=e.layoutResult?.nodePositions;return e.showGenes&&this.drawsNodes&&e.graph&&e.backboneGenes&&t?ot(e.graph,e.backboneGenes,t):[]},get bubbleHalos(){Je(e.positionsVersion);let t=e.layoutResult?.nodePositions;return!e.showBubbles||!this.drawsNodes||!e.graph||!t?[]:Xn(e.graph,e.bubbles,t,e.repeatArrays)},get referenceRamp(){return e.effectiveColorScheme==="reference-position"?e.drawnReferenceRamp:void 0},get assemblyNames(){let t=e.graphRegion;return t?[t.assemblyName]:[]},get axisScale(){return qe(e.scale,e.pixelRows)},get scaleX(){return this.axisScale.scaleX},get scaleY(){return this.axisScale.scaleY}})).views(e=>({get screenTransform(){return{scaleX:e.scaleX,scaleY:e.scaleY,translateX:e.translateX,translateY:e.translateY}},toScreen(t){return{x:t.x*e.scaleX+e.translateX,y:t.y*e.scaleY+e.translateY}},get deletionDrawing(){return e.graph?ye(e.graph,e.allDeletions,e.showDeletionEdges):void 0},get deletions(){return this.deletionDrawing?.shown??[]},get deletionEdgeIndexes(){return this.deletionDrawing?.bypassed},get hiddenEdgeIndexes(){return this.deletionDrawing?.hidden},get referenceRampDomain(){let t=e.referenceRamp;return t?{start:t.start,end:t.start+t.span}:void 0},get referenceRampOffKeys(){let t=e.referenceRamp,n=e.layoutResult,o=n?.tubeMap?n.nodePositions:void 0,s=!1,r=!1;if(t&&e.drawnGraph)for(let a of e.drawnGraph.nodes)o&&!o[a.id]||(t.midpoints.has(a.id)?a.stable&&a.stable.rank>0&&(s=!0):r=!0);return{offReference:s,unplaced:r}},get tubeMapNodeColors(){let t=e.drawnGraph;return e.layoutResult?.tubeMap&&t?Kn(t,e.effectiveColorScheme,e.referenceRamp):void 0},get tubeColorKind(){let t=e.layoutResult,n=e.drawnGraph?.paths??[],o=e.tubeMapReads;return t?.tubeMap?e.tubeMapColoring&&!o?"value":t.tubeMapPanels?"role":this.tubeMapNodeColors?"tinted":!o&&(!yt(n.length)||n.some(s=>s.members))?"role":"path":void 0},tubeColorsOf(t,n){let o=t.paths??[],s=this.tubeColorKind,r=e.tubeMapColoring;return 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t=e.drawnGraph?.paths;return(e.layoutResult?.tubeMap?e.tubeColorKind==="path":e.drawPaths)&&t&&yt(t.length)&&!t.some(o=>o.members)?We(t,e.tubeMapTubeColors):[]},get hoveredSpan(){let t=e.hoveredNode,n=e.hoveredBubble;return t!==null?ia(t,e.hoverNodeById,e.hoverNeighbors):n&&!n.offReference?{start:n.start,end:n.end}:void 0},get hoverHighlight(){let t=e.graphRegion,n=this.hoveredSpan;return t&&n&&e.chosenHover!=="off"?{refName:t.refName,assemblyName:t.assemblyName,...n}:void 0}}));var da=ca.views(e=>({get host(){let t=e.containingView;return Ms(t)?t:void 0}})).views(e=>({get pairedViewId(){return e.host?.id??e.connectedViewId}})).views(e=>({get contributingAssemblies(){let t=e.graph,n=t?de(t):[];return t?Rs(t,{maxGap:n.length>0?tn(n):1/0}):[]}})).views(e=>({get assemblyResolver(){let{assemblyManager:t}=ne(e),n=e.sourceAdapter?.assemblyNameToPanSN,o=new Map(Object.entries(n??{}).map(([r,a])=>[a,r])),s=r=>r!==void 0&&t.has(r)?t.get(r)?.name??r:void 0;return r=>s(o.get(r))??s(r)},get geneTracksByAssembly(){let t=new Map;for(let n of e.sessionTracks)if(mt.has(n.adapterType))for(let o of n.assemblies)t.set(o,[...t.get(o)??[],n]);return new Map([...t].flatMap(([n,o])=>{let s=zt(o,"");return s?[[n,s]]:[]}))}})).views(e=>({get launchableAssemblies(){return vs(Ys(e.contributingAssemblies,e.graphRegion),e.assemblyResolver)},get canHighlightInLinearView(){let t=e.graphRegion;return t!==void 0&&pt({views:[...ne(e).views],connectedViewId:e.pairedViewId,assemblyName:t.assemblyName})!==void 0},nodeLaunchTargets(t){let n=e.nodeById?.get(t),o=n?xs(n):void 0,s=o?nt(e.assemblyResolver,o):void 0,r=e.graphRegion,a=r?e.nodeSpan(t):void 0,i=r&&a?{sample:r.assemblyName,haplotype:void 0,refName:r.refName,...a}:void 0;return{own:o&&s?{location:Zn(o),assembly:s}:void 0,reference:r&&i?{location:Zn(i),assembly:r.assemblyName}:void 0,highlight:r&&i?{location:i,assembly:r.assemblyName}:void 0}}}));var pa=da.views(e=>({get walkStripShown(){return On({walkStrip:e.walkStrip,mode:{drawsNodes:e.modeDrawsNodes},drawsPicture:!!e.layoutResult?.tubeMap||!!e.walkRowBars,walks:e.graph?.paths?.length??0,host:!!e.host})},get walkStripRows(){let t=this.walkStripShown?e.cutWalkRows:void 0;return t?{...t,rows:Qe(t.rows,e.walkRowSamples)}:void 0},get walkStripFrame(){let t=this.walkStripRows;if(t)return tt(t,{width:e.paneWidth})},get cutsWholeWalks(){return Bn(Q(e.chosenLayoutMode),{walkStrip:e.walkStrip,host:!!e.host})},get walkStripMarks(){let t=this.walkStripRows,n=e.hoveredNode??e.selectedNode,o=n===null?void 0:e.nodeById?.get(n);return t&&o&&e.graph?Cn(e.graph,[t.reference,...t.rows],o):[]},rowLocation(t,n){let o={sample:t.sample,haplotype:t.haplotype===void 0?void 0:`${t.sample}#${t.haplotype}`};return{...o,assembly:nt(e.assemblyResolver,o),span:{refName:n.contig,...Ho(n,t.bp)}}},get walkStripLocator(){let t=e.stripHover?e.hoveredNode:null;return t===null?void 0:Gt(e.nodePositions?.[t],e.toScreen)}})).views(e=>({get walkGeneReads(){let t=e.walkRowBars??e.walkStripRows;if(!t||!e.showGenes)return;let n=[],o=0,s=0;for(let r of t.rows){if(!r.axis){s++;continue}let{assembly:a,span:i}=e.rowLocation(r,r.axis),c=a?e.geneTracksByAssembly.get(a):void 0;if(!a||!c){o++;continue}n.push({row:r.name,trackId:c.trackId,region:{assemblyName:a,...i}})}return{reads:n.slice(0,An),gaps:{untracked:o,unplaced:s,unread:Math.max(0,n.length-An)}}},get walkRowGeneGaps(){return this.walkGeneReads?.gaps},walkRowLaunchTarget(t,n=e.walkRowBars){let o=n?[n.reference,...n.rows][t]:void 0;if(!o?.axis)return;let{sample:s,haplotype:r,assembly:a,span:i}=e.rowLocation(o,o.axis);return{label:o.label,assembly:t===0?e.graphRegion?.assemblyName:a,location:{sample:s,haplotype:r,...i}}},get walkRowGenes(){let t=e.walkRowBars??e.walkStripRows;if(!t||!e.showGenes)return;let n=new Map(e.walkGeneFeatures??[]);return e.geneFeatures&&n.set(t.reference.name,e.geneFeatures),n.size?Xo([t.reference,...t.rows],n):void 0}}));var la=pa.views(e=>({get xIsReferenceBp(){return e.layoutResult?.referenceAxis===!0&&Q(e.drawnLayoutMode??e.chosenLayoutMode).cutMargins}})).views(e=>({get hostPlacesX(){let{host:t,graphRegion:n}=e;return t!==void 0&&t.initialized&&n!==void 0&&e.xIsReferenceBp&&!t.dynamicBlocks.contentBlocks.some(o=>o.refName===n.refName&&o.reversed)}})).views(e=>({get hostBpFrame(){let{host:t,graphRegion:n}=e;return t?.initialized&&n?Ns(t,n):void 0}})).views(e=>({get hostFrame(){return e.hostPlacesX?e.hostBpFrame:void 0},get tubeMapPicture(){let t=e.layoutResult?.tubeMap;return t?er(t):void 0},get tubeMapReference(){let t=e.layoutResult?.tubeMap;return t?Zo(t):void 0},get tubeMapDeviations(){let t=e.layoutResult?.tubeMap;return t?.coarse?Qo(t,t.coarse.deviations):[]},get tubeMapConnectedBoxes(){let t=this.tubeMapReference,{layoutResult:n}=e;return t&&!n?.referenceAxis&&!n?.tubeMapPanels?[...t.values()].flat():void 0}})).views(e=>({get tubeMapGenes(){let t=e.tubeMapReference;return e.showGenes&&!e.host&&t&&e.backboneGenes&&!e.layoutResult?.tubeMapPanels?kr(t,e.backboneGenes):[]},get referenceStripApplies(){return!!e.host?.initialized&&!!e.layoutResult&&e.drawsNodes&&!e.hostPlacesX&&!e.facetPanels}})).views(e=>({get referenceStripBlocks(){let{graph:t}=e;if(!e.showReferenceStrip||!e.referenceStripApplies||!t)return[];let n=vr(t,{colorScheme:e.effectiveColorScheme,referenceRamp:e.referenceRamp,walks:e.walkLift?.walks}),o=e.walkLift?void 0:e.openBubbleFocus;return o?n.map(s=>o.nodeIds.has(s.node)?s:{...s,colors:[St],faded:!0}):n}})).views(e=>({get referenceStripShown(){return e.referenceStripBlocks.length>0&&e.hostBpFrame!==void 0},get referenceStripOverhangs(){let t=e.hostBpFrame;if(!t||e.referenceStripBlocks.length===0)return!1;let{left:n,right:o}=Mr(e.referenceStripBlocks,t,e.paneWidth);return n>0||o>0},get referenceStripFaded(){return e.referenceStripBlocks.some(t=>t.faded)}})).views(e=>({get referenceStripLit(){if(!e.referenceStripShown)return;let t=e.hoveredNode===null?e.hoveredBubble:null;if(t&&!t.offReference){let s=e.bubbleHalos.find(r=>Et(r.bubble,t));return{start:t.start,end:t.end,anchor:s?e.toScreen(s.labelAt):void 0}}let n=e.hoveredNode??e.selectedNode,o=n===null?void 0:e.nodeSpan(n);return o&&n!==null?{...o,anchor:Gt(e.nodePositions?.[n],e.toScreen)}:void 0},referenceStripNodeAt(t,n){let o=e.hostBpFrame;return e.referenceStripShown&&o?Lr(e.referenceStripBlocks,o,t,n):void 0},get referenceStripZonePx(){return e.referenceStripShown?Rr:0}}));var Qy=3e3,ek=350,tk=34;function mc(e){let t=[0];for(let n=1;n<e.length;n++)t.push(t[n-1]+Math.hypot(e[n].x-e[n-1].x,e[n].y-e[n-1].y));return t}function fc(e,t){if(e.length===1||t===1)return Array.from({length:t},()=>({...e[0]}));let n=mc(e),o=n.at(-1),s=[],r=1;for(let a=0;a<t;a++){let i=o*a/(t-1);for(;r<e.length-1&&n[r]<i;)r++;let c=n[r]-n[r-1],p=c>0?(i-n[r-1])/c:0,u=e[r-1],l=e[r];s.push({x:u.x+(l.x-u.x)*p,y:u.y+(l.y-u.y)*p})}return s}var hc=400,ua=1.8,gc=.1;function nk(e,t,n,o,s){let r=b=>({x:(b.x*t.scaleX+t.translateX-o.translateX)/o.scaleX,y:(b.y*t.scaleY+t.translateY-o.translateY)/o.scaleY}),a={};for(let[b,S]of Object.entries(n)){let x=e[b];x?.length&&S.length&&(a[b]=fc(x.map(r),S.length))}let i=new Map,c=(b,S)=>{let x=i.get(b);x?x.push(S):i.set(b,[S])};for(let b of s){let{from:S,to:x}=b;if(S!==x&&n[S]?.length&&n[x]?.length){let M=be(b);c(S,{id:x,side:M.to}),c(x,{id:S,side:M.from})}}let p=new Map,u=b=>p.get(b.id)??(b.side==="start"?a[b.id][0]:a[b.id].at(-1)),l=Object.keys(a),d=[];for(let b of l)for(let S of i.get(b)??[]){if(a[S.id]||p.has(S.id))continue;let x=i.get(S.id).find(M=>M.id===b);p.set(S.id,{...u(x)}),l.push(S.id),d.push(S.id)}let f=new Map(d.map((b,S)=>[b,S])),h=new Float64Array(d.map(b=>p.get(b).x)),w=new Float64Array(d.map(b=>p.get(b).y)),g=new Float64Array(d.length),m=new Float64Array(d.length),y=d.map((b,S)=>i.get(b).flatMap(x=>{let M=f.get(x.id);if(M===void 0){let P=u(x);return g[S]+=P.x,m[S]+=P.y,[]}return[M]})),k=d.map(b=>i.get(b).length);for(let b=0;b<hc;b++){let S=0;for(let x=0;x<d.length;x++){let M=g[x],P=m[x];for(let C of y[x])M+=h[C],P+=w[C];let F=ua*(M/k[x]-h[x]),B=ua*(P/k[x]-w[x]);S=Math.max(S,Math.abs(F*o.scaleX)+Math.abs(B*o.scaleY)),h[x]+=F,w[x]+=B}if(S<gc)break}d.forEach((b,S)=>{a[b]=n[b].map(()=>({x:h[S],y:w[S]}))});for(let[b,S]of Object.entries(n))a[b]??=S.map(x=>({...x}));return a}function bc(e,t){let n=0,o=1/0;return e.forEach((s,r)=>{let a=(s.x-t.x)**2+(s.y-t.y)**2;a<o&&(o=a,n=r)}),n}function ok(e,t,n,o){let s=(r,a)=>{let i=n[r],c=o[r];if(!i||!c||c.length===0)return{x:0,y:0};let p=bc(c,a);return{x:i[p].x-c[p].x,y:i[p].y-c[p].y}};return Object.fromEntries(Object.entries(e).map(([r,a])=>{let i=t[Number(r)],c=s(i?.from??"",a[0]),p=s(i?.to??"",a.at(-1));return[r,a.map((u,l)=>{let d=a.length>1?l/(a.length-1):0;return{x:u.x+c.x+(p.x-c.x)*d,y:u.y+c.y+(p.y-c.y)*d}})]}))}function ma(e,t,{ids:n,alpha:o}){let s=(r,a)=>{for(let i=0;a&&i<a.count;i++){let c=r[a.start+i];c.color=_o(c.color,o)}};for(let r of n)s(e.nodeStrokes,e.nodeStrokeRuns.get(r));t.forEach(({from:r,to:a},i)=>{(n.has(r)||n.has(a))&&(s(e.edgeCurves,e.edgeCurveRuns.get(i)),s(e.arrows,e.arrowRuns.get(i)))})}function rk(e){return e<.5?4*e*e*e:1-(-2*e+2)**3/2}function sk(e,t,n,o){for(let[s,r]of Object.entries(e)){let a=t[s],i=n[s];!a||!i||r.forEach((c,p)=>{c.x=o===1?i[p].x:a[p].x+(i[p].x-a[p].x)*o,c.y=o===1?i[p].y:a[p].y+(i[p].y-a[p].y)*o})}}var wc=8,yc=19,fa=je+yc,kc=48;function xc(e,t,n){if(!(!e||!t))return vt(e.rowPx,e.barPx)?n:{untracked:0,unread:0,...n,crowded:!0}}var Pk=la.views(e=>({get paneCeiling(){return Math.max(_t,e.paneHeight??Yr)},get fitRoom(){return e.host?this.canvasHeight:this.paneCeiling},get walkRowPitch(){let t=e.walkRowBars;if(!t)return;let n=this.fitRoom,o=(e.walkRowGroups?.sections.length??0)*tr;return Mt(t.rows.length+1,n-this.fitPadTopBase-H-o)},get walkRowPlacement(){let t=this.walkRowPitch;return t?sr(e.walkRowGroups?.sections??[],t.rowPx):void 0},get walkRowGeneKey(){return xc(this.walkRowPitch,!!e.walkRowGenes?.size,e.walkRowGeneGaps)},get drawnRowLabels(){let t=this.walkRowPlacement,n=Oe(e.walkRowBars,e.layoutResult,this.walkRowPitch);return e.walkRowBars&&t?n.map((o,s)=>({...o,y:t.rowY(s)})):n},get visibleRowLabels(){return this.drawnRowLabels.flatMap(({label:t,y:n})=>{let o=e.toScreen({x:0,y:n}).y;return o>=0&&o<=this.canvasHeight?[{label:t,y:n,top:o}]:[]})},get fitPadLeft(){return Math.max(H,...this.drawnRowLabels.map(t=>Eo(t.label,0).x1+6))},get layoutBounds(){let t=e.layoutResult,n=e.walkRowBars,o=n&&t?.extent?Ge(n,this.walkRowPitch):void 0;return t?Ke(t,{region:e.graphRegion,extent:o&&{...o,maxY:o.maxY+(this.walkRowPlacement?.headersPx??0)}}):void 0},get hoveredWalkRowText(){let t=e.walkRowBars,n=e.hoveredWalkRow;if(!t||n===null||this.walkRowPitch?.readouts!==!1)return;let o=t.reference.name===n,s=o?t.reference:t.rows.find(r=>r.name===n);return s?{label:s.label,readout:Do(s,o?void 0:t.reference,t.unit,s.call)}:void 0},walkRowAt(t,n){let o=e.walkRowBars,s=this.walkRowPitch,r=this.walkRowPlacement;if(!o||!s||!r)return;let a=r.rowAt((n-e.translateY)/e.scaleY,o.rows.length+1),i=[o.reference,...o.rows][a],c=r.rowY(a)*e.scaleY+e.translateY,p=(t-e.translateX)/e.scaleX-o.origin;return i&&Math.abs(n-c)<=s.barPx/2+2&&p>=0&&p<=i.bp?a:void 0},get fitPadTopBase(){let t=Sr(e.tubeMapGenes);return H+Math.max(0,t-1)*xr+e.referenceStripZonePx},get legendRoom(){let t=this.layoutBounds,{width:n,height:o}=e.legendSize;if(!t||t.w<=0||n===0||e.facetPanels||e.tubeMapReads)return;if(e.hostPlacesX)return"top";let s=this.fitPadTopBase,r=this.fitRoom,a=u=>(e.paneWidth-this.fitPadLeft-u)/t.w,i=u=>e.pixelRows?t.h+u+H<=r?1/0:0:(r-u-H)/t.h,c=Math.min(a(n+2*ue),i(s));return Math.min(a(H),i(s+o+ue))>=c?"top":"right"},get fitPadTop(){return this.fitPadTopBase+(this.legendRoom==="top"?e.legendSize.height+ue:0)},get fitPadRight(){return this.legendRoom==="right"?Math.max(H,e.legendSize.width+2*ue):H},get minFitScale(){let t=this.layoutBounds,n=e.layoutResult,o=n?.tubeMap?.layout.tracks[0]?.width;return t&&t.h>0&&o&&!n.referenceAxis?Math.min(zr/o,(this.paneCeiling-this.fitPadTop-H)/t.h):0},get facetSpec(){let{field:t,domain:n,columns:o}=e.facetSetting;return t===""?void 0:n.length===0&&o===void 0?t:{field:t,domain:[...n],...o===void 0?{}:{columns:o}}},get facetPlacement(){let t=e.facetPanels,{field:n,domain:o}=e.facetSetting;return t?Pt(t.map(s=>s.walks[0].name),e.hostPlacesX||n===""?"walk":n,o):void 0},facetGridIn(t){let n=this.facetPlacement,o=this.layoutBounds;return n&&o&&o.w>0?Nt({count:n.count,bounds:o,pixelRows:e.pixelRows,width:e.paneWidth,room:t,columns:e.hostPlacesX?1:n.columns??e.facetSetting.columns}):void 0},get facetGrid(){return this.facetGridIn(this.fitRoom-fa)},get tooltipRightPx(){let{width:t,height:n}=e.legendSize,o=ue+e.referenceStripZonePx+n;return!e.facetPanels&&t>0&&o>this.canvasHeight-kc?t+2*ue:wc},get canvasHeight(){let t=this.layoutBounds,n=this.paneCeiling;if(!t)return n;let o=this.facetGrid;if(o)return Math.max(_t,o.total+fa);let s=Math.max(_t,e.legendSize.height+2*ue+e.referenceStripZonePx),r=this.fitPads,a=r.top+r.bottom;if(e.pixelRows)return Math.min(n,Math.max(s,t.h+a));let i=e.paneWidth-r.left-r.right;return t.w>0&&i>0?Math.min(n,Math.max(s,t.h*Math.max(i/t.w,this.minFitScale)+a)):n},get viewBox(){let t=this.facetGrid;return t?{width:t.width,height:t.height}:{width:e.paneWidth,height:this.canvasHeight}},get fitPads(){return this.facetGrid?{left:ae,top:ae,right:ae,bottom:ae}:{left:this.fitPadLeft,top:this.fitPadTop,right:this.fitPadRight,bottom:H}},get usableHeight(){let{top:t,bottom:n}=this.fitPads;return this.viewBox.height-t-n},get fittedTransform(){let t=this.layoutBounds,{width:n,height:o}=this.viewBox,s=this.fitPads;return t?ze(t,n,o,e.pixelRows,{minScale:this.facetGrid?0:this.minFitScale,padLeft:s.left,padTop:s.top,padRight:s.right,padBottom:s.bottom}):void 0}})).views(e=>({viewportToBuild(){return Nn(Qr(e),Jr)},applySelection(t){let n=e.selectedNode;t.setNodeHighlights(n===null?new Map:new Map([[n,qr]]))},get hoverLayerNode(){let{litNode:t,selectedNode:n}=e;return t===n?null:t},get paintTransform(){let t=Jo();return{scaleX:e.scaleX*t,scaleY:e.scaleY*t,translateX:e.translateX*t,translateY:e.translateY*t,dpr:t}}})).views(e=>({paint(t){t.updateTransform(e.paintTransform),t.render(e.referenceStripShown?[0,0,0,0]:Ur)}})).views(e=>({buildDrawing(t,n){let{graph:o,nodeById:s,layoutResult:r,deletionDrawing:a}=e;if(!o||!s||!r||!a)return;Je(e.viewportDirty,e.positionsVersion);let i=dn(()=>e.viewportToBuild()),c=Rt({...rt(r,a,{drawsRows:!!e.walkRowBars}),graph:o,nodeById:s,colorScheme:e.effectiveColorScheme,contigThickness:e.contigThickness,connectorThickness:e.connectorThickness,drawPaths:n,nodeWidth:e.nodeWidth,highlight:t,axis:dn(()=>e.axisScale),linearLayout:e.linearLayout,viewportBounds:i,referenceRamp:e.referenceRamp,version:e.positionsVersion}),p=e.morphEntering;return p?.layout===r&&ma(c,o.edges,p),{batch:c,viewportBounds:i}},get overlayLabels(){return gr(e)},hoveredOn(t){let n=e.hoveredNode,o=n?e.nodeById?.get(n):void 0;return o?yr(t,o.id,o.length)??"not on this walk":void 0},figureSpec(){let t=e.graphRegion,n=e.sourceAdapter,o=n?.assemblyNameToPanSN,s=t&&`${t.refName}:${t.start}-${t.end}`,r=Ee(e.sourceGfaLocation),a=n?.type==="GbzBaseSyntenyAdapter"?Ee(n.gbzDbLocation):void 0,i=r?{gfa:r,region:s}:a&&t&&s?{gbz:{db:a,index:Ee(n.haplotypeIndexLocation),region:s,haplotypes:e.cutHaplotypes?.map(d=>o?.[d]??d),referenceSample:n.referenceSample||o?.[t.assemblyName]||t.assemblyName,context:n.context,snarls:e.cutsWholeWalks?"overlapping":n.subgraphSnarls}}:void 0;if(!i)return;let c=e.showGenes?e.geneTrack:void 0,p=c?ne(e).tracks.find(d=>d.trackId===c.trackId):void 0,u=p?mo(q(p,"adapter"),"gffGzLocation"):void 0,l=u?.type==="Gff3TabixAdapter"?{file:Ee(u.gffGzLocation),index:Ee(u.index?.location),format:"gff3"}:void 0;return JSON.parse(JSON.stringify({...i,genes:l?.file&&l.index?l:void 0,referencePath:e.referencePath||void 0,layout:e.chosenLayoutMode,...Fn({engine:e.layoutEngine,quality:e.layoutQuality,linearLayout:e.linearLayout,bubbleSpread:e.bubbleSpread,showDeletionEdges:e.showDeletionEdges,colorScheme:e.chosenColorScheme,nodeWidth:e.nodeWidth,contigThickness:e.contigThickness,connectorThickness:e.connectorThickness,colorDomain:e.statedColorDomain}),walks:e.walkLayers.length?e.walkLayers.map(d=>d.color?d:d.walk):void 0,facet:e.walkLayers.length>1?e.facetSpec:void 0,walkStrip:e.walkStripShown||void 0,walkRowSamples:e.walkStripShown?e.walkRowSamples:void 0,width:e.paneWidth,height:e.paneCeiling}))},get figureUnavailable(){return e.layoutResult?e.walkRowGroups?"The SVG export cannot group walk rows yet: set Group by... to None first":e.drawsNodes||e.walkRowBars?void 0:`${Q(e.chosenLayoutMode).label} draws a picture of its own, which the SVG export does not`:"Nothing is drawn yet"},get 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