@sjcrh/proteinpaint-client 2.216.0 → 2.217.0

package/dist/animatedBubbleChart-23CVOAXV.js

@@ -1,542 +0,0 @@
-import {
-  PlotBase,
-  Tabs
-} from "./chunk-FIFNXVTS.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-N2FCAFJH.js";
-import "./chunk-OH33WT6Q.js";
-import {
-  Menu
-} from "./chunk-CNFTQSNE.js";
-import "./chunk-EEB5VE2A.js";
-import "./chunk-3CIL7KH7.js";
-import "./chunk-T4XPCSLP.js";
-import {
-  dofetch3
-} from "./chunk-5MHE7AIV.js";
-import "./chunk-6WYKPBZI.js";
-import "./chunk-W5J3LTYS.js";
-import "./chunk-DBOJ3TMI.js";
-import {
-  TermTypes,
-  arc_default,
-  collide_default,
-  getColors,
-  simulation_default,
-  x_default,
-  y_default
-} from "./chunk-EZFO5UYD.js";
-import {
-  copyMerge,
-  getCompInit
-} from "./chunk-HBNB5TRH.js";
-import "./chunk-PF4DSFDR.js";
-import {
-  enclose_default,
-  siblings_default,
-  sqrt
-} from "./chunk-4OLM3KSB.js";
-import "./chunk-6XKAOSQE.js";
-import "./chunk-TLT4YIG3.js";
-import "./chunk-5R63Q5KH.js";
-import {
-  select_default
-} from "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-HS5PO5ZQ.js";
-
-// plots/animatedBubbleChart.ts
-var defaultConfig = { chartType: "animatedBubbleChart" };
-var SPLIT_W = 1100;
-var SPLIT_H = 900;
-var MIN_R = 6;
-var MAX_R = 43;
-var INNER_CIRCLE_RATIO = 0.75;
-var RING_GAP = 1;
-var PADDING = 0;
-var HOVER_SCALE = 1.2;
-var HOVER_COLLIDE_BOOST = 1.4;
-var HOVER_REPEL_REACH = 91;
-var HOVER_REPEL_STRENGTH = 0.17;
-var GRAVITY_STRENGTH = 0.28;
-var HOVER_GRAVITY = 0.045;
-var AnimatedBubbleChart = class _AnimatedBubbleChart extends PlotBase {
-  constructor(opts, api) {
-    super(opts, api);
-    this.simulation = null;
-    this.selectedRankingKey = null;
-    this.groupBy = "all";
-    // State for the split-view toggle. Stored on the instance so the toggle handler
-    // can recompute layout + restart the simulation without re-fetching data.
-    this.currentNodes = [];
-    this.currentAssays = [];
-    // 'all'-mode packed-cluster enclosing radius (+slack); set by computeHomes and used by
-    // the per-tick circular clamp, so we don't pack the same nodes twice.
-    this.allModeBoundaryR = 0;
-    this.modalityLabelsSel = null;
-    // Computed each time we enter split mode: where each modality's sub-cluster sits.
-    // Sizes vary because we hierarchically pack groups by their natural cluster radii.
-    // `topY` is the topmost EDGE of the cluster (min(homeY - outerR)) — bubble radii
-    // aren't scaled with the layout, so the visual extent reaches farther up than
-    // `cy - r*scale`. Labels use this so they always sit clear of every bubble.
-    this.groupCenters = [];
-    this.svgSel = null;
-    this.wrapperSel = null;
-    // Computed by `computeHomes` from the actual home positions + bubble radii.
-    // Drives the wrapper's visible width/height so the chart frame hugs the cluster
-    // instead of inheriting the much larger fixed SPLIT canvas size.
-    this.contentBbox = {
-      minX: 0,
-      minY: 0,
-      maxX: 0,
-      maxY: 0
-    };
-    this.BBOX_PAD = 20;
-    this.type = _AnimatedBubbleChart.type;
-    this.components = {};
-  }
-  static {
-    this.type = "animatedBubbleChart";
-  }
-  /** Internal SVG coordinate space — fixed, used by computeHomes for layout math. */
-  canvasW() {
-    return SPLIT_W;
-  }
-  canvasH() {
-    return SPLIT_H;
-  }
-  /** Visible viewport — sized to the actual content bbox + padding, not a fixed constant. */
-  viewportW() {
-    return Math.max(50, this.contentBbox.maxX - this.contentBbox.minX + 2 * this.BBOX_PAD);
-  }
-  viewportH() {
-    return Math.max(50, this.contentBbox.maxY - this.contentBbox.minY + 2 * this.BBOX_PAD);
-  }
-  async init() {
-    const holder = this.opts.holder.append("div").style("padding", "10px");
-    this.dom = {
-      holder,
-      controls: holder.append("div").style("display", "flex").style("gap", "14px").style("align-items", "center").style("margin-bottom", "10px"),
-      body: holder.append("div"),
-      tip: new Menu({ padding: "" }),
-      header: this.opts.header
-    };
-    if (this.dom.header) this.dom.header.html("Bubble Chart");
-  }
-  getState(appState) {
-    const config = appState.plots.find((p) => p.id === this.id);
-    if (!config) throw `No plot with id='${this.id}' found`;
-    return { config };
-  }
-  async main() {
-    await this.fetchAndRender(this.selectedRankingKey ?? void 0);
-  }
-  async fetchAndRender(rankingKey) {
-    const body = {
-      genome: this.app.opts.state.vocab.genome,
-      dslabel: this.app.opts.state.vocab.dslabel
-    };
-    if (rankingKey) body.rankingKey = rankingKey;
-    const data = await dofetch3("termdb/animatedBubbleChart", { body });
-    if (this.simulation) {
-      this.simulation.stop();
-      this.simulation = null;
-    }
-    if (data.error) {
-      if (data.rankingKeys?.length) this.renderControls(data.rankingKeys, rankingKey ?? data.rankingKeys[0]);
-      this.dom.body.selectAll("*").remove();
-      this.dom.body.append("div").style("padding", "20px").style("color", "#b00020").text(`Error: ${data.error}`);
-      return;
-    }
-    this.selectedRankingKey = data.selectedRankingKey;
-    this.renderControls(data.rankingKeys, data.selectedRankingKey);
-    this.dom.body.selectAll("*").remove();
-    if (!data.bubbles?.length) {
-      this.dom.body.append("div").style("padding", "20px").style("color", "#666").text("No data in the selected ranking file.");
-      return;
-    }
-    const container = this.dom.body.append("div").style("display", "flex").style("gap", "24px").style("align-items", "flex-start").style("flex-wrap", "nowrap");
-    const colorScale = getColors(data.assays.length).domain(data.assays);
-    const assayColors = {};
-    for (const a of data.assays) assayColors[a] = colorScale(a);
-    this.renderBubbles(container, data.bubbles, assayColors);
-    this.renderLegend(container, data.assays, assayColors);
-  }
-  renderControls(rankingKeys, current) {
-    this.dom.controls.selectAll("*").remove();
-    const sel = this.dom.controls.append("select").style("padding", "4px 8px").style("min-width", "200px");
-    sel.selectAll("option").data(rankingKeys).enter().append("option").attr("value", (d) => d).text((d) => d);
-    sel.property("value", current);
-    sel.on("change", () => this.fetchAndRender(sel.node().value));
-    const tabsHolder = this.dom.controls.append("div");
-    const tabsToggle = new Tabs({
-      holder: tabsHolder,
-      noContent: true,
-      tabs: [
-        {
-          label: "Combined",
-          active: this.groupBy === "all",
-          callback: () => {
-            if (this.groupBy === "all") return;
-            this.groupBy = "all";
-            this.applyGrouping();
-          }
-        },
-        {
-          label: "Split by dominant data type",
-          active: this.groupBy === "modality",
-          callback: () => {
-            if (this.groupBy === "modality") return;
-            this.groupBy = "modality";
-            this.applyGrouping();
-          }
-        }
-      ]
-    });
-    tabsToggle.main();
-  }
-  /** Find the modality (assay) that contributes the largest slice to this gene's wheel. */
-  dominantAssay(node) {
-    let bestAssay = node.slices[0]?.assay ?? this.currentAssays[0];
-    let bestAngle = -1;
-    for (const s of node.slices) {
-      if (s.angle > bestAngle) {
-        bestAngle = s.angle;
-        bestAssay = s.assay;
-      }
-    }
-    return bestAssay;
-  }
-  /** Compute homeX/homeY on every node based on the current `groupBy` mode. */
-  computeHomes() {
-    const nodes = this.currentNodes;
-    if (!nodes.length) return;
-    const W = this.canvasW();
-    const H = this.canvasH();
-    if (this.groupBy === "all") {
-      const packInputs = nodes.map((n) => ({ r: n.outerR, x: 0, y: 0 }));
-      siblings_default(packInputs);
-      const enclose = enclose_default(packInputs) ?? { x: 0, y: 0, r: Math.min(W, H) / 2 };
-      const dx2 = W / 2 - enclose.x;
-      const dy2 = H / 2 - enclose.y;
-      for (let i = 0; i < nodes.length; i++) {
-        nodes[i].homeX = packInputs[i].x + dx2;
-        nodes[i].homeY = packInputs[i].y + dy2;
-      }
-      this.allModeBoundaryR = enclose.r + 2;
-      this.groupCenters = [];
-      this.recordContentBbox();
-      return;
-    }
-    const assays = this.currentAssays;
-    const LABEL_GAP = 200;
-    const buckets = /* @__PURE__ */ new Map();
-    for (const a of assays) buckets.set(a, []);
-    for (const n of nodes) buckets.get(this.dominantAssay(n))?.push(n);
-    const layouts = [];
-    for (const assay of assays) {
-      const groupNodes = buckets.get(assay) ?? [];
-      if (!groupNodes.length) continue;
-      const packs = groupNodes.map((n) => ({ r: n.outerR, x: 0, y: 0 }));
-      siblings_default(packs);
-      const enclose = enclose_default(packs) ?? { x: 0, y: 0, r: 0 };
-      let naturalExtent = 0;
-      for (let j = 0; j < groupNodes.length; j++) {
-        const dx2 = packs[j].x - enclose.x;
-        const dy2 = packs[j].y - enclose.y;
-        const reach = Math.sqrt(dx2 * dx2 + dy2 * dy2) + groupNodes[j].outerR;
-        if (reach > naturalExtent) naturalExtent = reach;
-      }
-      layouts.push({ assay, nodes: groupNodes, packs, enclose, naturalExtent });
-    }
-    const superCircles = layouts.map((g) => ({ r: g.naturalExtent + LABEL_GAP, x: 0, y: 0 }));
-    siblings_default(superCircles);
-    const overallEnclose = enclose_default(superCircles) ?? { x: 0, y: 0, r: 1 };
-    const margin = 10;
-    const maxR = Math.min(W, H) / 2 - margin;
-    const scale = overallEnclose.r > maxR ? maxR / overallEnclose.r : 1;
-    const dx = W / 2 - overallEnclose.x * scale;
-    const dy = H / 2 - overallEnclose.y * scale;
-    this.groupCenters = [];
-    for (let i = 0; i < layouts.length; i++) {
-      const g = layouts[i];
-      const groupCx = superCircles[i].x * scale + dx;
-      const groupCy = superCircles[i].y * scale + dy;
-      const offX = groupCx - g.enclose.x;
-      const offY = groupCy - g.enclose.y;
-      for (let j = 0; j < g.nodes.length; j++) {
-        g.nodes[j].homeX = g.packs[j].x + offX;
-        g.nodes[j].homeY = g.packs[j].y + offY;
-      }
-      this.groupCenters.push({
-        assay: g.assay,
-        cx: groupCx,
-        cy: groupCy,
-        r: g.naturalExtent,
-        topY: groupCy - g.naturalExtent
-      });
-    }
-    let minX = Infinity, minY = Infinity, maxX = -Infinity, maxY = -Infinity;
-    for (const n of nodes) {
-      if (n.homeX - n.outerR < minX) minX = n.homeX - n.outerR;
-      if (n.homeY - n.outerR < minY) minY = n.homeY - n.outerR;
-      if (n.homeX + n.outerR > maxX) maxX = n.homeX + n.outerR;
-      if (n.homeY + n.outerR > maxY) maxY = n.homeY + n.outerR;
-    }
-    if (Number.isFinite(minX)) {
-      const shiftX = W / 2 - (minX + maxX) / 2;
-      const shiftY = H / 2 - (minY + maxY) / 2;
-      for (const n of nodes) {
-        n.homeX += shiftX;
-        n.homeY += shiftY;
-      }
-      for (const g of this.groupCenters) {
-        g.cx += shiftX;
-        g.cy += shiftY;
-        g.topY += shiftY;
-      }
-    }
-    this.recordContentBbox();
-  }
-  /** Record the FINAL content bbox (after recentering) so the wrapper can hug the
-   *  cluster instead of inheriting a fixed canvas size. Called by both modes. */
-  recordContentBbox() {
-    const nodes = this.currentNodes;
-    if (!nodes.length) return;
-    let bx0 = Infinity, by0 = Infinity, bx1 = -Infinity, by1 = -Infinity;
-    for (const n of nodes) {
-      if (n.homeX - n.outerR < bx0) bx0 = n.homeX - n.outerR;
-      if (n.homeY - n.outerR < by0) by0 = n.homeY - n.outerR;
-      if (n.homeX + n.outerR > bx1) bx1 = n.homeX + n.outerR;
-      if (n.homeY + n.outerR > by1) by1 = n.homeY + n.outerR;
-    }
-    if (this.groupBy === "modality") {
-      for (const g of this.groupCenters) {
-        const labelY = g.topY - 32;
-        if (labelY < by0) by0 = labelY;
-      }
-    }
-    if (Number.isFinite(bx0)) {
-      this.contentBbox = { minX: bx0, minY: by0, maxX: bx1, maxY: by1 };
-    }
-  }
-  /** Toggle handler — recompute homes for the current groupBy and reheat the simulation. */
-  applyGrouping() {
-    this.computeHomes();
-    if (this.wrapperSel) {
-      this.wrapperSel.transition().duration(900).style("width", `${this.viewportW()}px`).style("height", `${this.viewportH()}px`);
-    }
-    if (this.svgSel) {
-      this.svgSel.transition().duration(900).style("left", `${this.BBOX_PAD - this.contentBbox.minX}px`).style("top", `${this.BBOX_PAD - this.contentBbox.minY}px`);
-    }
-    const centerByAssay = new Map(this.groupCenters.map((g) => [g.assay, g]));
-    if (this.modalityLabelsSel) {
-      const labels = this.modalityLabelsSel.selectAll("text");
-      if (this.groupBy === "modality") {
-        labels.transition().duration(900).attr("opacity", (assay) => centerByAssay.has(assay) ? 1 : 0).attr("x", (assay) => centerByAssay.get(assay)?.cx ?? 0).attr("y", (assay) => {
-          const g = centerByAssay.get(assay);
-          return g ? g.cy - g.r - 12 : 0;
-        });
-      } else {
-        labels.transition().duration(400).attr("opacity", 0);
-      }
-    }
-    if (this.simulation) {
-      this.simulation.force("x", x_default((d) => d.homeX).strength(GRAVITY_STRENGTH)).force("y", y_default((d) => d.homeY).strength(GRAVITY_STRENGTH)).velocityDecay(0.55).alpha(0.6).alphaDecay(0.018).restart();
-      setTimeout(() => {
-        if (this.simulation) this.simulation.velocityDecay(0.4).alphaDecay(0.022);
-      }, 2500);
-    }
-  }
-  renderBubbles(container, bubbles, assayColors) {
-    const maxRank = Math.max(...bubbles.map((b) => b.integrativeRank));
-    const sizeScale = sqrt().domain([1, maxRank]).range([MAX_R, MIN_R]).clamp(true);
-    const nodes = bubbles.map((b) => {
-      const outerR = sizeScale(b.integrativeRank);
-      const innerR = outerR * INNER_CIRCLE_RATIO;
-      const slices = [];
-      let cum = 0;
-      for (const s of b.slices) {
-        const start = cum;
-        const end = cum + s.angle;
-        slices.push({ ...s, startAngle: start, endAngle: end });
-        cum = end;
-      }
-      return {
-        gene: b.gene,
-        integrativeRank: b.integrativeRank,
-        orderStatQ: b.orderStatQ,
-        pValue: b.pValue,
-        fdr: b.fdr,
-        slices,
-        innerR,
-        outerR,
-        // Seed positions in a small jitter around center so the simulation pulls them outward to home
-        x: this.canvasW() / 2 + (Math.random() - 0.5) * 80,
-        y: this.canvasH() / 2 + (Math.random() - 0.5) * 80,
-        homeX: 0,
-        // filled in by packSiblings below
-        homeY: 0,
-        hovered: false
-      };
-    });
-    this.currentNodes = nodes;
-    this.currentAssays = Object.keys(assayColors);
-    this.computeHomes();
-    const wrapper = container.append("div").style("position", "relative").style("overflow", "hidden").style("width", `${this.viewportW()}px`).style("height", `${this.viewportH()}px`);
-    this.wrapperSel = wrapper;
-    const svg = wrapper.append("svg").attr("width", this.canvasW()).attr("height", this.canvasH()).style("position", "absolute").style("left", `${this.BBOX_PAD - this.contentBbox.minX}px`).style("top", `${this.BBOX_PAD - this.contentBbox.minY}px`);
-    this.svgSel = svg;
-    const root = svg.append("g");
-    const arcGen = arc_default().startAngle((d) => d.startAngle).endAngle((d) => d.endAngle);
-    const groups = root.selectAll("g.sjpp-abc-bubble").data(nodes).enter().append("g").attr("class", "sjpp-abc-bubble").attr("transform", (d) => `translate(${d.x},${d.y})`).style("cursor", "pointer").attr("role", "button").attr("tabindex", 0).attr("aria-label", (d) => `Open protein view for ${d.gene}`);
-    groups.append("circle").attr("class", "hit-area").attr("r", (d) => d.outerR).attr("fill", "transparent");
-    groups.each(function(d) {
-      const slicesG = select_default(this).append("g").attr("class", "ring");
-      const visible = d.slices.filter((s) => s.angle > 0);
-      slicesG.selectAll("path").data(visible).enter().append("path").attr("fill", (s) => assayColors[s.assay] ?? "#999").attr("stroke", "#fff").attr("stroke-width", 0.8).attr("opacity", 0).attr(
-        "d",
-        (s) => arcGen({
-          ...s,
-          innerRadius: d.innerR + RING_GAP,
-          outerRadius: d.outerR
-        })
-      );
-    });
-    groups.append("circle").attr("class", "inner").attr("r", 0).attr("fill", "#fff").attr("stroke", "#333").attr("stroke-width", 1);
-    const labelFontSize = (d) => {
-      const byRadius = d.innerR * 0.72;
-      const maxByWidth = d.innerR * 1.8 / Math.max(d.gene.length * 0.6, 1);
-      return Math.max(5, Math.min(byRadius, maxByWidth, 20));
-    };
-    groups.append("text").attr("text-anchor", "middle").attr("dominant-baseline", "central").attr("font-weight", "bold").attr("font-size", (d) => `${labelFontSize(d)}px`).attr("fill", "#222").attr("pointer-events", "none").attr("opacity", 0).text((d) => d.gene);
-    const tip = this.dom.tip;
-    groups.on("mouseenter", (event, d) => {
-      d.hovered = true;
-      if (this.simulation) {
-        this.simulation.force("x").strength(HOVER_GRAVITY);
-        this.simulation.force("y").strength(HOVER_GRAVITY);
-        this.simulation.alpha(0.5).restart();
-      }
-      tip.clear().show(event.clientX, event.clientY);
-      const t = tip.d.append("div").style("padding", "8px").style("font-size", "13px").style("min-width", "220px");
-      t.append("div").style("font-weight", "bold").style("font-size", "15px").style("margin-bottom", "4px").text(d.gene);
-      t.append("div").text(`Integrative rank: ${d.integrativeRank}`);
-      if (d.orderStatQ != null) t.append("div").text(`Order statistic Q: ${d.orderStatQ.toExponential(3)}`);
-      if (d.pValue != null)
-        t.append("div").text(`P value: ${d.pValue >= 1e-4 ? d.pValue.toFixed(4) : d.pValue.toExponential(3)}`);
-      if (d.fdr != null) t.append("div").text(`FDR: ${d.fdr >= 1e-4 ? d.fdr.toFixed(4) : d.fdr.toExponential(3)}`);
-      const table = t.append("table").style("margin-top", "6px").style("border-collapse", "collapse").style("font-size", "12px");
-      const header = table.append("tr");
-      header.append("th").style("text-align", "left").style("padding", "2px 6px").text("Data Type");
-      header.append("th").style("text-align", "right").style("padding", "2px 6px").text("Rank");
-      header.append("th").style("text-align", "right").style("padding", "2px 6px").text("Share");
-      for (const s of d.slices) {
-        const row = table.append("tr");
-        const swatch = row.append("td").style("padding", "2px 6px");
-        swatch.append("span").style("display", "inline-block").style("width", "10px").style("height", "10px").style("background", assayColors[s.assay] ?? "#999").style("margin-right", "6px").style("vertical-align", "middle");
-        swatch.append("span").text(s.assay);
-        row.append("td").style("padding", "2px 6px").style("text-align", "right").text(s.rank == null ? "NA" : String(s.rank));
-        row.append("td").style("padding", "2px 6px").style("text-align", "right").text(s.weight == null ? "\u2014" : `${(s.weight * 100).toFixed(1)}%`);
-      }
-    }).on("mouseleave", (_event, d) => {
-      d.hovered = false;
-      if (this.simulation) {
-        this.simulation.force("x").strength(GRAVITY_STRENGTH);
-        this.simulation.force("y").strength(GRAVITY_STRENGTH);
-        this.simulation.alpha(0.25).restart();
-      }
-      tip.hide();
-    }).on("click keydown", (event, d) => {
-      if (event.type === "keydown") {
-        const ke = event;
-        if (ke.key !== "Enter" && ke.key !== " ") return;
-        ke.preventDefault();
-      }
-      tip.hide();
-      this.app.dispatch({
-        type: "plot_create",
-        config: {
-          chartType: "proteinView",
-          tw: {
-            term: {
-              gene: d.gene,
-              name: d.gene,
-              type: TermTypes.PROTEOME_ABUNDANCE
-            }
-          }
-        }
-      });
-    });
-    groups.select("circle.inner").transition().duration(900).attr("r", (d) => d.innerR);
-    groups.select("g.ring").selectAll("path").transition().delay(200).duration(900).attr("opacity", 0.95);
-    groups.select("text").transition().delay(500).duration(600).attr("opacity", 1);
-    const assayNames = this.currentAssays;
-    const labelsG = svg.append("g").attr("class", "modality-labels");
-    labelsG.selectAll("text").data(assayNames).enter().append("text").attr("text-anchor", "middle").attr("dominant-baseline", "alphabetic").attr("font-size", "13px").attr("font-weight", "bold").attr("paint-order", "stroke").attr("stroke", "#fff").attr("stroke-width", 3).attr("stroke-linejoin", "round").attr("fill", (d) => assayColors[d] ?? "#333").attr("opacity", 0).attr("x", this.canvasW() / 2).attr("y", 12).text((d) => d);
-    this.modalityLabelsSel = labelsG;
-    if (this.groupBy === "modality") {
-      const centerByAssay = new Map(this.groupCenters.map((g) => [g.assay, g]));
-      labelsG.selectAll("text").attr("opacity", (assay) => centerByAssay.has(assay) ? 1 : 0).attr("x", (assay) => centerByAssay.get(assay)?.cx ?? this.canvasW() / 2).attr("y", (assay) => {
-        const g = centerByAssay.get(assay);
-        return g ? g.cy - g.r - 8 : 12;
-      });
-    }
-    const collideR = (d) => (d.hovered ? d.outerR * HOVER_COLLIDE_BOOST : d.outerR) + PADDING;
-    function hoverRepel(alpha) {
-      const h = nodes.find((n) => n.hovered);
-      if (!h) return;
-      const sizeRatio = h.outerR / MAX_R;
-      const reach = HOVER_REPEL_REACH * sizeRatio;
-      const strength = HOVER_REPEL_STRENGTH * sizeRatio;
-      if (reach < 1) return;
-      for (const n of nodes) {
-        if (n === h) continue;
-        const dx = n.x - h.x;
-        const dy = n.y - h.y;
-        const dist = Math.sqrt(dx * dx + dy * dy) || 0.01;
-        if (dist >= reach) continue;
-        const falloff = 1 - dist / reach;
-        const push = strength * falloff * alpha;
-        n.vx = (n.vx ?? 0) + dx / dist * push * reach;
-        n.vy = (n.vy ?? 0) + dy / dist * push * reach;
-      }
-    }
-    this.simulation = simulation_default(nodes).force("collide", collide_default(collideR).strength(1).iterations(2)).force("x", x_default((d) => d.homeX).strength(GRAVITY_STRENGTH)).force("y", y_default((d) => d.homeY).strength(GRAVITY_STRENGTH)).force("hoverRepel", hoverRepel).alpha(1).alphaDecay(0.022).alphaMin(1e-3).on("tick", () => {
-      if (this.groupBy === "all") {
-        const cxC = this.canvasW() / 2;
-        const cyC = this.canvasH() / 2;
-        for (const d of nodes) {
-          const ddx = d.x - cxC;
-          const ddy = d.y - cyC;
-          const dist = Math.sqrt(ddx * ddx + ddy * ddy) || 1e-4;
-          const maxDist = this.allModeBoundaryR - d.outerR;
-          if (dist > maxDist) {
-            d.x = cxC + ddx * maxDist / dist;
-            d.y = cyC + ddy * maxDist / dist;
-          }
-        }
-      }
-      groups.attr("transform", (d) => `translate(${d.x},${d.y})${d.hovered ? ` scale(${HOVER_SCALE})` : ""}`);
-    });
-  }
-  renderLegend(container, assays, assayColors) {
-    const legend = container.append("div").style("display", "flex").style("flex-direction", "column").style("gap", "6px").style("padding", "4px 0").style("min-width", "160px");
-    legend.append("div").style("font-weight", "bold").style("font-size", "13px").style("margin-bottom", "4px").text("Data Type");
-    for (const assay of assays) {
-      const row = legend.append("div").style("display", "flex").style("align-items", "center").style("gap", "8px").style("font-size", "12px");
-      row.append("span").style("display", "inline-block").style("width", "14px").style("height", "14px").style("background", assayColors[assay] ?? "#999").style("border", "1px solid #ccc");
-      row.append("span").text(assay);
-    }
-  }
-};
-var componentInit = getCompInit(AnimatedBubbleChart);
-async function getPlotConfig(opts) {
-  const config = structuredClone(defaultConfig);
-  return copyMerge(config, opts);
-}
-export {
-  componentInit,
-  getPlotConfig
-};
-//# sourceMappingURL=animatedBubbleChart-23CVOAXV.js.map

package/dist/app-KRJBODQD.js

@@ -1,28 +0,0 @@
-import {
-  appInit
-} from "./chunk-FIFNXVTS.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-N2FCAFJH.js";
-import "./chunk-OH33WT6Q.js";
-import "./chunk-CNFTQSNE.js";
-import "./chunk-EEB5VE2A.js";
-import "./chunk-3CIL7KH7.js";
-import "./chunk-T4XPCSLP.js";
-import "./chunk-5MHE7AIV.js";
-import "./chunk-6WYKPBZI.js";
-import "./chunk-W5J3LTYS.js";
-import "./chunk-DBOJ3TMI.js";
-import "./chunk-EZFO5UYD.js";
-import "./chunk-HBNB5TRH.js";
-import "./chunk-PF4DSFDR.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-6XKAOSQE.js";
-import "./chunk-TLT4YIG3.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-HS5PO5ZQ.js";
-export {
-  appInit
-};
-//# sourceMappingURL=app-KRJBODQD.js.map

package/dist/app-YLGQTR3U.js

@@ -1,38 +0,0 @@
-import {
-  appInit
-} from "./chunk-GGUCMNZ2.js";
-import "./chunk-CFHGRMLN.js";
-import "./chunk-Q37PHHHH.js";
-import "./chunk-DDDL46RE.js";
-import "./chunk-KSWKOKY7.js";
-import "./chunk-QVQI5DW7.js";
-import "./chunk-4E2F26CC.js";
-import "./chunk-SKMFMGCD.js";
-import "./chunk-5KHI46ZP.js";
-import "./chunk-PRZWSBMA.js";
-import "./chunk-FIFNXVTS.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-N2FCAFJH.js";
-import "./chunk-OH33WT6Q.js";
-import "./chunk-CNFTQSNE.js";
-import "./chunk-EEB5VE2A.js";
-import "./chunk-3CIL7KH7.js";
-import "./chunk-T4XPCSLP.js";
-import "./chunk-5MHE7AIV.js";
-import "./chunk-6WYKPBZI.js";
-import "./chunk-W5J3LTYS.js";
-import "./chunk-DBOJ3TMI.js";
-import "./chunk-EZFO5UYD.js";
-import "./chunk-HBNB5TRH.js";
-import "./chunk-PF4DSFDR.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-6XKAOSQE.js";
-import "./chunk-TLT4YIG3.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-HS5PO5ZQ.js";
-export {
-  appInit
-};
-//# sourceMappingURL=app-YLGQTR3U.js.map