@sjcrh/proteinpaint-client 2.182.0 → 2.183.0

package/dist/profileRadar-KGOBHCSF.js

@@ -1,261 +0,0 @@
-import {
-  ABBREV_COHORT,
-  getDefaultProfilePlotSettings,
-  getProfilePlotConfig,
-  makeChartBtnMenu,
-  profilePlot
-} from "./chunk-O4PXELXF.js";
-import {
-  fillTwLst,
-  renderTable
-} from "./chunk-7FEHI46K.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-XD6BFNMR.js";
-import "./chunk-2SRMRC6L.js";
-import "./chunk-TCPU43TU.js";
-import "./chunk-XDI4UFCZ.js";
-import "./chunk-FN5XPUPH.js";
-import "./chunk-LSEFWW72.js";
-import "./chunk-5EF5U7MX.js";
-import "./chunk-IQIXGTQV.js";
-import "./chunk-UCLS2SVB.js";
-import {
-  copyMerge,
-  getCompInit
-} from "./chunk-MVTCBVSX.js";
-import "./chunk-F6V4AYWP.js";
-import "./chunk-5OHXYXLD.js";
-import "./chunk-DQC5FFGV.js";
-import "./chunk-DVDDXOWT.js";
-import "./chunk-6MSCYO7K.js";
-import "./chunk-22NJUYET.js";
-import "./chunk-MDL2HG3N.js";
-import "./chunk-IGEQI6MR.js";
-import "./chunk-BEWDIM6H.js";
-import {
-  arc_default,
-  line_default
-} from "./chunk-IH7ILDJS.js";
-import "./chunk-LOZEKOES.js";
-import "./chunk-TOU7EVFQ.js";
-import "./chunk-OAWQ6LOO.js";
-import "./chunk-SEEYV6P2.js";
-import "./chunk-NDWTN4U5.js";
-import "./chunk-OMR2DT66.js";
-import "./chunk-HFNDKYVF.js";
-
-// plots/profile/profileRadar.ts
-var profileRadar = class extends profilePlot {
-  static {
-    this.type = "profileRadar";
-  }
-  constructor(opts) {
-    super(opts, "profileRadar");
-    this.radius = 200;
-  }
-  async init(appState) {
-    await super.init(appState);
-    const config = appState.plots.find((p) => p.id === this.id);
-    this.lineGenerator = line_default();
-    for (const row of config.terms) {
-      this.scoreTerms.push(row.term1);
-      this.scoreTerms.push(row.term2);
-    }
-    this.arcGenerator = arc_default().innerRadius(0);
-    this.angle = Math.PI * 2 / config.terms.length;
-  }
-  async main() {
-    await super.main();
-    await this.setControls();
-    this.plot();
-  }
-  plot() {
-    const config = this.config;
-    const width = this.isComparison ? 1e3 : 1050;
-    const height = 650;
-    this.dom.svg = this.dom.plotDiv.append("div").style("display", "inline-block").append("svg").attr("width", width).attr("height", height);
-    const rightDiv = this.dom.plotDiv.append("div").style("display", "inline-block").style("vertical-align", "top").style("margin-top", "140px").style("margin-right", "20px");
-    this.dom.tableDiv = rightDiv.append("div").attr("data-testid", "sjpp-profileRadar-data-table");
-    const rows = [];
-    const columns = [
-      { label: "Color" },
-      { label: "Module" },
-      { label: config.term1.abbrev },
-      { label: config.term2.abbrev },
-      {
-        label: "Difference*",
-        tooltip: `* Difference between ${config.term1.abbrev} and ${config.term2.abbrev}. If bigger than 20 and positive shown in blue, if negative shown in red.`
-      }
-    ];
-    const radius = this.radius;
-    const x = 300;
-    const y = 310;
-    this.dom.svg.append("text").attr("transform", `translate(60, ${40})`).attr("font-weight", "bold").attr("font-size", "0.9rem").text(config.title);
-    const radarG = this.dom.svg.append("g").attr("transform", `translate(${x},${y})`);
-    this.radarG = radarG;
-    this.legendG = this.dom.svg.append("g").attr("data-testid", "sjpp-profileRadar-legend").attr("transform", `translate(${x + 340},${y - 120})`);
-    this.filterG = this.dom.svg.append("g").attr("transform", `translate(${x + 340},${y - 20})`);
-    this.noteG = this.dom.svg.append("g").attr("transform", `translate(20, ${y + 150})`);
-    for (let i2 = 0; i2 <= 10; i2++) this.addPoligon(i2 * 10);
-    let i = 0;
-    const data = [], data2 = [];
-    const angle = this.angle;
-    for (const { module, term1, term2 } of this.config.terms) {
-      const iangle = i * angle - Math.PI / 2;
-      const item = this.config.terms[i];
-      const percentage1 = this.getPercentage(term1);
-      const percentage2 = this.getPercentage(term2);
-      this.radarG.append("path").datum({ module: item.module, percentage1, percentage2 }).attr("fill", "transparent").attr(
-        "d",
-        this.arcGenerator({
-          outerRadius: this.radius,
-          startAngle: i * angle - angle / 2,
-          endAngle: (i + 1) * angle - angle / 2
-        })
-      ).on("click", (event) => this.onMouseOver(event));
-      this.addData("term2", percentage2, iangle, data2);
-      this.addData("term1", percentage1, iangle, data);
-      const color = term1.score.term.color;
-      const diff = Math.abs(percentage1 - percentage2);
-      const diffRow = { value: diff };
-      if (diff >= 20) diffRow.color = percentage2 > percentage1 ? "red" : "blue";
-      rows.push([{ color, disabled: true }, { value: module }, { value: percentage1 }, { value: percentage2 }, diffRow]);
-      i++;
-      const leftSide = iangle > Math.PI / 2 && iangle <= 3 / 2 * Math.PI;
-      const dx = radius * 1.1 * Math.cos(iangle);
-      let dy = radius * 1.1 * Math.sin(iangle) - 10;
-      const textElem = radarG.append("text").attr("x", `${dx}px`).attr("y", `${dy}px`).attr("font-size", "0.9em");
-      const texts = module.split(" ");
-      let span;
-      texts.forEach((text) => {
-        if (text != "and") {
-          dy += 15;
-          span = textElem.append("tspan").attr("x", `${dx}px`).attr("y", `${dy}px`).text(text + "");
-        } else span.append("tspan").text(" and");
-      });
-      if (leftSide) textElem.attr("text-anchor", "end");
-    }
-    if (!this.isComparison) {
-      renderTable({
-        rows,
-        columns,
-        div: this.dom.tableDiv,
-        showLines: true,
-        resize: true,
-        maxHeight: "60vh"
-      });
-    }
-    data.push(data[0]);
-    data2.push(data2[0]);
-    const color1 = "blue", color2 = "gray";
-    radarG.append("g").append("path").style("stroke", color2).attr("fill", "none").style("stroke-dasharray", "5, 5").attr("stroke-width", "2px").attr("d", this.lineGenerator(data2));
-    radarG.append("g").append("path").style("stroke", color1).attr("fill", "none").attr("stroke-width", "2px").attr("d", this.lineGenerator(data));
-    for (let i2 = 0; i2 <= 10; i2++) {
-      const percent = i2 * 10;
-      radarG.append("text").attr("transform", `translate(0, ${-percent / 100 * radius - 2})`).attr("text-anchor", "end").style("font-size", "0.8rem").text(`${percent}%`).attr("pointer-events", "none");
-    }
-    if (!this.isComparison) {
-      this.legendG.append("text").attr("text-anchor", "left").style("font-weight", "bold").text(`Legend`);
-      let abbrev = config.term1.abbrev ? `(${config.term1.abbrev})` : "";
-      const item1 = `${config.term1.name} ${abbrev}`;
-      this.addRadarLegendItem(item1, color1, 0, "none");
-      abbrev = config.term2.abbrev ? `(${config.term2.abbrev})` : "";
-      const item2 = `${config.term2.name} ${abbrev}`;
-      this.addRadarLegendItem(item2, color2, 1, "5, 5");
-      if (this.state.activeCohort == ABBREV_COHORT) this.addEndUserImpressionNote(this.noteG);
-      else this.addPOCNote(this.noteG);
-    }
-    this.addFilterLegend();
-  }
-  addData(field, percentage, iangle, data) {
-    const iradius = percentage / 100 * this.radius;
-    const x = iradius * Math.cos(iangle);
-    const y = iradius * Math.sin(iangle);
-    const color = field == "term1" ? "blue" : "#aaa";
-    this.radarG.append("g").attr("transform", `translate(${x}, ${y})`).append("circle").attr("r", 4).attr("fill", color);
-    data.push([x, y]);
-  }
-  addPoligon(percent) {
-    const data = [];
-    for (let i = 0; i < this.config.terms.length; i++) {
-      const iangle = i * this.angle - Math.PI / 2;
-      const iradius = percent / 100 * this.radius;
-      const x = iradius * Math.cos(iangle);
-      const y = iradius * Math.sin(iangle);
-      data.push([x, y]);
-    }
-    data.push(data[0]);
-    this.radarG.append("g").append("path").style("stroke", "#aaa").attr("fill", "none").attr("d", this.lineGenerator(data)).style("opacity", "0.5");
-  }
-  addRadarLegendItem(text, color, index, strokeDash) {
-    const step = 25;
-    const y = step + index * step;
-    const x = 35;
-    this.legendG.append("path").attr("stroke", color).style("stroke-dasharray", strokeDash).attr("stroke-width", "2px").attr(
-      "d",
-      this.lineGenerator([
-        [0, y - 5],
-        [x, y - 5]
-      ])
-    );
-    this.legendG.append("g").attr("transform", `translate(${0}, ${y - 5})`).append("circle").attr("r", 4).attr("fill", color);
-    const textElem = this.legendG.append("text").attr("font-size", "0.9em").attr("transform", `translate(${x + 5}, ${y})`).attr("text-anchor", "left");
-    textElem.append("tspan").text(text);
-  }
-  onMouseOver(event) {
-    const d = event.target.__data__;
-    if (d?.module) {
-      const label1 = this.config.term1.name;
-      const label2 = this.config.term2.name;
-      const menu = this.tip.clear();
-      menu.d.append("div").style("font-weight", "bold").text(d.module);
-      const table = menu.d.append("table");
-      let tr = table.append("tr");
-      tr.append("td").text(label1);
-      tr.append("td").text(d.percentage1);
-      tr = table.append("tr");
-      tr.append("td").text(label2);
-      tr.append("td").text(d.percentage2);
-      menu.show(event.clientX, event.clientY, true, true);
-    } else this.onMouseOut(event);
-  }
-};
-async function getPlotConfig(opts, app, _activeCohort) {
-  try {
-    const activeCohort = _activeCohort === void 0 ? app.getState().activeCohort : _activeCohort;
-    const defaults = await getProfilePlotConfig(activeCohort, app, opts);
-    defaults.settings = { profileRadar: getDefaultProfilePlotSettings() };
-    if (!defaults) throw "default config not found in termdbConfig.plotConfigByCohort.profileRadar";
-    const config = copyMerge(structuredClone(defaults), opts);
-    config.settings.controls = { isOpen: false };
-    const terms = config.terms;
-    const twlst = [];
-    for (const row of terms) {
-      row.term1.score.q = { mode: "continuous" };
-      twlst.push(row.term1.score);
-      if (row.term1.maxScore.id) {
-        row.term1.maxScore.q = { mode: "continuous" };
-        twlst.push(row.term1.maxScore);
-      }
-      row.term2.score.q = { mode: "continuous" };
-      twlst.push(row.term2.score);
-      if (row.term2.maxScore.id) {
-        row.term2.maxScore.q = { mode: "continuous" };
-        twlst.push(row.term2.maxScore);
-      }
-    }
-    await fillTwLst(twlst, app.vocabApi);
-    return config;
-  } catch (e) {
-    throw `${e} [profileRadar getPlotConfig()]`;
-  }
-}
-var profileRadarInit = getCompInit(profileRadar);
-var componentInit = profileRadarInit;
-export {
-  componentInit,
-  getPlotConfig,
-  makeChartBtnMenu,
-  profileRadarInit
-};
-//# sourceMappingURL=profileRadar-KGOBHCSF.js.map

package/dist/profileRadarFacility-MCJKSHUM.js

@@ -1,261 +0,0 @@
-import {
-  getDefaultProfilePlotSettings,
-  getProfilePlotConfig,
-  makeChartBtnMenu,
-  profilePlot
-} from "./chunk-O4PXELXF.js";
-import {
-  fillTwLst,
-  renderTable
-} from "./chunk-7FEHI46K.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-XD6BFNMR.js";
-import "./chunk-2SRMRC6L.js";
-import "./chunk-TCPU43TU.js";
-import "./chunk-XDI4UFCZ.js";
-import "./chunk-FN5XPUPH.js";
-import "./chunk-LSEFWW72.js";
-import "./chunk-5EF5U7MX.js";
-import "./chunk-IQIXGTQV.js";
-import "./chunk-UCLS2SVB.js";
-import {
-  copyMerge,
-  getCompInit
-} from "./chunk-MVTCBVSX.js";
-import "./chunk-F6V4AYWP.js";
-import "./chunk-5OHXYXLD.js";
-import "./chunk-DQC5FFGV.js";
-import "./chunk-DVDDXOWT.js";
-import "./chunk-6MSCYO7K.js";
-import "./chunk-22NJUYET.js";
-import "./chunk-MDL2HG3N.js";
-import "./chunk-IGEQI6MR.js";
-import "./chunk-BEWDIM6H.js";
-import {
-  arc_default,
-  line_default
-} from "./chunk-IH7ILDJS.js";
-import "./chunk-LOZEKOES.js";
-import "./chunk-TOU7EVFQ.js";
-import "./chunk-OAWQ6LOO.js";
-import "./chunk-SEEYV6P2.js";
-import "./chunk-NDWTN4U5.js";
-import "./chunk-OMR2DT66.js";
-import "./chunk-HFNDKYVF.js";
-
-// plots/profile/profileRadarFacility.ts
-var profileRadarFacility = class extends profilePlot {
-  static {
-    this.type = "profileRadarFacility";
-  }
-  constructor(opts) {
-    super(opts, "profileRadarFacility");
-    this.radius = 200;
-    this.isRadarFacility = true;
-    this.lineGenerator = line_default();
-    this.arcGenerator = arc_default().innerRadius(0);
-  }
-  async init(appState) {
-    await super.init(appState);
-    const config = structuredClone(appState.plots.find((p) => p.id === this.id));
-    for (const row of config.terms) {
-      this.scoreTerms.push(row);
-    }
-    this.angle = Math.PI * 2 / config.terms.length;
-  }
-  async main() {
-    await super.main();
-    await this.setControls();
-    this.plot();
-  }
-  plot() {
-    const width = this.isComparison ? 1e3 : 1100;
-    const height = 630;
-    this.dom.svg = this.dom.plotDiv.append("div").style("display", "inline-block").append("svg").attr("width", width).attr("height", height);
-    const rightDiv = this.dom.plotDiv.append("div").style("display", "inline-block").style("vertical-align", "top").style("margin-top", "80px").style("margin-right", "20px");
-    this.dom.tableDiv = rightDiv.append("div");
-    this.dom.svg.append("text").attr("transform", `translate(90, ${30})`).attr("font-weight", "bold").text(this.config.title);
-    const radius = this.radius;
-    const x = 300;
-    const y = 330;
-    const radarG = this.dom.svg.append("g").attr("transform", `translate(${x},${y})`);
-    this.radarG = radarG;
-    this.legendG = this.dom.svg.append("g").attr("font-size", "0.9em").attr("transform", `translate(${x + 320},${y - 150})`);
-    this.filterG = this.dom.svg.append("g").attr("transform", `translate(${x + 320},${y - 50})`);
-    const rows = [];
-    const columns = [
-      { label: "Color" },
-      { label: "Module" },
-      { label: `Facility` },
-      { label: "Global" },
-      {
-        label: "Difference*",
-        tooltip: `* Difference between site and aggregated scores. If bigger than 20 and positive shown in blue, if negative shown in red.`
-      }
-    ];
-    for (let i2 = 0; i2 <= 10; i2++) this.addPoligon(i2 * 10);
-    let i = 0;
-    const data = [], data2 = [];
-    const angle = this.angle;
-    for (const item of this.config.terms) {
-      const iangle = i * angle - Math.PI / 2;
-      const percentage1 = this.getSamplePercentage(item);
-      const percentage2 = this.getPercentage(item);
-      this.radarG.append("path").datum({ module: item.module, percentage1, percentage2 }).attr("fill", "transparent").attr(
-        "d",
-        this.arcGenerator({
-          outerRadius: this.radius,
-          startAngle: i * angle - angle / 2,
-          endAngle: (i + 1) * angle - angle / 2
-        })
-      ).on("click", (event) => this.onMouseOver(event));
-      this.addData(iangle, i, data2, percentage2, false);
-      this.addData(iangle, i, data, percentage1, true);
-      const color = item.score.term.color;
-      const diff = Math.abs(percentage1 - percentage2);
-      const diffRow = { value: diff };
-      if (diff >= 20) diffRow.color = percentage2 > percentage1 ? "red" : "blue";
-      const row = [
-        { color, disabled: true },
-        { value: item.module },
-        { value: percentage1 },
-        { value: percentage2 },
-        diffRow
-      ];
-      rows.push(row);
-      i++;
-      const leftSide = iangle > Math.PI / 2 && iangle <= 3 / 2 * Math.PI;
-      const dx = radius * 1.1 * Math.cos(iangle);
-      let dy = radius * 1.1 * Math.sin(iangle) - 10;
-      const textElem = radarG.append("text").attr("x", `${dx}px`).attr("y", `${dy}px`).attr("font-size", "0.9em");
-      const texts = item.module.split(" ");
-      let span;
-      texts.forEach((text) => {
-        if (text != "and") {
-          dy += 15;
-          span = textElem.append("tspan").attr("x", `${dx}px`).attr("y", `${dy}px`).text(text + "");
-        } else span.append("tspan").text(" and");
-      });
-      if (leftSide) textElem.attr("text-anchor", "end");
-    }
-    if (!this.isComparison) {
-      renderTable({
-        rows,
-        columns,
-        div: this.dom.tableDiv,
-        showLines: true,
-        resize: true
-      });
-    }
-    data.push(data[0]);
-    data2.push(data2[0]);
-    const color1 = "blue", color2 = "gray";
-    radarG.append("g").append("path").style("stroke", color1).attr("fill", "none").attr("stroke-width", "2px").attr("d", this.lineGenerator(data));
-    if (this.state.logged) {
-      radarG.append("g").append("path").style("stroke", color2).attr("fill", "none").style("stroke-dasharray", "5, 5").attr("d", this.lineGenerator(data2));
-    }
-    for (let i2 = 0; i2 <= 10; i2++) {
-      const percent = i2 * 10;
-      radarG.append("text").attr("transform", `translate(0, ${-percent / 100 * radius - 2})`).attr("text-anchor", "end").style("font-size", "0.8rem").text(`${percent}%`).attr("pointer-events", "none");
-    }
-    this.addFilterLegend();
-    this.legendG.append("text").attr("text-anchor", "left").style("font-weight", "bold").text("Legend");
-    const site = this.sampleData.site;
-    const hospital = site.label;
-    const id = site.value;
-    this.addFacilityLegendItem(`${hospital} / ${id}`, color1, 0, "none");
-    this.addFacilityLegendItem(this.config.score, color2, 1, "5, 5");
-  }
-  addData(iangle, i, data, percentage, isFacility) {
-    const item = this.config.terms[i];
-    const iradius = percentage / 100 * this.radius;
-    const x = iradius * Math.cos(iangle);
-    const y = iradius * Math.sin(iangle);
-    const color = isFacility ? "blue" : "#aaa";
-    const circle = this.radarG.append("g").attr("transform", `translate(${x}, ${y})`).append("circle").attr("r", 4).attr("fill", color).on("click", (event) => this.onMouseOver(event));
-    data.push([x, y]);
-    circle.datum({ module: item.module, percentage });
-  }
-  addPoligon(percent) {
-    const data = [];
-    for (let i = 0; i < this.config.terms.length; i++) {
-      const iangle = i * this.angle - Math.PI / 2;
-      const iradius = percent / 100 * this.radius;
-      const x = iradius * Math.cos(iangle);
-      const y = iradius * Math.sin(iangle);
-      data.push([x, y]);
-    }
-    data.push(data[0]);
-    this.radarG.append("g").append("path").style("stroke", "#aaa").attr("fill", "none").attr("d", this.lineGenerator(data)).style("opacity", "0.5");
-  }
-  addFacilityLegendItem(text, color, index, strokeDash) {
-    const step = 25;
-    const y = step + index * step;
-    const x = 35;
-    this.legendG.append("path").attr("stroke", color).style("stroke-dasharray", strokeDash).attr("stroke-width", "2px").attr(
-      "d",
-      this.lineGenerator([
-        [0, y - 5],
-        [x, y - 5]
-      ])
-    );
-    this.legendG.append("g").attr("transform", `translate(${0}, ${y - 5})`).append("circle").attr("r", 4).attr("fill", color);
-    const textElem = this.legendG.append("text").attr("font-size", "0.9em").attr("transform", `translate(${x + 5}, ${y})`).attr("text-anchor", "left");
-    textElem.append("tspan").text(text);
-  }
-  onMouseOver(event) {
-    const d = event.target.__data__;
-    if (d?.module) {
-      const label1 = "Facility";
-      const label2 = this.config.score;
-      const menu = this.tip.clear();
-      menu.d.append("div").style("font-weight", "bold").text(d.module);
-      const table = menu.d.append("table");
-      let tr = table.append("tr");
-      tr.append("td").text(label1);
-      tr.append("td").text(d.percentage1);
-      tr = table.append("tr");
-      tr.append("td").text(label2);
-      tr.append("td").text(d.percentage2);
-      menu.show(event.clientX, event.clientY, true, true);
-    } else this.onMouseOut(event);
-  }
-  getSamplePercentage(d) {
-    if (!d) return 0;
-    const score = this.sampleData.term2Score[d.score.term.id];
-    return score;
-  }
-};
-async function getPlotConfig(opts, app, _activeCohort) {
-  try {
-    const activeCohort = _activeCohort === void 0 ? app.getState().activeCohort : _activeCohort;
-    const defaults = await getProfilePlotConfig(activeCohort, app, opts);
-    if (!defaults) throw "default config not found in termdbConfig.plotConfigByCohort.profileRadarFacility";
-    const config = copyMerge(structuredClone(defaults), opts);
-    const settings = getDefaultProfilePlotSettings();
-    config.settings = {
-      profileRadarFacility: settings,
-      controls: { isOpen: false }
-    };
-    const terms = config.terms;
-    const twlst = [];
-    for (const row of terms) {
-      row.score.q = row.maxScore.q = { mode: "continuous" };
-      twlst.push(row.score);
-      twlst.push(row.maxScore);
-    }
-    await fillTwLst(twlst, app.vocabApi);
-    return config;
-  } catch (e) {
-    throw `${e} [profileRadarFacility getPlotConfig()]`;
-  }
-}
-var profileRadarFacilityInit = getCompInit(profileRadarFacility);
-var componentInit = profileRadarFacilityInit;
-export {
-  componentInit,
-  getPlotConfig,
-  makeChartBtnMenu,
-  profileRadarFacilityInit
-};
-//# sourceMappingURL=profileRadarFacility-MCJKSHUM.js.map

package/dist/profileRadarFacility-MCJKSHUM.js.map

@@ -1,7 +0,0 @@
-{
-  "version": 3,
-  "sources": ["../plots/profile/profileRadarFacility.ts"],
-  "sourcesContent": ["import { getCompInit, copyMerge } from '#rx'\nimport { fillTwLst } from '#termsetting'\nimport * as d3 from 'd3'\nimport { renderTable } from '../../dom/table.js'\nimport { getDefaultProfilePlotSettings, makeChartBtnMenu, getProfilePlotConfig, profilePlot } from './profilePlot'\nexport { makeChartBtnMenu }\n\nclass profileRadarFacility extends profilePlot {\n\tstatic type = 'profileRadarFacility'\n\n\tradius: number\n\tlineGenerator: any\n\tarcGenerator: any\n\tangle?: number\n\tradarG: any\n\n\tconstructor(opts) {\n\t\tsuper(opts, 'profileRadarFacility')\n\t\tthis.radius = 200\n\t\tthis.isRadarFacility = true // this is a radar facility plot\n\t\tthis.lineGenerator = d3.line()\n\t\tthis.arcGenerator = d3.arc().innerRadius(0)\n\t}\n\n\tasync init(appState) {\n\t\tawait super.init(appState)\n\t\tconst config = structuredClone(appState.plots.find(p => p.id === this.id))\n\t\tfor (const row of config.terms) {\n\t\t\tthis.scoreTerms.push(row)\n\t\t}\n\t\tthis.angle = (Math.PI * 2) / config.terms.length\n\t}\n\n\tasync main() {\n\t\tawait super.main()\n\t\tawait this.setControls()\n\t\tthis.plot()\n\t}\n\n\tplot() {\n\t\tconst width = this.isComparison ? 1000 : 1100\n\t\tconst height = 630\n\t\tthis.dom.svg = this.dom.plotDiv\n\t\t\t.append('div')\n\t\t\t.style('display', 'inline-block')\n\t\t\t.append('svg')\n\t\t\t.attr('width', width)\n\t\t\t.attr('height', height)\n\t\tconst rightDiv = this.dom.plotDiv\n\t\t\t.append('div')\n\t\t\t.style('display', 'inline-block')\n\t\t\t.style('vertical-align', 'top')\n\t\t\t.style('margin-top', '80px')\n\t\t\t.style('margin-right', '20px')\n\t\tthis.dom.tableDiv = rightDiv.append('div')\n\n\t\t// Create a polar grid.\n\n\t\tthis.dom.svg\n\t\t\t.append('text')\n\t\t\t.attr('transform', `translate(90, ${30})`)\n\t\t\t.attr('font-weight', 'bold')\n\t\t\t.text(this.config.title)\n\t\tconst radius = this.radius\n\t\tconst x = 300\n\t\tconst y = 330\n\t\tconst radarG = this.dom.svg.append('g').attr('transform', `translate(${x},${y})`)\n\t\tthis.radarG = radarG\n\n\t\tthis.legendG = this.dom.svg\n\t\t\t.append('g')\n\t\t\t.attr('font-size', '0.9em')\n\t\t\t.attr('transform', `translate(${x + 320},${y - 150})`)\n\t\tthis.filterG = this.dom.svg.append('g').attr('transform', `translate(${x + 320},${y - 50})`)\n\n\t\tconst rows: any[] = []\n\t\tconst columns = [\n\t\t\t{ label: 'Color' },\n\t\t\t{ label: 'Module' },\n\t\t\t{ label: `Facility` },\n\t\t\t{ label: 'Global' },\n\t\t\t{\n\t\t\t\tlabel: 'Difference*',\n\t\t\t\ttooltip: `* Difference between site and aggregated scores. If bigger than 20 and positive shown in blue, if negative shown in red.`\n\t\t\t}\n\t\t]\n\n\t\tfor (let i = 0; i <= 10; i++) this.addPoligon(i * 10)\n\n\t\tlet i = 0\n\t\tconst data = [],\n\t\t\tdata2 = []\n\t\tconst angle = this.angle!\n\t\tfor (const item of this.config.terms) {\n\t\t\tconst iangle = i * angle - Math.PI / 2\n\t\t\tconst percentage1 = this.getSamplePercentage(item) //facility\n\t\t\tconst percentage2 = this.getPercentage(item)\n\n\t\t\tthis.radarG\n\t\t\t\t.append('path')\n\t\t\t\t.datum({ module: item.module, percentage1, percentage2 })\n\t\t\t\t.attr('fill', 'transparent')\n\t\t\t\t.attr(\n\t\t\t\t\t'd',\n\t\t\t\t\tthis.arcGenerator({\n\t\t\t\t\t\touterRadius: this.radius,\n\t\t\t\t\t\tstartAngle: i * angle - angle / 2,\n\t\t\t\t\t\tendAngle: (i + 1) * angle - angle / 2\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t\t.on('click', event => this.onMouseOver(event))\n\t\t\tthis.addData(iangle, i, data2, percentage2, false)\n\t\t\tthis.addData(iangle, i, data, percentage1, true)\n\n\t\t\tconst color = item.score.term.color\n\t\t\tconst diff = Math.abs(percentage1 - percentage2)\n\t\t\tconst diffRow: any = { value: diff }\n\t\t\tif (diff >= 20) diffRow.color = percentage2 > percentage1 ? 'red' : 'blue'\n\t\t\tconst row: any[] = [\n\t\t\t\t{ color, disabled: true },\n\t\t\t\t{ value: item.module },\n\t\t\t\t{ value: percentage1 },\n\t\t\t\t{ value: percentage2 },\n\t\t\t\tdiffRow\n\t\t\t]\n\t\t\trows.push(row)\n\n\t\t\ti++\n\t\t\tconst leftSide = iangle > Math.PI / 2 && iangle <= (3 / 2) * Math.PI\n\t\t\tconst dx = radius * 1.1 * Math.cos(iangle)\n\t\t\tlet dy = radius * 1.1 * Math.sin(iangle) - 10\n\t\t\tconst textElem = radarG.append('text').attr('x', `${dx}px`).attr('y', `${dy}px`).attr('font-size', '0.9em')\n\n\t\t\tconst texts = item.module.split(' ')\n\t\t\tlet span\n\t\t\ttexts.forEach(text => {\n\t\t\t\tif (text != 'and') {\n\t\t\t\t\tdy += 15\n\t\t\t\t\tspan = textElem\n\t\t\t\t\t\t.append('tspan')\n\t\t\t\t\t\t.attr('x', `${dx}px`)\n\t\t\t\t\t\t.attr('y', `${dy}px`)\n\t\t\t\t\t\t.text(text + '')\n\t\t\t\t} else span.append('tspan').text(' and')\n\t\t\t})\n\t\t\tif (leftSide) textElem.attr('text-anchor', 'end')\n\t\t}\n\t\tif (!this.isComparison) {\n\t\t\trenderTable({\n\t\t\t\trows,\n\t\t\t\tcolumns,\n\t\t\t\tdiv: this.dom.tableDiv,\n\t\t\t\tshowLines: true,\n\t\t\t\tresize: true\n\t\t\t})\n\t\t}\n\n\t\tdata.push(data[0])\n\t\tdata2.push(data2[0])\n\t\tconst color1 = 'blue',\n\t\t\tcolor2 = 'gray'\n\t\tradarG\n\t\t\t.append('g')\n\t\t\t.append('path')\n\t\t\t.style('stroke', color1)\n\t\t\t.attr('fill', 'none')\n\t\t\t.attr('stroke-width', '2px')\n\t\t\t.attr('d', this.lineGenerator(data))\n\t\tif (this.state.logged) {\n\t\t\tradarG\n\t\t\t\t.append('g')\n\t\t\t\t.append('path')\n\t\t\t\t.style('stroke', color2)\n\t\t\t\t.attr('fill', 'none')\n\t\t\t\t.style('stroke-dasharray', '5, 5')\n\t\t\t\t.attr('d', this.lineGenerator(data2))\n\t\t}\n\n\t\tfor (let i = 0; i <= 10; i++) {\n\t\t\tconst percent = i * 10\n\t\t\tradarG\n\t\t\t\t.append('text')\n\t\t\t\t.attr('transform', `translate(0, ${(-percent / 100) * radius - 2})`)\n\t\t\t\t.attr('text-anchor', 'end')\n\t\t\t\t.style('font-size', '0.8rem')\n\t\t\t\t.text(`${percent}%`)\n\t\t\t\t.attr('pointer-events', 'none')\n\t\t}\n\n\t\tthis.addFilterLegend()\n\t\tthis.legendG.append('text').attr('text-anchor', 'left').style('font-weight', 'bold').text('Legend')\n\t\tconst site = this.sampleData.site\n\t\tconst hospital = site.label\n\t\tconst id = site.value\n\t\tthis.addFacilityLegendItem(`${hospital} / ${id}`, color1, 0, 'none')\n\t\tthis.addFacilityLegendItem(this.config.score, color2, 1, '5, 5')\n\t}\n\n\taddData(iangle, i, data, percentage, isFacility) {\n\t\tconst item = this.config.terms[i]\n\t\tconst iradius = (percentage / 100) * this.radius\n\t\tconst x = iradius * Math.cos(iangle)\n\t\tconst y = iradius * Math.sin(iangle)\n\t\tconst color = isFacility ? 'blue' : '#aaa'\n\t\tconst circle = this.radarG\n\t\t\t.append('g')\n\t\t\t.attr('transform', `translate(${x}, ${y})`)\n\t\t\t.append('circle')\n\t\t\t.attr('r', 4)\n\t\t\t.attr('fill', color)\n\t\t\t.on('click', event => this.onMouseOver(event))\n\n\t\tdata.push([x, y])\n\t\tcircle.datum({ module: item.module, percentage })\n\t}\n\n\taddPoligon(percent) {\n\t\tconst data: any[] = []\n\t\tfor (let i = 0; i < this.config.terms.length; i++) {\n\t\t\tconst iangle = i * this.angle! - Math.PI / 2\n\t\t\tconst iradius = (percent / 100) * this.radius\n\t\t\tconst x = iradius * Math.cos(iangle)\n\t\t\tconst y = iradius * Math.sin(iangle)\n\t\t\tdata.push([x, y])\n\t\t}\n\n\t\tdata.push(data[0])\n\t\tthis.radarG\n\t\t\t.append('g')\n\t\t\t.append('path')\n\t\t\t.style('stroke', '#aaa')\n\t\t\t.attr('fill', 'none')\n\t\t\t.attr('d', this.lineGenerator(data))\n\t\t\t.style('opacity', '0.5')\n\t}\n\n\taddFacilityLegendItem(text, color, index, strokeDash) {\n\t\tconst step = 25\n\t\tconst y = step + index * step\n\t\tconst x = 35\n\t\tthis.legendG\n\t\t\t.append('path')\n\t\t\t.attr('stroke', color)\n\t\t\t.style('stroke-dasharray', strokeDash)\n\t\t\t.attr('stroke-width', '2px')\n\t\t\t.attr(\n\t\t\t\t'd',\n\t\t\t\tthis.lineGenerator([\n\t\t\t\t\t[0, y - 5],\n\t\t\t\t\t[x, y - 5]\n\t\t\t\t])\n\t\t\t)\n\t\tthis.legendG\n\t\t\t.append('g')\n\t\t\t.attr('transform', `translate(${0}, ${y - 5})`)\n\t\t\t.append('circle')\n\t\t\t.attr('r', 4)\n\t\t\t.attr('fill', color)\n\n\t\tconst textElem = this.legendG\n\t\t\t.append('text')\n\t\t\t.attr('font-size', '0.9em')\n\t\t\t.attr('transform', `translate(${x + 5}, ${y})`)\n\t\t\t.attr('text-anchor', 'left')\n\t\ttextElem.append('tspan').text(text)\n\t}\n\n\tonMouseOver(event) {\n\t\tconst d = event.target.__data__\n\t\tif (d?.module) {\n\t\t\tconst label1 = 'Facility'\n\t\t\tconst label2 = this.config.score\n\t\t\tconst menu = this.tip.clear()\n\t\t\tmenu.d.append('div').style('font-weight', 'bold').text(d.module)\n\t\t\tconst table = menu.d.append('table')\n\t\t\tlet tr = table.append('tr')\n\t\t\ttr.append('td').text(label1)\n\t\t\ttr.append('td').text(d.percentage1)\n\t\t\ttr = table.append('tr')\n\t\t\ttr.append('td').text(label2)\n\t\t\ttr.append('td').text(d.percentage2)\n\t\t\tmenu.show(event.clientX, event.clientY, true, true)\n\t\t} else this.onMouseOut(event)\n\t}\n\n\tgetSamplePercentage(d) {\n\t\tif (!d) return 0\n\t\tconst score = this.sampleData.term2Score[d.score.term.id]\n\t\treturn score\n\t}\n}\n\nexport async function getPlotConfig(opts, app, _activeCohort) {\n\ttry {\n\t\tconst activeCohort = _activeCohort === undefined ? app.getState().activeCohort : _activeCohort\n\t\tconst defaults = await getProfilePlotConfig(activeCohort, app, opts)\n\t\tif (!defaults) throw 'default config not found in termdbConfig.plotConfigByCohort.profileRadarFacility'\n\t\tconst config = copyMerge(structuredClone(defaults), opts)\n\t\tconst settings = getDefaultProfilePlotSettings()\n\n\t\tconfig.settings = {\n\t\t\tprofileRadarFacility: settings,\n\t\t\tcontrols: { isOpen: false }\n\t\t}\n\t\tconst terms = config.terms\n\t\tconst twlst: any[] = []\n\t\tfor (const row of terms) {\n\t\t\trow.score.q = row.maxScore.q = { mode: 'continuous' }\n\t\t\ttwlst.push(row.score)\n\t\t\ttwlst.push(row.maxScore)\n\t\t}\n\t\tawait fillTwLst(twlst, app.vocabApi)\n\t\treturn config\n\t} catch (e) {\n\t\tthrow `${e} [profileRadarFacility getPlotConfig()]`\n\t}\n}\n\nexport const profileRadarFacilityInit = getCompInit(profileRadarFacility)\n// this alias will allow abstracted dynamic imports\nexport const componentInit = profileRadarFacilityInit\n"],
-  "mappings": 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-  "names": ["i"]
-}

package/dist/proteomeAbundance-JUYAYO5I.js

@@ -1,63 +0,0 @@
-import {
-  renderAssayAndCohortRadios
-} from "./chunk-H5XFH3FV.js";
-import "./chunk-MDL2HG3N.js";
-import "./chunk-IGEQI6MR.js";
-import "./chunk-IH7ILDJS.js";
-import "./chunk-LOZEKOES.js";
-import "./chunk-TOU7EVFQ.js";
-import "./chunk-OAWQ6LOO.js";
-import "./chunk-SEEYV6P2.js";
-import "./chunk-NDWTN4U5.js";
-import "./chunk-OMR2DT66.js";
-import "./chunk-HFNDKYVF.js";
-
-// termdb/handlers/proteomeAbundance.ts
-var SearchHandler = class {
-  async init(opts) {
-    this.opts = opts;
-    this.dom = {};
-    opts.holder.style("padding", "5px 10px 10px 25px");
-    this.assays = this.opts.app.vocabApi.termdbConfig?.queries?.proteome?.assays || {};
-    const assayKeys = Object.keys(this.assays);
-    if (!assayKeys.length) throw "No proteome assays available";
-    const initialProteomeDetails = opts.usecase?.proteomeDetails || {};
-    const selectedAssay = initialProteomeDetails.assay && this.assays[initialProteomeDetails.assay] ? initialProteomeDetails.assay : assayKeys[0];
-    const cohortKeys = Object.keys(this.assays[selectedAssay]?.cohorts || {});
-    if (!cohortKeys.length) throw "No cohorts available for selected assay";
-    const selectedCohort = initialProteomeDetails.cohort && this.assays[selectedAssay]?.cohorts?.[initialProteomeDetails.cohort] ? initialProteomeDetails.cohort : cohortKeys[0];
-    this.proteomeDetails = { assay: selectedAssay, cohort: selectedCohort };
-    this.dom.typeSettingDiv = opts.holder.append("div");
-    renderAssayAndCohortRadios({
-      holder: this.dom.typeSettingDiv,
-      assays: this.assays,
-      selectedProteomeDetails: this.proteomeDetails,
-      onChange: (proteomeDetails) => {
-        const { assay, cohort } = proteomeDetails;
-        this.proteomeDetails = { assay, cohort };
-        void this.updateUsecase();
-      }
-    });
-    await this.updateUsecase();
-  }
-  async updateUsecase() {
-    const { assay, cohort } = this.proteomeDetails;
-    const state = this.opts.app.getState();
-    await this.opts.app.dispatch({
-      type: "app_refresh",
-      state: {
-        tree: {
-          ...state.tree,
-          usecase: {
-            ...state.tree.usecase,
-            proteomeDetails: { assay, cohort }
-          }
-        }
-      }
-    });
-  }
-};
-export {
-  SearchHandler
-};
-//# sourceMappingURL=proteomeAbundance-JUYAYO5I.js.map

package/dist/proteomeAbundance-PGHZSVAF.js

@@ -1,19 +0,0 @@
-import {
-  makeChartBtnMenu,
-  renderAssayAndCohortRadios
-} from "./chunk-H5XFH3FV.js";
-import "./chunk-MDL2HG3N.js";
-import "./chunk-IGEQI6MR.js";
-import "./chunk-IH7ILDJS.js";
-import "./chunk-LOZEKOES.js";
-import "./chunk-TOU7EVFQ.js";
-import "./chunk-OAWQ6LOO.js";
-import "./chunk-SEEYV6P2.js";
-import "./chunk-NDWTN4U5.js";
-import "./chunk-OMR2DT66.js";
-import "./chunk-HFNDKYVF.js";
-export {
-  makeChartBtnMenu,
-  renderAssayAndCohortRadios
-};
-//# sourceMappingURL=proteomeAbundance-PGHZSVAF.js.map