@sjcrh/proteinpaint-client 2.216.0 → 2.217.0

package/dist/chunk-TRZVM7OG.js

@@ -1,194 +0,0 @@
-import {
-  violinRenderer
-} from "./chunk-FIFNXVTS.js";
-import {
-  getValueConversionFactor
-} from "./chunk-W5J3LTYS.js";
-import {
-  linear
-} from "./chunk-4OLM3KSB.js";
-import {
-  drag_default
-} from "./chunk-5R63Q5KH.js";
-import {
-  pointer_default,
-  select_default
-} from "./chunk-I6Y4O3RR.js";
-
-// termsetting/handlers/NumericDensity.ts
-var NumericDensity = class {
-  constructor(opts) {
-    this.dom = {};
-    // WeakMap allows deletion of value when the object/DOM key is deleted,
-    // so better for avoiding memory leak
-    this.vrByDiv = /* @__PURE__ */ new WeakMap();
-    this.ranges = [];
-    this.no_density_data = false;
-    this.brushes = [];
-    this.plot_size = {
-      width: 500,
-      height: 100,
-      xpad: 10,
-      ypad: 20,
-      radius: 8
-    };
-    this.opts = opts;
-    this.termsetting = opts.termsetting;
-    this.tw = opts.termsetting.tw;
-  }
-  /* the boundary values exchanged with the bin/knot editors, and the domain of this.xscale, are in
-  	the term's user-facing unit; density_data is in the unit the values are stored in. only the two
-  	getters below cross that line, to put the plot's endpoints in the same unit as those values.
-  
-  	they multiply instead of calling toUserUnit(), which rounds: rounding is right for a number shown
-  	in an input, but a rounded domain endpoint distorts every scaled x by up to half of the last shown
-  	digit, and collapses the domain outright when the converted range is smaller than that (a stored
-  	range of under 2 days at scaleFactor=1/365.25). it would also disagree with violinRenderer, whose
-  	axis this plot's lines overlay and which scales its own domain unrounded */
-  get scaleFactor() {
-    return getValueConversionFactor(this.tw.term);
-  }
-  get displayMin() {
-    return this.density_data.min * this.scaleFactor;
-  }
-  get displayMax() {
-    return this.density_data.max * this.scaleFactor;
-  }
-  async setData() {
-    const self = this.termsetting;
-    const d = await self.vocabApi.getViolinBox(
-      {
-        plotType: "violin",
-        tw: { type: self.tw.type, term: self.term, q: self.q },
-        svgw: this.plot_size.width,
-        radius: this.plot_size.radius,
-        filter: self.filter
-      },
-      self.opts.getBodyParams?.()
-    );
-    if (d.error) throw d;
-    this.density_data = d;
-    return this.density_data;
-  }
-  async showViolin(div, boundaryOpts) {
-    await this.setData();
-    if (!this.vrByDiv.has(div)) {
-      div.style("padding", "5px").selectAll("*").remove();
-      const loadingDiv = div.append("div").style("padding", "10px").style("text-align", "center").html("Getting distribution data ...<br/>");
-      const densityDiv = div.append("div");
-      loadingDiv.remove();
-      const vr = new violinRenderer({
-        holder: densityDiv,
-        rd: this.density_data,
-        width: this.plot_size.width,
-        height: this.plot_size.height,
-        radius: this.plot_size.radius,
-        // axis ticks are labeled in the term's user-facing unit, e.g. years and not days
-        scaleFactor: this.scaleFactor
-      });
-      this.vrByDiv.set(div, vr);
-    }
-    this.vr = this.vrByDiv.get(div);
-    this.dom.svg = this.vr.svg;
-    this.vr.render();
-    if (boundaryOpts) await this.setBinLines(boundaryOpts);
-    return this.density_data;
-  }
-  async setBinLines(boundaryOpts) {
-    if (this.density_data.max == this.density_data.min) {
-      this.handleNoDensity();
-    } else {
-      if (this.dom.binsize_g) this.dom.binsize_g.selectAll("*").remove();
-      this.dom.binsize_g = this.dom.svg.append("g").attr("transform", `translate(${this.plot_size.xpad}, ${this.plot_size.ypad})`).attr("class", "binsize_g");
-      const maxvalue = this.displayMax;
-      const minvalue = this.displayMin;
-      this.xscale = linear().domain([minvalue, maxvalue]).range([this.plot_size.xpad, this.plot_size.width + this.plot_size.xpad]);
-      this.ranges = [];
-      this.brushes = [];
-      this.renderBinLines(boundaryOpts);
-    }
-  }
-  handleNoDensity() {
-    this.no_density_data = true;
-    this.ranges = [];
-    this.brushes = [];
-  }
-  renderBinLines(boundaryOpts) {
-    const { plot_size, tw, xscale, scaleFactor } = this;
-    if (!this.density_data) throw `Missing .density_data [density.ts, renderBinLines()]`;
-    const scaledMinX = Math.round(this.xscale(this.displayMin));
-    const scaledMaxX = Math.round(this.xscale(this.displayMax));
-    const lines = [];
-    for (const [index, v] of boundaryOpts.values.entries()) {
-      lines.push({ ...v, index, scaledX: Math.round(this.xscale(v.x)) });
-    }
-    const lastVisibleLine = lines.find((l) => l.isLastVisibleLine);
-    const lastVisibleScaledX = lastVisibleLine ? lastVisibleLine.scaledX : scaledMaxX;
-    const dragger = drag_default().on("drag", onDrag).on("end", onDrag);
-    this.dom.binsize_g.selectAll("line").remove();
-    this.dom.binsize_g.selectAll("line").data(lines).enter().append("line").style("stroke", (d) => d.isDraggable ? "#cc0000" : "#555").style("stroke-width", 1).attr("x1", (d) => d.scaledX).attr("y1", 0).attr("x2", (d) => d.scaledX).attr("y2", plot_size.height).style("cursor", (d) => d.isDraggable ? "ew-resize" : "").attr("display", (d) => !d.isDraggable && d.scaledX > lastVisibleScaledX ? "none" : "").on("mouseover", function(_, d) {
-      if (d.isDraggable) select_default(this).style("stroke-width", 3);
-    }).on("mouseout", function() {
-      select_default(this).style("stroke-width", 1);
-    }).each(function(d) {
-      if (d.isDraggable) select_default(this).call(dragger);
-    });
-    const lineElems = this.dom.binsize_g.node().querySelectorAll("line");
-    function toBoundaryValue(x) {
-      const inverted = xscale.invert(x);
-      return Number(
-        scaleFactor != 1 ? inverted.toFixed(2) : tw.term.type == "integer" ? Math.round(inverted) : inverted.toFixed(3)
-      );
-    }
-    function toLineValue(line) {
-      return line.draggedX === void 0 ? line.x : toBoundaryValue(line.draggedX);
-    }
-    function getNeighbors(d) {
-      const x = d.draggedX ?? d.scaledX;
-      let lower, upper;
-      for (const line of lines) {
-        if (line.index === d.index || !line.isDraggable) continue;
-        const lineX = line.draggedX ?? line.scaledX;
-        if (lineX <= x) {
-          if (!lower || lineX > (lower.draggedX ?? lower.scaledX)) lower = line;
-        } else if (!upper || lineX < (upper.draggedX ?? upper.scaledX)) upper = line;
-      }
-      return [lower, upper];
-    }
-    function onDrag(event, _d) {
-      const d = _d;
-      const [lower, upper] = getNeighbors(d);
-      const lowerX = Math.max(scaledMinX, lower ? lower.draggedX ?? lower.scaledX : scaledMinX);
-      const upperX = Math.min(scaledMaxX, upper ? upper.draggedX ?? upper.scaledX : scaledMaxX);
-      if (upperX - lowerX < 2) return;
-      const draggedX = Math.min(Math.max(pointer_default(event, this)[0], lowerX + 1), upperX - 1);
-      const value = toBoundaryValue(draggedX);
-      if (lower && value === toLineValue(lower)) return;
-      if (upper && value === toLineValue(upper)) return;
-      d.draggedX = draggedX;
-      select_default(this).attr("x1", d.draggedX).attr("y1", 0).attr("x2", d.draggedX).attr("y2", plot_size.height);
-      const lastVisibleScaledX2 = lastVisibleLine?.draggedX ?? lastVisibleLine?.scaledX ?? scaledMaxX;
-      const xOffset = d.draggedX - d.scaledX;
-      if (xOffset) {
-        for (const elem of lineElems) {
-          const c = elem.__data__;
-          if (c.movesWithLineIndex !== d.index) continue;
-          c.draggedX = c.scaledX + xOffset;
-          select_default(elem).attr("x1", c.draggedX).attr("x2", c.draggedX).style("display", c.draggedX >= lastVisibleScaledX2 ? "none" : "");
-        }
-        boundaryOpts.callback(d, value);
-      }
-    }
-  }
-  destroy() {
-    for (const [k, v] of Object.entries(this.dom)) {
-      delete this.dom[k];
-      if (typeof v.remove == "function") v.remove();
-    }
-  }
-};
-
-export {
-  NumericDensity
-};
-//# sourceMappingURL=chunk-TRZVM7OG.js.map

package/dist/chunk-VB47XOA4.js

@@ -1,397 +0,0 @@
-import {
-  CNVkey2order
-} from "./chunk-ISYZNLED.js";
-import {
-  convertUnits
-} from "./chunk-W5J3LTYS.js";
-import {
-  TermTypes,
-  colorScaleMap,
-  dtcnv,
-  dtfusionrna,
-  dtgeneexpression,
-  dtsnvindel,
-  dtsv
-} from "./chunk-EZFO5UYD.js";
-
-// plots/matrix/matrix.cells.js
-function setNumericCellProps(cell, tw, anno, value, s, t, self, width, height, dx, dy, i) {
-  const key = anno.key;
-  const values = tw.term.values || {};
-  cell.label = "label" in anno ? anno.label : values[key]?.label ? values[key].label : key;
-  cell.fill = self.config.settings.matrix.twSpecificSettings?.[tw.$id]?.[key]?.color || anno.color || values[anno.key]?.color || self.data.refs.byTermId?.[tw.$id]?.bins?.find((b) => anno.key == b.name)?.color;
-  cell.order = t.ref.bins ? t.ref.bins.findIndex((bin) => bin.name == key) : 0;
-  if (tw.q?.mode == "continuous") {
-    const twSpecificSettings = self.config.settings.matrix.twSpecificSettings;
-    if (!twSpecificSettings[tw.$id]) twSpecificSettings[tw.$id] = {};
-    const twSettings = twSpecificSettings[tw.$id];
-    if (!twSettings.contBarH) twSettings.contBarH = s.barh;
-    if (!("gap" in twSettings)) twSettings.contBarGap = 4;
-    const specialValue = tw.term.values?.[cell.key];
-    if (specialValue?.uncomputable) {
-      cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-      cell.y = height * i;
-      cell.height = twSettings.contBarH;
-      cell.fill = "transparent";
-      const group = tw.legend?.group || tw.$id;
-      return;
-    }
-    cell.fill = self.config.settings.matrix.twSpecificSettings?.[tw.$id]?.contBarColor || "#555";
-    if (s.transpose) {
-      cell.height = t.scale(cell.key);
-      cell.x = twSettings.contBarGap;
-    } else {
-      const vc = cell.term.valueConversion;
-      let renderV = vc ? cell.key * vc.scaleFactor : cell.key;
-      if (tw.q.convert2ZScore) {
-        renderV = (renderV - t.mean) / t.std;
-        cell.fill = renderV > 0 ? "#FF6666" : "#6666FF";
-        cell.zscoreLabel = ` (Z-score: ${renderV.toFixed(2)})`;
-      }
-      cell.label = "label" in anno ? anno.label : values[key]?.label ? values[key].label : tw.term.unit ? `${cell.key.toFixed(2)} ${tw.term.unit}` : cell.key.toFixed(2);
-      cell.height = renderV >= 0 ? t.scales.pos(renderV) : t.scales.neg(renderV);
-      cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-      cell.y = renderV >= 0 ? t.counts.posMaxHt + twSettings.contBarGap - cell.height : t.counts.posMaxHt + twSettings.contBarGap;
-      cell.convertedValueLabel = !vc ? "" : convertUnits(cell.key, vc.fromUnit, vc.toUnit, vc.scaleFactor);
-    }
-  } else {
-    cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-    cell.y = height * i;
-    const group = tw.legend?.group || tw.$id;
-    return { ref: t.ref, group, value: key, entry: { key, label: cell.label, fill: cell.fill } };
-  }
-}
-function setSurvivalCellProps(cell, tw, anno, value, s, t, self, width, height, dx, dy, i) {
-  const key = tw.q?.mode == "continuous" ? anno.value : anno.key;
-  cell.key = key;
-  cell.label = tw.q?.mode == "continuous" ? tw.term.unit ? `${key} ${tw.term.unit}` : key : tw.term.values?.[key].label ? tw.term.values?.[key].label : "Exit code: " + key;
-  cell.fill = self.config.settings.matrix.twSpecificSettings?.[tw.$id]?.[key]?.color || (key == 1 ? "#a1a3a6" : "#a3c88b");
-  cell.order = 0;
-  if (tw.q?.mode == "continuous") {
-    const twSpecificSettings = self.config.settings.matrix.twSpecificSettings;
-    if (!twSpecificSettings[tw.$id]) twSpecificSettings[tw.$id] = {};
-    const twSettings = twSpecificSettings[tw.$id];
-    if (!twSettings.contBarH) twSettings.contBarH = s.barh;
-    if (!("gap" in twSettings)) twSettings.contBarGap = 4;
-    cell.exitCodeKey = tw.term.values?.[anno.key].label || "Exit code: " + anno.key;
-    cell.fill = self.config.settings.matrix.twSpecificSettings?.[tw.$id]?.[anno.key]?.color || (anno.key == 1 ? "#a1a3a6" : "#a3c88b");
-    if (s.transpose) {
-      cell.height = t.scale(cell.key);
-      cell.x = twSettings.contBarGap;
-    } else {
-      const vc = cell.term.valueConversion;
-      let renderV = vc ? cell.key * vc.scaleFactor : cell.key;
-      if (tw.q.convert2ZScore) {
-        renderV = (renderV - t.mean) / t.std;
-        cell.zscoreLabel = ` (Z-score: ${renderV.toFixed(2)})`;
-      }
-      cell.label = tw.term.unit ? `${cell.key.toFixed(2)} ${tw.term.unit}` : cell.key.toFixed(2);
-      cell.height = renderV >= 0 ? t.scales.pos(renderV) : t.scales.neg(renderV);
-      cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-      cell.y = renderV >= 0 ? t.counts.posMaxHt + twSettings.contBarGap - cell.height : t.counts.posMaxHt + twSettings.contBarGap;
-      cell.convertedValueLabel = !vc ? "" : convertUnits(cell.key, vc.fromUnit, vc.toUnit, vc.scaleFactor);
-    }
-  } else {
-    const vc = cell.term.valueConversion;
-    cell.timeToEventKey = vc ? convertUnits(anno.value, vc.fromUnit, vc.toUnit, vc.scaleFactor) : anno.value.toFixed(2);
-    cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-    cell.y = height * i;
-    const group = tw.legend?.group || tw.$id;
-    return { ref: t.ref, group, value: key, entry: { key, label: cell.label, fill: cell.fill } };
-  }
-}
-function setCategoricalCellProps(cell, tw, anno, value, s, t, self, width, height, dx, dy, i) {
-  const values = tw.term.values || {};
-  const key = anno.key;
-  cell.label = "label" in anno ? anno.label : values[key]?.label ? values[key].label : key;
-  cell.fill = self.config.settings.matrix.twSpecificSettings?.[tw.$id]?.[key]?.color || anno.color || values[anno.key]?.color;
-  cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-  cell.y = height * i;
-  const group = tw.legend?.group || tw.$id;
-  return { ref: t.ref, group, value: anno.key, entry: { key, label: cell.label, fill: cell.fill } };
-}
-function setMultivalueCellProps(cell, tw, anno, value, s, t, self, width, height, dx, dy, i) {
-  const key = value?.key ?? anno.key;
-  const values = tw.term.values || {};
-  cell.key = key;
-  cell.label = values[key]?.label || key;
-  cell.fill = self.config.settings.matrix.twSpecificSettings?.[tw.$id]?.[key]?.color || values[key]?.color;
-  cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-  cell.y = height * i;
-  const group = tw.legend?.group || tw.$id;
-  return { ref: t.ref, group, value: key, entry: { key, label: cell.label, fill: cell.fill } };
-}
-function setGeneVariantCellProps(cell, tw, anno, value, s, t, self, width, height, dx, dy, i) {
-  if (tw.q?.type == "predefined-groupset" || tw.q?.type == "custom-groupset") {
-    cell.label = value;
-    const groupset = tw.q.type == "custom-groupset" ? tw.q.customset : tw.term.groupsetting.lst[tw.q.predefined_groupset_idx];
-    if (!groupset) throw "groupset not found";
-    const group = groupset.groups.find((group2) => group2.name == value);
-    if (!group) throw "group not found";
-    cell.fill = group.color;
-    cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-    cell.y = height * i;
-    return {
-      ref: t.ref,
-      group: tw.legend?.group || tw.$id,
-      value,
-      entry: { key: anno.key, label: cell.label, fill: cell.fill }
-    };
-  } else {
-    const values = anno.renderedValues || anno.filteredValues || anno.values || [anno.value];
-    const colorFromq = tw.q?.values && tw.q?.values[value.class]?.color;
-    cell.label = value.label || self.mclass[value.class].label;
-    cell.fill = self.getValueColor?.(value.value) || colorFromq || value.color || self.mclass[value.class]?.color;
-    cell.class = value.class;
-    cell.value = value;
-    const colw = self.dimensions.colw;
-    if (s.cellEncoding == "") {
-      cell.height = s.rowh / values.length;
-      cell.width = colw;
-      cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-      cell.y = height * i;
-    } else if (value.dt == dtsnvindel || value.dt == dtfusionrna || value.dt == dtsv) {
-      if (s.cellEncoding == "single") {
-        cell.height = s.rowh;
-        cell.width = colw;
-        cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-        cell.y = 0;
-      } else {
-        const divisor = 3;
-        cell.height = s.rowh / divisor;
-        cell.width = colw;
-        cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-        cell.y = height * 0.33333;
-        if (s.oncoPrintSNVindelCellBorder) {
-          cell.border = true;
-        }
-      }
-    } else if (value.dt == dtcnv || value.dt == dtgeneexpression) {
-      cell.height = s.rowh;
-      cell.width = colw;
-      cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-      cell.y = 0;
-    } else {
-      throw `cannot set cell props for dt='${value.dt}'`;
-    }
-    if (value.class == "Blank" || value.class == "WT") {
-      cell.label = `${self.dt2label[value.dt]} ${cell.label}`;
-    }
-    const byDt = self.state.termdbConfig.assayAvailability?.byDt;
-    const order = CNVkey2order(value.class);
-    if (value.dt == dtcnv) {
-      if (t.scales && value.class.startsWith("CNV_")) {
-        const {
-          /*maxLoss,*/
-          maxGain,
-          minLoss,
-          /*minGain,*/
-          absMax
-        } = t.scales;
-        value.scaledValue = value.value < 0 ? value.value / -absMax : value.value / absMax;
-        cell.fill = value.value < 0 ? t.scales.loss(value.scaledValue) : t.scales.gain(value.scaledValue);
-        return {
-          ref: t.ref,
-          group: "CNV",
-          value: value.class,
-          order: -1,
-          entry: {
-            key: value.class,
-            label: cell.label,
-            scale: value.class == "CNV_loss" ? t.scales.loss : t.scales.gain,
-            domain: t.domain ? t.domain : value.class == "CNV_loss" ? [0, -minLoss] : [0, maxGain],
-            colors: t.range,
-            scales: value.dt == 4 && t.scales,
-            minLabel: 0,
-            maxLabel: value.class == "CNV_loss" ? minLoss : maxGain,
-            order,
-            dt: value.dt,
-            origin: value.origin
-          }
-        };
-      } else {
-        const group = "CNV";
-        return {
-          ref: t.ref,
-          group,
-          value: value.class,
-          order: -1,
-          entry: { key: value.class, label: cell.label, fill: cell.fill, order, dt: value.dt, origin: value.origin }
-        };
-      }
-    } else if (value.dt == dtfusionrna && byDt?.[dtfusionrna]) {
-      const group = "Fusion RNA";
-      return {
-        ref: t.ref,
-        group,
-        value: value.class,
-        order: -1,
-        entry: { key: value.class, label: cell.label, fill: cell.fill, order, dt: value.dt, origin: value.origin }
-      };
-    } else if (value.dt == dtsv && byDt?.[dtsv]) {
-      const group = "Structural Variation";
-      return {
-        ref: t.ref,
-        group,
-        value: value.class,
-        order: -1,
-        entry: { key: value.class, label: cell.label, fill: cell.fill, order, dt: value.dt, origin: value.origin }
-      };
-    } else if (value.dt == dtgeneexpression) {
-      return {
-        ref: t.ref,
-        group: self.config.settings.hierCluster?.termGroupName || "Gene Expression",
-        value: value.class,
-        order: -1,
-        entry: {
-          key: value.class,
-          label: "",
-          scale: self.geneExpValues.scale,
-          domain: [0, 0.5, 1],
-          minLabel: self.geneExpValues.min,
-          maxLabel: self.geneExpValues.max,
-          order,
-          dt: value.dt,
-          origin: value.origin
-        }
-      };
-    } else {
-      const controlLabels = self.settings.matrix.controlLabels;
-      const group = tw.legend?.group || (value.origin ? `${value.origin[0].toUpperCase() + value.origin.slice(1)} ${controlLabels.Mutations}` : controlLabels.Mutations);
-      return {
-        ref: t.ref,
-        group,
-        value: value.class,
-        order: -2,
-        entry: { key: value.class, label: cell.label, fill: cell.fill, order, dt: value.dt, origin: value.origin }
-      };
-    }
-  }
-}
-function setHierClusterCellProps(cell, tw, anno, value, s, t, self, width, height, dx, dy, i) {
-  const values = anno.renderedValues || anno.filteredValues || anno.values || [anno.value];
-  cell.label = value.value;
-  cell.fill = self.getValueColor?.(value.value);
-  cell.value = value;
-  const colw = self.dimensions.colw;
-  cell.height = s.clusterRowh;
-  cell.width = colw;
-  cell.x = cell.totalIndex * dx + cell.grpIndex * s.colgspace;
-  cell.y = height * i;
-  const hierCluster = self.config.settings.hierCluster;
-  let groupName;
-  if (hierCluster?.termGroupName) {
-    groupName = hierCluster.termGroupName;
-  } else if (tw.term.type == "geneExpression") {
-    groupName = "Gene Expression";
-    const unit = self.app.vocabApi.termdbConfig.queries?.geneExpression?.unit;
-    if (hierCluster?.zScoreTransformation) groupName += " (Z-score)";
-    else if (unit) groupName += ` (${unit})`;
-  } else if (tw.term.type == "metaboliteIntensity") {
-    groupName = "Intensity";
-  } else if (tw.term.type == "proteomeAbundance") {
-    groupName = "Protein Abundance";
-  } else {
-    groupName = "Heatmap color scale";
-  }
-  return {
-    ref: t.ref,
-    group: groupName,
-    order: -1,
-    entry: {
-      label: "",
-      scale: self.hierClusterValues.scale,
-      domain: colorScaleMap[self.settings.hierCluster.colorScale].domain,
-      minLabel: self.hierClusterValues.min,
-      maxLabel: self.hierClusterValues.max,
-      order: 0,
-      dt: value.dt
-    }
-  };
-}
-function getEmptyCell(cellTemplate, s, d) {
-  const cell = Object.assign({}, cellTemplate);
-  cell.fill = s.cellbg;
-  cell.height = s.rowh;
-  cell.width = d.colw;
-  cell.x = cell.totalIndex * d.dx + cell.grpIndex * s.colgspace;
-  cell.y = 0;
-  return cell;
-}
-var setCellProps = {
-  // some of these have been replaced by addOns{setCellProps} in matrix.xtw.ts,
-  // but leaving here for now since non-classed tw's may still use these
-  categorical: setCategoricalCellProps,
-  condition: setCategoricalCellProps,
-  multivalue: setMultivalueCellProps,
-  integer: setNumericCellProps,
-  float: setNumericCellProps,
-  survival: setSurvivalCellProps,
-  geneVariant: setGeneVariantCellProps,
-  hierCluster: setHierClusterCellProps,
-  [TermTypes.GENE_EXPRESSION]: setNumericCellProps,
-  [TermTypes.METABOLITE_INTENSITY]: setNumericCellProps,
-  [TermTypes.PROTEOME_ABUNDANCE]: setNumericCellProps
-  //termCollection: setTermCollectionCellProps
-};
-var maySetEmptyCell = {
-  geneVariant: setVariantEmptyCell,
-  integer: setNumericEmptyCell,
-  float: setNumericEmptyCell,
-  categorical: setDefaultEmptyCell,
-  condition: setDefaultEmptyCell,
-  multivalue: setDefaultEmptyCell,
-  survival: setNumericEmptyCell,
-  [TermTypes.GENE_EXPRESSION]: setNumericEmptyCell,
-  [TermTypes.METABOLITE_INTENSITY]: setNumericEmptyCell,
-  [TermTypes.PROTEOME_ABUNDANCE]: setNumericEmptyCell
-};
-function setVariantEmptyCell(siblingCells, cellTemplate, s, d) {
-  if (siblingCells.find((c) => c.value.dt == dtcnv)) return;
-  const cell = Object.assign({}, cellTemplate);
-  cell.fill = s.cellbg;
-  cell.height = s.rowh;
-  cell.width = d.colw;
-  cell.x = cell.totalIndex * d.dx + cell.grpIndex * s.colgspace;
-  cell.y = 0;
-  return cell;
-}
-function setNumericEmptyCell(siblingCells, cellTemplate, s, d, self) {
-  const q = cellTemplate.tw.q;
-  if (q.mode != "continuous") {
-    if (siblingCells.length) return;
-    setDefaultEmptyCell(siblingCells, cellTemplate, s, d);
-  } else {
-    if (q?.mode != "continuous") return;
-    const twSpecificSettings = self.config.settings.matrix.twSpecificSettings;
-    const twSettings = twSpecificSettings[cellTemplate.$id];
-    const h = twSettings ? twSettings.contBarH + 2 * twSettings.contBarGap : s.rowh;
-    if (cellTemplate.height >= h) return;
-    const cell = Object.assign({}, cellTemplate);
-    cell.fill = s.cellbg;
-    cell.height = h || s.rowh;
-    cell.width = d.colw;
-    cell.x = cell.totalIndex * d.dx + cell.grpIndex * s.colgspace;
-    cell.y = 0;
-    return cell;
-  }
-}
-function setDefaultEmptyCell(siblingCells, cellTemplate, s, d) {
-  if (siblingCells.length) return;
-  const cell = Object.assign({}, cellTemplate);
-  cell.fill = s.cellbg;
-  cell.height = s.rowh;
-  cell.width = d.colw;
-  cell.x = cell.totalIndex * d.dx + cell.grpIndex * s.colgspace;
-  cell.y = 0;
-  return cell;
-}
-
-export {
-  setGeneVariantCellProps,
-  setHierClusterCellProps,
-  getEmptyCell,
-  setCellProps,
-  maySetEmptyCell
-};
-//# sourceMappingURL=chunk-VB47XOA4.js.map

package/dist/chunk-VCXAL36U.js

@@ -1,54 +0,0 @@
-import {
-  getColors
-} from "./chunk-EZFO5UYD.js";
-
-// termdb/handlers/junction.customTerm.ts
-var junctionCustomTermSource = "junction";
-function makeJunctionCustomTerm(junctions, eventlabel) {
-  if (!junctions.length) throw new Error("junctions[] is empty");
-  if (!eventlabel) {
-    const term = junctions[0];
-    return {
-      id: `junction:${term.id}`,
-      name: term.name,
-      source: junctionCustomTermSource,
-      tw: {
-        term,
-        q: { mode: "continuous" }
-      }
-    };
-  }
-  const termlst = [...new Map(junctions.map((term) => [term.id, term])).values()];
-  const colorScale = getColors(termlst.length);
-  const termIds = termlst.map((term) => term.id);
-  return {
-    id: `junction-event:${eventlabel}`,
-    name: eventlabel,
-    source: junctionCustomTermSource,
-    eventlabel,
-    tw: {
-      term: {
-        type: "termCollection",
-        isCustom: true,
-        memberType: "numeric",
-        name: eventlabel,
-        termIds,
-        termlst,
-        propsByTermId: Object.fromEntries(termlst.map((term) => [term.id, { color: colorScale(term.id) }])),
-        isleaf: true
-      },
-      q: {
-        mode: "continuous",
-        type: "values",
-        lst: termIds,
-        numerators: termIds
-      }
-    }
-  };
-}
-
-export {
-  junctionCustomTermSource,
-  makeJunctionCustomTerm
-};
-//# sourceMappingURL=chunk-VCXAL36U.js.map