@sjcrh/proteinpaint-client 2.180.0 → 2.180.1

package/dist/chunk-OM22RN7S.js

@@ -0,0 +1,438 @@
+import {
+  setViolinRenderer
+} from "./chunk-HEKX7RAT.js";
+import {
+  setInteractivity
+} from "./chunk-HIV4NSWS.js";
+import {
+  PlotBase,
+  controlsInit,
+  defaultUiLabels,
+  fillTermWrapper,
+  getCombinedTermFilter,
+  htmlLegend,
+  renderTerm1Label,
+  term0_term2_defaultQ
+} from "./chunk-SAHCLNNL.js";
+import {
+  Menu
+} from "./chunk-CXMZYVZT.js";
+import {
+  copyMerge,
+  getCompInit
+} from "./chunk-MVTCBVSX.js";
+import {
+  isNumericTerm
+} from "./chunk-RTKRLATH.js";
+import {
+  plotColor
+} from "./chunk-SOYDFNWV.js";
+
+// plots/violin.js
+var ViolinPlot = class _ViolinPlot extends PlotBase {
+  static type = "violin";
+  constructor(opts) {
+    super(opts);
+    this.type = _ViolinPlot.type;
+  }
+  async init(appState) {
+    const controls = this.opts.holder.append("div").attr("class", "sjpp-plot-controls").style("display", "inline-block");
+    const config = appState.plots.find((p) => p.id === this.id);
+    const holder = this.opts.holder.append("div").style("display", "inline-block").style("padding", this.opts.mode != "minimal" ? "5px" : "0px").style("padding-left", this.opts.mode != "minimal" ? "20px" : "0px").attr("id", "sjpp-vp-holder");
+    this.dom = {
+      hovertip: new Menu({ padding: "3px" }),
+      // separate tips for hover & click on violin labels to avoid interfering
+      clicktip: new Menu({ padding: "0px" }),
+      sampletabletip: new Menu({ padding: "3px" }),
+      // sampletable is lauched from option shown in clicktip which closes on clicking, thus need its own menu..
+      header: this.opts.header,
+      controls,
+      banner: holder.append("div").style("display", "none").style("text-align", "center").style("padding", "24px").style("font-size", "16px"),
+      loadingDiv: holder.append("div").style("display", this.opts.mode != "minimal" ? "inline-block" : "none").style("padding", "24px").text("Loading ..."),
+      violinDiv: holder.append("div").attr("class", "sjpp-vp-violinDiv").style("display", "flex").style("flex-direction", "row").style("flex-wrap", "wrap").style("max-width", "100vw"),
+      legendDiv: holder.append("div").classed("sjpp-vp-legend", true).style("margin-left", "-15px").style("padding-top", "20px")
+    };
+    setViolinRenderer(this);
+    setInteractivity(this);
+    if (this.opts.mode != "minimal") {
+      this.legendRenderer = htmlLegend(this.dom.legendDiv, {
+        settings: {
+          legendOrientation: "vertical"
+        },
+        handlers: {}
+      });
+    }
+  }
+  reactsTo(action) {
+    if (action.type.startsWith("plot_")) {
+      return (action.id === this.id || action.id == this.parentId) && (!action.config?.childType || action.config?.childType == this.type);
+    }
+    return true;
+  }
+  preApiFreeze(api) {
+    api.download = this.download;
+    api.getChartImages = () => this.getChartImages();
+  }
+  async setControls() {
+    if (this.components.controls) return;
+    this.dom.controls.selectAll("*").remove();
+    const controlLabels = this.state.config.controlLabels;
+    if (!controlLabels) throw "controls labels not found";
+    this.components = {};
+    if (this.opts.mode == "minimal") return;
+    const inputs = [
+      {
+        type: "term",
+        configKey: "term",
+        chartType: "violin",
+        usecase: { target: "violin", detail: "term" },
+        label: controlLabels.term1?.label || renderTerm1Label,
+        vocabApi: this.app.vocabApi,
+        menuOptions: "edit"
+      },
+      {
+        type: "term",
+        configKey: "term2",
+        chartType: "violin",
+        usecase: { target: "violin", detail: "term2" },
+        title: controlLabels.term2.title || controlLabels.term2.label,
+        label: controlLabels.term2.label,
+        vocabApi: this.app.vocabApi,
+        numericEditMenuVersion: this.opts.numericEditMenuVersion,
+        defaultQ4fillTW: term0_term2_defaultQ
+      },
+      {
+        type: "term",
+        configKey: "term0",
+        chartType: "violin",
+        usecase: { target: "violin", detail: "term0" },
+        title: controlLabels.term0.title || controlLabels.term0.label,
+        label: controlLabels.term0.label,
+        vocabApi: this.app.vocabApi,
+        // by default, do not allow continuous mode for divide-by term, since
+        // it will create a separate violin-overlay group per unique float or integer value
+        // and there will nonsensical tens/hundreds of these charts based on the cohort size
+        numericEditMenuVersion: this.opts.numericEditMenuVersion || ["discrete"],
+        defaultQ4fillTW: term0_term2_defaultQ
+      },
+      {
+        label: "Orientation",
+        title: "Orientation of the chart",
+        type: "radio",
+        chartType: "violin",
+        settingsKey: "orientation",
+        options: [
+          { label: "Vertical", value: "vertical" },
+          { label: "Horizontal", value: "horizontal" }
+        ]
+      },
+      {
+        label: "Data symbol",
+        title: "Symbol type",
+        type: "radio",
+        chartType: "violin",
+        settingsKey: "datasymbol",
+        options: [
+          { label: "Ticks", value: "rug" },
+          { label: "Circles", value: "bean" },
+          { label: "Off", value: "none" }
+        ]
+      },
+      {
+        label: "Scale",
+        title: "Axis scale",
+        type: "radio",
+        chartType: "violin",
+        settingsKey: "unit",
+        options: [
+          { label: "Linear", value: "abs" },
+          { label: "Log10", value: "log" }
+        ]
+      },
+      {
+        label: "Order by",
+        title: "Order violin plots by parameters",
+        type: "radio",
+        chartType: "violin",
+        settingsKey: "orderByMedian",
+        options: [
+          { label: "Default", value: false },
+          { label: "Median", value: true }
+        ],
+        getDisplayStyle: () => {
+          let style = "none";
+          const charts = this.data?.charts || {};
+          for (const k of Object.keys(charts)) {
+            const chart = charts[k];
+            if (chart?.plots.length > 1) style = "";
+          }
+          return style;
+        }
+      },
+      {
+        label: "Symbol size",
+        type: "number",
+        chartType: "violin",
+        settingsKey: "radius",
+        step: 1,
+        max: 30,
+        min: 4
+      },
+      {
+        label: "Bins",
+        type: "number",
+        chartType: "violin",
+        settingsKey: "ticks",
+        title: "Number of bins used to build the plot",
+        min: 1,
+        max: 50
+      },
+      {
+        label: "Plot length",
+        title: "Length of the plot",
+        type: "number",
+        chartType: "violin",
+        settingsKey: "svgw",
+        step: 10,
+        max: 1e3,
+        min: 200,
+        debounceInterval: 1e3
+      },
+      {
+        label: "Plot thickness",
+        title: "If not specified, the plot thickness is calculated based on the number of categories",
+        type: "number",
+        chartType: "violin",
+        settingsKey: "plotThickness",
+        step: 10,
+        max: 200,
+        min: 20,
+        debounceInterval: 1e3
+      },
+      {
+        label: "Plot padding",
+        type: "number",
+        chartType: "violin",
+        settingsKey: "rowSpace",
+        step: 1,
+        max: 20,
+        min: 0,
+        debounceInterval: 1e3
+      },
+      {
+        label: "Median length",
+        title: "Length of median",
+        type: "number",
+        chartType: "violin",
+        settingsKey: "medianLength",
+        step: 1,
+        max: 50,
+        min: 3,
+        debounceInterval: 1e3
+      },
+      {
+        label: "Median color",
+        title: "color of median",
+        type: "color",
+        chartType: "violin",
+        settingsKey: "medianColor"
+      },
+      {
+        label: "Median thickness",
+        title: "Width of median",
+        type: "number",
+        chartType: "violin",
+        settingsKey: "medianThickness",
+        step: 1,
+        max: 10,
+        min: 3,
+        debounceInterval: 100
+      },
+      {
+        label: "Default violin color",
+        type: "color",
+        chartType: "violin",
+        settingsKey: "defaultColor"
+      },
+      {
+        label: "Show stats",
+        type: "checkbox",
+        chartType: "violin",
+        settingsKey: "showStats",
+        boxLabel: "Yes"
+      },
+      {
+        label: "Show association tests",
+        type: "checkbox",
+        chartType: "violin",
+        settingsKey: "showAssociationTests",
+        boxLabel: "Yes",
+        getDisplayStyle: (plot) => plot.term2 ? "table-row" : "none"
+      }
+    ];
+    this.components.controls = await controlsInit({
+      app: this.app,
+      id: this.id,
+      holder: this.dom.controls,
+      inputs
+    });
+    this.components.controls.on("downloadClick.violin", this.download);
+  }
+  getState(appState) {
+    const config = appState.plots.find((p) => p.id === this.id);
+    if (!config) {
+      throw `No plot with id='${this.id}' found. Did you set this.id before this.api = getComponentApi(this)?`;
+    }
+    const parentConfig = appState.plots.find((p) => p.id === this.parentId);
+    const termfilter = getCombinedTermFilter(appState, config.filter || parentConfig?.filter);
+    return {
+      termfilter,
+      config,
+      displaySampleIds: appState.termdbConfig.displaySampleIds,
+      hasVerifiedToken: this.app.vocabApi.hasVerifiedToken()
+    };
+  }
+  async main() {
+    this.config = structuredClone(this.state.config);
+    this.settings = this.config.settings.violin;
+    await this.setControls();
+    if (this.config.chartType != this.type && this.config.childType != this.type) return;
+    if (this.dom.header)
+      this.dom.header.html(
+        this.config.term.term.name + ` <span style="opacity:.6;font-size:1em;margin-left:10px;">Violin Plot</span>`
+      );
+    const existingMsg = this.dom.banner.style("display", "none").select("span");
+    if (!existingMsg.empty()) existingMsg.remove();
+    const args = this.validateArgs();
+    let data;
+    try {
+      this.toggleLoadingDiv();
+      data = await this.app.vocabApi.getViolinPlotData(args, null, this.api.getAbortSignal());
+    } catch (e) {
+      this.toggleLoadingDiv("none");
+      if (this.app.isAbortError(e)) return;
+      throw e;
+    }
+    this.data = data;
+    if (this.data.error) {
+      this.toggleLoadingDiv("none");
+      throw this.data.error;
+    }
+    args.tw.q.descrStats = this.data.descrStats;
+    this.toggleLoadingDiv(this.opts.mode == "minimal" ? "none" : "");
+    setTimeout(
+      () => {
+        this.render();
+      },
+      this.opts.mode == "minimal" ? 0 : 500
+    );
+    this.toggleLoadingDiv("none");
+  }
+  validateArgs() {
+    const { term, term2, term0, settings } = this.config;
+    const s = this.settings;
+    const arg = {
+      svgw: s.svgw,
+      orientation: s.orientation,
+      devicePixelRatio: window.devicePixelRatio,
+      datasymbol: s.datasymbol,
+      radius: s.radius,
+      axisHeight: s.axisHeight,
+      rightMargin: s.rightMargin,
+      unit: s.unit,
+      ticks: s.ticks,
+      orderByMedian: s.orderByMedian,
+      filter: this.state.termfilter.filter
+    };
+    if (this.opts.mode == "minimal") {
+      arg.tw = term;
+      if (term2 || term0) throw "only a single term allowed for minimal plot";
+      if (term.q.mode == "spline") {
+        s.lines = term.q.knots.map((x) => Number(x.value));
+      } else {
+        s.lines = [];
+      }
+      if (term.q.scale) {
+        arg.scale = term.q.scale;
+      }
+    } else if (isNumericTerm(term.term) && term.q.mode === "continuous") {
+      arg.tw = term;
+      if (term2) arg.overlayTw = term2;
+    } else if (isNumericTerm(term2?.term) && term2.q.mode === "continuous") {
+      arg.tw = term2;
+      arg.overlayTw = term;
+    } else {
+      throw "both term1 and term2 are not numeric/continuous";
+    }
+    if (term0) arg.divideTw = term0;
+    return arg;
+  }
+};
+var violinInit = getCompInit(ViolinPlot);
+var componentInit = violinInit;
+function getDefaultViolinSettings(app, overrides = {}) {
+  const defaults = {
+    orientation: "horizontal",
+    rowlabelw: 250,
+    brushRange: null,
+    //object with start and end if there is a brush selection
+    svgw: 500,
+    // span length of a plot/svg, not including margin
+    datasymbol: "rug",
+    radius: 10,
+    axisHeight: 60,
+    rightMargin: 50,
+    lines: [],
+    unit: "abs",
+    // abs: absolute scale, log: log scale
+    rowSpace: 10,
+    medianLength: 7,
+    medianColor: "#FF0000",
+    medianThickness: 3,
+    ticks: 15,
+    defaultColor: plotColor,
+    method: 0,
+    orderByMedian: false,
+    showStats: true,
+    showAssociationTests: true
+  };
+  return Object.assign(defaults, overrides);
+}
+async function getPlotConfig(opts, app) {
+  if (!opts.term) throw "violin getPlotConfig: opts.term{} missing";
+  try {
+    await fillTermWrapper(opts.term, app.vocabApi);
+    if (opts.term2) await fillTermWrapper(opts.term2, app.vocabApi);
+    if (opts.term0) await fillTermWrapper(opts.term0, app.vocabApi);
+  } catch (e) {
+    throw `${e} [violin getPlotConfig()]`;
+  }
+  const config = {
+    id: opts.term.term.id,
+    controlLabels: Object.assign({}, defaultUiLabels, app.vocabApi.termdbConfig.uiLabels || {}),
+    settings: {
+      controls: {
+        term2: null,
+        // the previous overlay value may be displayed as a convenience for toggling
+        term0: null
+      },
+      // common: {
+      // 	use_logscale: false, // flag for y-axis scale type, 0=linear, 1=log
+      // 	use_percentage: false,
+      // 	barheight: 300, // maximum bar length
+      // 	barwidth: 20, // bar thickness
+      // 	barspace: 2 // space between two bars
+      // },
+      violin: getDefaultViolinSettings(app)
+    }
+  };
+  return copyMerge(config, opts);
+}
+
+export {
+  violinInit,
+  componentInit,
+  getDefaultViolinSettings,
+  getPlotConfig
+};
+//# sourceMappingURL=chunk-OM22RN7S.js.map

package/dist/chunk-OTK7UQ7K.js

@@ -0,0 +1,252 @@
+import {
+  getMclassSorter,
+  getSampleGroupSorter,
+  getSampleSorter,
+  getTermSorter
+} from "./chunk-5MB65WAE.js";
+import {
+  dtcnv,
+  dtfusionrna,
+  dtgeneexpression,
+  dtsnvindel,
+  sample_match_termvaluesetting
+} from "./chunk-SOYDFNWV.js";
+import {
+  __export
+} from "./chunk-HFNDKYVF.js";
+
+// plots/matrix/matrix.groups.js
+var matrix_groups_exports = {};
+__export(matrix_groups_exports, {
+  classifyValues: () => classifyValues,
+  getSampleGroups: () => getSampleGroups,
+  getSampleOrder: () => getSampleOrder,
+  getTermOrder: () => getTermOrder,
+  stackSiblingCellsByClass: () => stackSiblingCellsByClass
+});
+function getTermOrder(data) {
+  const s = this.settings.matrix;
+  this.termSorter = getTermSorter(this, s);
+  const termOrder = [];
+  let totalIndex = 0, visibleGrpIndex = 0, numClusterTerms = 0;
+  this.mclassSorter = getMclassSorter(this);
+  for (const [grpIndex, grp] of this.termGroups.entries()) {
+    const lst = [];
+    for (const [index, tw] of grp.lst.entries()) {
+      const counts = { samples: 0, hits: 0 };
+      const countedSamples = /* @__PURE__ */ new Set();
+      for (const sd of data.lst) {
+        if (countedSamples.has(sd.sample)) continue;
+        countedSamples.add(sd.sample);
+        const anno = sd[tw.$id];
+        if (anno) {
+          const { filteredValues, countedValues, renderedValues } = this.classifyValues(anno, tw, grp, s, sd);
+          anno.filteredValues = filteredValues;
+          anno.countedValues = countedValues;
+          anno.renderedValues = renderedValues;
+          if (anno.countedValues?.length) {
+            const v = tw.term.values?.[anno.value];
+            if (v?.uncountable) continue;
+            counts.samples += 1;
+            counts.hits += anno.countedValues.length;
+            if (tw.q?.mode == "continuous") {
+              const v2 = anno.value;
+              if (!("minval" in counts) || counts.minval > v2) counts.minval = v2;
+              if (!("maxval" in counts) || counts.maxval < v2) counts.maxval = v2;
+            }
+          }
+        }
+      }
+      if (grp.type != "hierCluster" || counts.samples) lst.push({ tw, counts, index });
+      if (grp.type == "hierCluster") numClusterTerms++;
+    }
+    const termSorter = grp.sortTermsBy || grp.type == "hierCluster" ? getTermSorter(this, s, grp) : this.termSorter;
+    const processedLst = lst.filter((t) => {
+      if ("minNumSamples" in t.tw) return t.tw.minNumSamples <= t.counts.samples;
+      if (!grp.settings) return true;
+      return !("minNumSamples" in grp.settings) || t.counts.samples >= grp.settings.minNumSamples;
+    }).sort(termSorter);
+    if (!processedLst.length) continue;
+    for (const [index, t] of processedLst.entries()) {
+      const { tw, counts } = t;
+      const ref = data.refs.byTermId[t.tw.$id] || {};
+      termOrder.push({
+        grp,
+        grpIndex,
+        visibleGrpIndex,
+        tw,
+        index,
+        // rendered index
+        lstIndex: t.index,
+        // as-listed index, before applying term filters
+        processedLst,
+        prevGrpTotalIndex: totalIndex,
+        totalIndex: totalIndex + index,
+        ref,
+        allCounts: counts
+        // note: term label will be assigned after sample counts are known
+        // label: t.tw.label || t.tw.term.name,
+      });
+    }
+    totalIndex += processedLst.length;
+    visibleGrpIndex += 1;
+  }
+  this.numTerms = termOrder.length;
+  this.numClusterTerms = numClusterTerms;
+  return termOrder;
+}
+function getSampleGroups(data) {
+  const s = this.settings.matrix;
+  const defaultSampleGrp = {
+    id: this.config.divideBy?.$id,
+    name: this.config.divideBy ? "Not annotated" : "",
+    lst: []
+  };
+  const sampleGroups = /* @__PURE__ */ new Map();
+  const term = this.config.divideBy?.term || {};
+  const $id = this.config.divideBy?.$id || "-";
+  const exclude = this.config.divideBy?.exclude || [];
+  const values = term.values || {};
+  const ref = data.refs.byTermId[$id] || {};
+  for (const row of data.lst) {
+    if ($id in row) {
+      const key = row[$id].key;
+      const name = key in values && values[key].label ? values[key].label : key;
+      if (!sampleGroups.has(key)) {
+        const grp = {
+          name: `${name}`,
+          // convert to a string
+          id: key,
+          lst: [],
+          tw: this.config.divideBy,
+          legendGroups: {},
+          isExcluded: exclude.includes(key)
+        };
+        if (ref.bins && s.sortSampleGrpsBy == "name") grp.order = ref.bins.findIndex((bin) => bin.name == key);
+        else delete grp.order;
+        sampleGroups.set(key, grp);
+      }
+      sampleGroups.get(key).lst.push(row);
+    } else {
+      defaultSampleGrp.lst.push(row);
+    }
+  }
+  const sampleGrpsArr = [...sampleGroups.values()];
+  const n = sampleGroups.size;
+  if (n > 100 && sampleGrpsArr.filter((sg) => sg.lst.length < 3).length > 0.8 * n) {
+    const l = s.controlLabels;
+    throw `Did not group ${l.samples} by "${term.name}": too many ${l.sample} groups (${n}), with the majority of groups having <= 2 ${l.samples} per group.`;
+  }
+  if (defaultSampleGrp.lst.length && !sampleGroups.size) {
+    sampleGroups.set(void 0, defaultSampleGrp);
+    sampleGrpsArr.push(...sampleGroups.values());
+  }
+  this.asListedSampleOrder = [];
+  for (const grp of sampleGrpsArr) {
+    this.asListedSampleOrder.push(...grp.lst.map((s2) => s2.sample));
+  }
+  const selectedDictTerms = this.termOrder.filter((t) => t.tw.sortSamples && t.tw.term.type != "geneVariant");
+  const noGrpSampleSorter = getSampleSorter(this, s, data.lst, {
+    skipSorter: (p, tw) => !p.types?.includes("geneVariant") && selectedDictTerms.find((t) => t.tw.$id === tw.$id)
+  });
+  const noGrpSampleOrder = data.lst.sort(noGrpSampleSorter);
+  const allowedSamples = noGrpSampleOrder.slice(0, s.maxSample);
+  const dataFilter = (d) => allowedSamples.includes(d);
+  const hitsPerSample = (t, c) => t + (typeof c == "object" && c.countedValues?.length ? 1 : 0);
+  const countHits = (total, d) => total + (Object.values(d).reduce(hitsPerSample, 0) ? 1 : 0);
+  const grpLstSampleSorter = getSampleSorter(this, s, data.lst);
+  for (const grp of sampleGrpsArr) {
+    grp.lst = grp.lst.filter(dataFilter);
+    grp.totalCountedValues = grp.lst.reduce(countHits, 0);
+    grp.lst.sort(grpLstSampleSorter);
+  }
+  const sampleGrpSorter = getSampleGroupSorter(this);
+  return sampleGrpsArr.sort(sampleGrpSorter);
+}
+function getSampleOrder(data) {
+  const s = this.settings.matrix;
+  this.visibleSampleGrps = /* @__PURE__ */ new Set();
+  const sampleOrder = [];
+  let total = 0, numHiddenGrps = 0;
+  for (const [grpIndex, grp] of this.sampleGroups.entries()) {
+    if (!grp.lst.length) continue;
+    if (grp.isExcluded) numHiddenGrps++;
+    let processedLst = grp.lst;
+    for (const [index, row] of processedLst.entries()) {
+      sampleOrder.push({
+        grp,
+        grpIndex: grpIndex - numHiddenGrps,
+        // : this.sampleGroups.length,
+        row,
+        index,
+        prevGrpTotalIndex: total,
+        totalIndex: total + index,
+        totalHtAdjustments: 0,
+        // may be required when transposed???
+        grpTotals: { htAdjustment: 0 },
+        // may be required when transposed???
+        processedLst
+      });
+    }
+    if (!grp.isExcluded) total += processedLst.length;
+    this.visibleSampleGrps.add(grp);
+  }
+  this.unfilteredSampleOrder = sampleOrder;
+  return sampleOrder.filter((so) => !so.grp.isExcluded);
+}
+function classifyValues(anno, tw, grp, s, sample) {
+  const values = "value" in anno ? [anno.value] : anno.values;
+  if (!values) return { filteredValues: null, countedValues: null, renderedValues: null };
+  const isSpecific = [tw.valueFilter || grp.valueFilter].filter((v) => v && true);
+  if (isSpecific.length && isSpecific[0].type !== "tvs" && isSpecific[0].type !== "tvslst")
+    throw `unknown matrix value filter type='${isSpecific.type}'`;
+  let filteredValues = !isSpecific.length ? values : values.filter((v) => sample_match_termvaluesetting(v, isSpecific[0], tw.term, sample));
+  const renderedValues = [];
+  if (tw.term.type == "geneVariant" && tw.q?.type == "values") {
+    filteredValues.sort(this.mclassSorter);
+    if (s.cellEncoding == "") renderedValues.push(...filteredValues);
+    else {
+      const sortedFilteredValues = [];
+      for (const dt of [dtcnv, dtsnvindel, dtfusionrna, dtgeneexpression]) {
+        const v = dt == dtgeneexpression ? filteredValues.find((v2) => v2.dt === dt) : filteredValues.find((v2) => v2.dt === dt && v2.class !== "WT" && v2.class !== "Blank");
+        if (v) renderedValues.push(v);
+        const oneDtV = filteredValues.filter((v2) => v2.dt === dt);
+        sortedFilteredValues.push(...oneDtV);
+      }
+      filteredValues = sortedFilteredValues;
+    }
+  } else {
+    renderedValues.push(...filteredValues);
+  }
+  return {
+    filteredValues,
+    countedValues: filteredValues.filter((v) => {
+      if (tw.term.type == "geneVariant") {
+        if (tw.q?.type == "predefined-groupset" || tw.q?.type == "custom-groupset") {
+          const groupset = tw.q.type == "predefined-groupset" ? tw.term.groupsetting.lst[tw.q.predefined_groupset_idx] : tw.q.customset;
+          if (!groupset) throw "groupset not found";
+          const group = groupset.groups[0];
+          if (v != group.name) return false;
+        } else {
+          if (v.class == "WT" || v.class == "Blank" || s.geneVariantCountSamplesSkipMclass.includes(v.class))
+            return false;
+        }
+      }
+      return true;
+    }),
+    renderedValues
+  };
+}
+function stackSiblingCellsByClass(a, b) {
+  return a.class === b.class ? 0 : a.class === "Blank" ? 1 : b.class == "Blank" ? -1 : a.class < b.class ? -1 : 1;
+}
+
+export {
+  getTermOrder,
+  getSampleGroups,
+  getSampleOrder,
+  classifyValues,
+  stackSiblingCellsByClass,
+  matrix_groups_exports
+};
+//# sourceMappingURL=chunk-OTK7UQ7K.js.map