@sjcrh/proteinpaint-client 2.200.0 → 2.201.0

package/dist/barchart.integration.spec-Z6ECNFSM.js

@@ -0,0 +1,2243 @@
+import {
+  getAgeCollectionFractionTw,
+  getCategoricalTermcollectionTw,
+  getCategoryGroupsetting,
+  getGeneVariantTw,
+  getGenesetMutTw,
+  getIsoformExpCollectionFractionTw,
+  getScctTw
+} from "./chunk-YUURGVV3.js";
+import {
+  termjson
+} from "./chunk-DHPLHIVP.js";
+import {
+  Locator,
+  detectGte,
+  detectLst,
+  detectOne
+} from "./chunk-ECIBJXFT.js";
+import {
+  getRunPp,
+  rideInit
+} from "./chunk-YMP4YKBN.js";
+import {
+  require_tape
+} from "./chunk-TUMA63WX.js";
+import "./chunk-2ZTCRUOL.js";
+import "./chunk-J6EP7JPJ.js";
+import "./chunk-SOCGXVIL.js";
+import "./chunk-CRH37PEV.js";
+import "./chunk-PRZWSBMA.js";
+import "./chunk-3PPCZPLN.js";
+import "./chunk-MKAF2BHB.js";
+import "./chunk-2Y5C7GJS.js";
+import "./chunk-E2GHT7RH.js";
+import "./chunk-ZVDOSFWU.js";
+import {
+  getFilterItemByTag,
+  hideCategory
+} from "./chunk-K6OVOHIZ.js";
+import "./chunk-HJ6L54YS.js";
+import "./chunk-XFAL46LZ.js";
+import "./chunk-HQAJVJCQ.js";
+import "./chunk-HYOEWQ5P.js";
+import "./chunk-6QCYT6G2.js";
+import "./chunk-FN5XPUPH.js";
+import "./chunk-IIT367QZ.js";
+import "./chunk-RZGEKL77.js";
+import "./chunk-ZFJUVP2N.js";
+import "./chunk-R3ARQMM4.js";
+import "./chunk-4USLEUNR.js";
+import "./chunk-4WF3XDQP.js";
+import "./chunk-X6VTVZY7.js";
+import "./chunk-M3J4MINX.js";
+import "./chunk-PF4DSFDR.js";
+import "./chunk-L44P5N4U.js";
+import "./chunk-GEQUQ3GG.js";
+import "./chunk-WPHUM5S5.js";
+import "./chunk-75T7ESEO.js";
+import "./chunk-2KXLYFAO.js";
+import "./chunk-LOZEKOES.js";
+import "./chunk-VQZ2Z5YU.js";
+import "./chunk-UJELJXJG.js";
+import "./chunk-FXQXCOII.js";
+import "./chunk-TLT4YIG3.js";
+import "./chunk-5R63Q5KH.js";
+import "./chunk-I6Y4O3RR.js";
+import "./chunk-Q5RDQNIT.js";
+import "./chunk-DQC5FFGV.js";
+import {
+  __toESM
+} from "./chunk-HFNDKYVF.js";
+
+// plots/test/barchart.integration.spec.js
+var import_tape = __toESM(require_tape(), 1);
+
+// termdb/test/vocabData.js
+var terms = [
+  {
+    id: "a",
+    name: "AAA",
+    parent_id: null,
+    included_types: ["categorical", "integer", "float", "condition", "survival"],
+    child_types: ["categorical", "integer", "float", "condition", "survival"]
+  },
+  {
+    id: "b",
+    name: "BBB",
+    parent_id: null,
+    included_types: ["categorical", "integer", "float", "condition", "survival"],
+    child_types: ["categorical", "integer", "float", "condition", "survival"]
+  },
+  {
+    type: "categorical",
+    id: "c",
+    name: "CCC",
+    parent_id: "a",
+    isleaf: true,
+    groupsetting: {
+      disabled: true
+    },
+    values: {
+      1: { label: "Yes" },
+      0: { label: "No" }
+    },
+    included_types: ["categorical"],
+    child_types: []
+  },
+  {
+    type: "float",
+    id: "d",
+    name: "DDD",
+    parent_id: "a",
+    isleaf: true,
+    bins: {
+      default: {
+        type: "regular-bin",
+        bin_size: 0.2,
+        stopinclusive: true,
+        first_bin: { startunbounded: true, stop: 0.2, stopinclusive: true }
+      },
+      less: {
+        type: "regular-bin",
+        bin_size: 0.4,
+        stopinclusive: true,
+        first_bin: { startunbounded: true, stop: 0.2, stopinclusive: true }
+      }
+    },
+    included_types: ["float"],
+    child_types: []
+  },
+  {
+    type: "condition",
+    id: "e",
+    name: "EEE",
+    parent_id: "a",
+    isleaf: true,
+    groupsetting: {
+      disabled: true
+    },
+    included_types: ["condition"],
+    child_types: []
+  },
+  {
+    type: "categorical",
+    id: "f",
+    name: "FFF",
+    parent_id: "b",
+    isleaf: true,
+    groupsetting: {
+      disabled: true
+    },
+    values: {
+      1: { label: "Yes" },
+      0: { label: "No" }
+    },
+    included_types: ["categorical"],
+    child_types: []
+  },
+  {
+    type: "categorical",
+    id: "g",
+    name: "CCC",
+    parent_id: "ab",
+    isleaf: true,
+    groupsetting: {
+      disabled: true
+    },
+    values: {
+      1: { label: "Yes" },
+      0: { label: "No" }
+    },
+    included_types: ["categorical"],
+    child_types: []
+  },
+  {
+    type: "survival",
+    id: "s",
+    name: "Survival term",
+    isleaf: true,
+    values: {
+      1: { label: "Deceased" },
+      0: { label: "Alive" }
+    }
+  },
+  {
+    type: "termCollection",
+    name: "age percentages",
+    termlst: [{ id: "agedx" }, { id: "a_death" }, { id: "a_ndi" }, { id: "agelastvisit" }],
+    numerators: ["agedx"]
+  }
+];
+var vocab = JSON.stringify({
+  route: null,
+  terms,
+  sampleannotation: {
+    1: {
+      c: 1,
+      d: 0.1
+    },
+    2: {
+      c: 0,
+      d: 0.5
+    },
+    3: {
+      c: 1,
+      d: 0.8
+    },
+    4: {
+      c: 1,
+      d: 0.2
+    },
+    5: {
+      c: 0,
+      d: 0.4
+    },
+    6: {
+      c: 1,
+      d: 0.3
+    },
+    7: {
+      c: 0,
+      d: 0.5
+    },
+    8: {
+      c: 1,
+      d: 0.9
+    },
+    9: {
+      c: 0,
+      d: 0.05
+    },
+    10: {
+      c: 1,
+      d: 1.1
+    }
+  }
+});
+
+// plots/test/barchart.integration.spec.js
+(0, import_tape.default)("\n", function(test) {
+  test.comment("-***- plots/barchart -***-");
+  test.end();
+});
+(0, import_tape.default)("term1=categorical", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "diaggrp"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    testBarCount(barchart);
+    testAxisDimension(barchart);
+    testAxisTitle(barchart);
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  let barDiv;
+  function testBarCount(barchart) {
+    barDiv = barchart.Inner.dom.barDiv;
+    const minBars = 5;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} Diagnosis Group bars`);
+    test.equal(numBars, numOverlays, "should have equal numbers of bars and overlays");
+  }
+  function testAxisDimension(barchart) {
+    const xAxis = barDiv.select(".sjpcb-bar-chart-x-axis").node();
+    const seriesG = barDiv.select(".bars-series").node();
+    test.true(xAxis.getBBox().width >= seriesG.getBBox().width, "x-axis width should be >= series width");
+  }
+  function testAxisTitle(barchart) {
+    const chartTitle = barDiv.select('[data-testid="sjpp-massbarchart-horizontal-charttitle"]');
+    test.equal(chartTitle.text(), "# of samples (n=60)", "sample type of barchart should be samples");
+  }
+});
+(0, import_tape.default)("term1=categorical (no values)", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "diaggrp_novalues"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    testTw(barchart);
+    testBarCount(barchart);
+    testAxisDimension(barchart);
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testTw(barchart) {
+    const tw = barchart.Inner.config.term;
+    test.ok(tw.term.values && typeof tw.term.values == "object", "term.values{} should be an object");
+    test.ok(Array.isArray(tw.term.categories.lst), "term.categories.lst[] should be an array");
+    test.equal(tw.term.categories.lst.length, 7, "term.categories.lst[] should have 7 sample counts");
+  }
+  let barDiv;
+  function testBarCount(barchart) {
+    barDiv = barchart.Inner.dom.barDiv;
+    const minBars = 5;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} Diagnosis Group bars`);
+    test.equal(numBars, numOverlays, "should have equal numbers of bars and overlays");
+  }
+  function testAxisDimension(barchart) {
+    const xAxis = barDiv.select(".sjpcb-bar-chart-x-axis").node();
+    const seriesG = barDiv.select(".bars-series").node();
+    test.true(xAxis.getBBox().width >= seriesG.getBBox().width, "x-axis width should be >= series width");
+  }
+});
+(0, import_tape.default)("term1=categorical (patient-level)", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "genetic_race"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    testBarCount(barchart);
+    testAxisDimension(barchart);
+    testAxisTitle(barchart);
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  let barDiv;
+  function testBarCount(barchart) {
+    barDiv = barchart.Inner.dom.barDiv;
+    const minBars = 2;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} Diagnosis Group bars`);
+    test.equal(numBars, numOverlays, "should have equal numbers of bars and overlays");
+  }
+  function testAxisDimension(barchart) {
+    const xAxis = barDiv.select(".sjpcb-bar-chart-x-axis").node();
+    const seriesG = barDiv.select(".bars-series").node();
+    test.true(xAxis.getBBox().width >= seriesG.getBBox().width, "x-axis width should be >= series width");
+  }
+  function testAxisTitle(barchart) {
+    const chartTitle = barDiv.select('[data-testid="sjpp-massbarchart-horizontal-charttitle"]');
+    test.equal(chartTitle.text(), "# of patients (n=62)", "sample type of barchart should be patients");
+  }
+});
+(0, import_tape.default)("term1=categorical (relapse-level)", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "relapse_site"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    testBarCount(barchart);
+    testAxisDimension(barchart);
+    testAxisTitle(barchart);
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  let barDiv;
+  function testBarCount(barchart) {
+    barDiv = barchart.Inner.dom.barDiv;
+    const minBars = 2;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} Diagnosis Group bars`);
+    test.equal(numBars, numOverlays, "should have equal numbers of bars and overlays");
+  }
+  function testAxisDimension(barchart) {
+    const xAxis = barDiv.select(".sjpcb-bar-chart-x-axis").node();
+    const seriesG = barDiv.select(".bars-series").node();
+    test.true(xAxis.getBBox().width >= seriesG.getBBox().width, "x-axis width should be >= series width");
+  }
+  function testAxisTitle(barchart) {
+    const chartTitle = barDiv.select('[data-testid="sjpp-massbarchart-horizontal-charttitle"]');
+    test.equal(chartTitle.text(), "# of relapse samples (n=10)", "sample type of barchart should be relapse samples");
+  }
+});
+(0, import_tape.default)("term1=termCollection categorical", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [{ chartType: "summary", childType: "barchart", term: getCategoricalTermcollectionTw() }]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    const barDiv = barchart.Inner.dom.barDiv;
+    testBarCount(barDiv);
+    testBarOrder(barDiv);
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount(barDiv) {
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    test.equal(numBars, 3, "should render 3 bars, one per member term");
+  }
+  function testBarOrder(barDiv) {
+    const labelGs = barDiv.selectAll('[data-testid="sjpcb-bars-rowlabels"] g').nodes();
+    test.equal(labelGs.length, 3, "should have 3 row label elements");
+    if (labelGs.length < 2) return;
+    const yValues = labelGs.map((g) => {
+      const t = g.getAttribute("transform") || "";
+      const m = t.match(/translate\([^,]+,([^)]+)\)/);
+      return m ? parseFloat(m[1]) : 0;
+    });
+    test.ok(
+      yValues[0] < yValues[1] && yValues[1] < yValues[2],
+      "row label y positions should increase in termIds order (CNV < Fusion < Germline)"
+    );
+  }
+});
+(0, import_tape.default)("term1=categorical, term2=defaultbins", function(test) {
+  test.timeoutAfter(5e3);
+  test.plan(4);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "diaggrp" },
+          term2: { id: "agedx" }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    testOverlayOrder();
+    await triggerUncomputableOverlay(barchart);
+    clickLegendToHideOverlay(barchart);
+    await testHiddenOverlayData(barchart);
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 5;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} Diagnosis Group bars`);
+    test.true(numOverlays > numBars, "number of overlays should be greater than bars");
+  }
+  function testOverlayOrder() {
+    const bars_grp = barDiv.selectAll(".bars-cell-grp");
+    const legend_rows = barDiv.selectAll(".legend-row");
+    let overlay_ordered = true;
+    const legend_ids = [];
+    legend_rows.each((d) => legend_ids.push(d.dataId));
+    bars_grp.each((d) => {
+      if (!overlay_ordered) return;
+      const bar_ids = d.visibleData.map((d2) => d2.dataId);
+      overlay_ordered = legend_ids.filter((id) => bar_ids.includes(id)).reduce((bool, id, i) => bool && bar_ids[i] === id, overlay_ordered);
+    });
+    test.true(overlay_ordered, "overlay order is same as legend");
+  }
+  async function triggerUncomputableOverlay(barchart) {
+    await detectLst({
+      target: barchart.Inner.dom.legendDiv.node(),
+      // avoid detecting legend entries for descriptive stats,
+      // term legend items have a corresponding icon as the first div,
+      // making the second div (even-numbered child) the relevant target/selector
+      selector: ".sjpp-htmlLegend:nth-child(even)",
+      count: 6,
+      matchAs: ">=",
+      trigger: () => {
+        barchart.Inner.app.dispatch({
+          type: "plot_edit",
+          id: "diaggrp",
+          config: {
+            term2: {
+              $id: "dollaridmustbeintw!!",
+              id: "aaclassic_5",
+              term: termjson["aaclassic_5"],
+              q: termjson["aaclassic_5"].bins.default
+            }
+          }
+        });
+      }
+    });
+  }
+  const legendDataId = "Exposed but dose unknown";
+  async function clickLegendToHideOverlay(barchart) {
+    const legendDiv = barchart.Inner.dom.legendDiv;
+    const item = legendDiv.selectAll(".sjpp-htmlLegend").filter((d) => d.dataId == legendDataId).node();
+    hideCategory(item.__data__, barchart.Inner, true);
+  }
+  async function testHiddenOverlayData(barchart) {
+    const legendDiv = barchart.Inner.dom.legendDiv;
+    const item = await detectLst({ elem: legendDiv.node(), selector: ".sjpp-hidden-legend-item", matchAs: ">=" });
+    test.equal(item.length, 1, "should hide a clicked uncomputable overlay legend");
+  }
+});
+(0, import_tape.default)("term0=defaultbins, term1=categorical", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "diaggrp" },
+          term0: { id: "agedx" }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testNumCharts
+      }
+    }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts > 2, "should have more than 2 charts by Age at Cancer Diagnosis");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=categorical, term2=categorical (patient-level)", function(test) {
+  test.timeoutAfter(5e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "diaggrp" },
+          term2: { id: "sex" }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 5;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} Diagnosis Group bars`);
+    test.true(numOverlays > numBars, "number of overlays should be greater than bars");
+  }
+});
+(0, import_tape.default)("term1=categorical (relapse-level), term2=categorical (patient-level)", function(test) {
+  test.timeoutAfter(5e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "relapse_site" },
+          term2: { id: "sex" }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    testAxisTitle();
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 2;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} bars`);
+    test.true(numOverlays > numBars, "number of overlays should be greater than bars");
+  }
+  function testAxisTitle() {
+    const chartTitle = barDiv.select('[data-testid="sjpp-massbarchart-horizontal-charttitle"]');
+    test.equal(chartTitle.text(), "# of relapse samples (n=10)", "sample type of barchart should be relapse samples");
+  }
+});
+(0, import_tape.default)("term1=geneVariant with groups", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [{ chartType: "summary", childType: "barchart", term: getGeneVariantTw() }]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testNumCharts
+      }
+    }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts == 1, "Should have 1 chart from gene variant term");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=geneVariant, term2=geneVariant using region but not gene", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: getGeneVariantTw(),
+          term2: getGeneVariantTw(true)
+          // gives region but not gene
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testNumCharts
+      }
+    }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts == 1, "Should have 1 chart from gene variant term");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=geneVariant geneset with groups", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: getGenesetMutTw()
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testNumCharts
+      }
+    }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts == 1, "Should have 1 chart from gene variant gene set");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=categorical, term2=geneVariant", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "diaggrp" },
+          term2: { term: { type: "geneVariant", gene: "TP53" }, q: { type: "predefined-groupset" } }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testNumCharts
+      }
+    }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts == 1, "Should have 1 chart from categorical + gene variant term");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=categorical, term2=age collection fraction", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "diaggrp" },
+          term2: getAgeCollectionFractionTw()
+        }
+      ]
+    },
+    barchart: { callbacks: { "postRender.test": testNumCharts } }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts == 1, "Should have 1 chart from categorical + age collection fraction");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=categorical, term2=isoform collection fraction", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "diaggrp" },
+          term2: getIsoformExpCollectionFractionTw()
+        }
+      ]
+    },
+    barchart: { callbacks: { "postRender.test": testNumCharts } }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts == 1, "Should have 1 chart from categorical + isoform collection fraction");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=categorical (patient-level), term2=geneVariant", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "genetic_race" },
+          term2: { term: { type: "geneVariant", gene: "TP53" }, q: { type: "predefined-groupset" } }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 2;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} bars`);
+    test.true(numOverlays > numBars, "number of overlays should be greater than bars");
+  }
+});
+(0, import_tape.default)("term1=geneExp, term2=geneVariant", function(test) {
+  test.timeoutAfter(1e4);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          term2: { term: { type: "geneVariant", gene: "TP53" }, q: { type: "predefined-groupset" } },
+          // must set geneExp q.mode=discrete to show barchart, otherwise it will become violin and not trigger provied postRender for barchart
+          term: { term: { type: "geneExpression", gene: "TP53" }, q: { mode: "discrete" } }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testNumCharts
+      }
+    }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts == 1, "Should have 1 chart from geneExp + gene variant");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=geneVariant, term2=geneExp", function(test) {
+  test.timeoutAfter(1e4);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: { term: { type: "geneVariant", gene: "TP53" }, q: { type: "predefined-groupset" } },
+          term2: { term: { type: "geneExpression", gene: "TP53" } }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testNumCharts
+      }
+    }
+  });
+  function testNumCharts(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numCharts = barDiv.selectAll(".pp-sbar-div").size();
+    test.true(numCharts == 1, "Should have 1 chart from gene variant term");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=geneExp", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: {
+            term: { type: "geneExpression", gene: "TP53", name: "TP53" },
+            q: { mode: "discrete" }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numBars = barDiv.selectAll("rect").size();
+    test.ok(
+      barDiv.selectAll(".pp-sbar-div").size() == 1 && barchart.Inner.config.term.bins.length && numBars,
+      "Should correctly render a bar chart for a gene expression term = TP53"
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=numeric term2=geneExp with default bins", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: { id: "agedx" },
+          term2: {
+            term: { type: "geneExpression", gene: "TP53" },
+            q: { mode: "discrete" }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numBarCalls = barDiv.selectAll(".bars-cell").size();
+    const tableRows = barDiv.selectAll("tr").size();
+    test.equal(
+      numBarCalls,
+      tableRows - 1,
+      "Should display the correct number of bars and table rows when overlaid by gene expression term."
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=geneExp, term2=categorical", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: {
+            term: { gene: "TP53", type: "geneExpression" },
+            q: { mode: "discrete" }
+          },
+          term2: {
+            id: "diaggrp"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  async function runTests(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numBarCells = await detectGte({ elem: barDiv.node(), selector: ".bars-cell", count: 22 });
+    const tableRows = await detectGte({ elem: barDiv.node(), selector: "tr", count: 22 });
+    test.ok(
+      // table has one row for header
+      numBarCells.length >= tableRows.length - 1,
+      "Should display the correct number of cells and table rows when gene expression term is overlaid by a categorical term."
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=geneExp, term2=categorical (patient-level)", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: {
+            term: { gene: "TP53", type: "geneExpression" },
+            q: { mode: "discrete" }
+          },
+          term2: {
+            id: "sex"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 5;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} bars`);
+    test.true(numOverlays > numBars, "number of overlays should be greater than bars");
+  }
+});
+(0, import_tape.default)("term1=condition, term2=gene exp with default bins", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: {
+            id: "Hearing loss"
+          },
+          term2: {
+            term: { gene: "TP53", type: "geneExpression" },
+            q: { mode: "discrete" }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  async function runTests(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numBarCells = await detectGte({ elem: barDiv.node(), selector: ".bars-cell", count: 14 });
+    const tableRows = await detectGte({ elem: barDiv.node(), selector: "tr", count: 14 });
+    test.ok(
+      // table has one row for header
+      numBarCells.length >= tableRows.length - 1,
+      "Should display the correct number of cells and table rows when gene expression term is overlaid by a conditional term."
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=TP53 gene exp, term2=BCR gene exp, both terms with default bins", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: {
+            term: { gene: "TP53", type: "geneExpression" },
+            q: { mode: "discrete" }
+          },
+          term2: {
+            term: { gene: "BCR", type: "geneExpression" },
+            q: { mode: "discrete" }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  async function runTests(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numBarCells = await detectGte({ elem: barDiv.node(), selector: ".bars-cell", count: 27 });
+    const tableRows = await detectGte({ elem: barDiv.node(), selector: "tr", count: 28 });
+    test.ok(
+      numBarCells.length == tableRows.length - 1,
+      "Should display the correct number of cells and table rows when gene expression term is overlaid by a gene expression term."
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=categorical, term0=gene exp with default bins", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: {
+            id: "diaggrp"
+          },
+          term0: {
+            term: { gene: "TP53", name: "TP53", type: "geneExpression" },
+            q: { mode: "discrete" }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  async function runTests(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numBarchart = await detectGte({ elem: barDiv.node(), selector: ".pp-bars-svg", count: 8 });
+    test.equal(
+      numBarchart.length,
+      8,
+      "Should display the correct number of barcharts when a categorical term is overlaid by a gene expression term."
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("term1=scct", function(test) {
+  test.timeoutAfter(3e3);
+  const scctTw = getScctTw();
+  scctTw.term.sample.name = "UMAP";
+  runpp({
+    state: {
+      nav: { header_mode: "hidden" },
+      plots: [
+        {
+          chartType: "summary",
+          term: scctTw
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  async function runTests(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const count = 1;
+    const numBarchart = await detectGte({ elem: barDiv.node(), selector: ".pp-bars-svg", count });
+    test.equal(numBarchart.length, count, "Should display a barchart for a single cell cell type term.");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("series visibility - q.hiddenValues", function(test) {
+  test.timeoutAfter(5e3);
+  test.plan(2);
+  const hiddenValues = { 1: true };
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "sex",
+            q: {
+              hiddenValues
+            }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testHiddenValues
+      }
+    }
+  });
+  function testHiddenValues(barchart) {
+    const bar = barchart.Inner;
+    test.deepEqual(
+      bar.settings.exclude.cols.sort(),
+      Object.keys(hiddenValues).sort(),
+      "should have the correct number of hidden bars by q.hiddenValues"
+    );
+    test.equal(
+      bar.dom.holder.selectAll(".bars-cell").size(),
+      bar.settings.cols.length - bar.settings.exclude.cols.length,
+      "should render the correct number of visible bars"
+    );
+    if (test._ok) bar.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("series visibility - numeric", function(test) {
+  test.timeoutAfter(5e3);
+  runpp({
+    state: {
+      nav: { activeTab: 1 },
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "aaclassic_5" }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runNumericExcludedTests
+      }
+    }
+  });
+  function runNumericExcludedTests(barchart) {
+    rideInit({ arg: barchart, bus: barchart, eventType: "postRender.test" }).run(testHiddenByValuesAndOrder).use(triggerHiddenLegendClick, { wait: 800 }).to(testRevealedBar, { wait: 100 }).use(triggerMenuClickToHide, { wait: 100 }).to(testHiddenLegendDisplay, { wait: 600 }).done(test);
+  }
+  function testHiddenByValuesAndOrder(barchart) {
+    const bar = barchart.Inner;
+    const excluded = bar.settings.exclude.cols;
+    test.true(
+      excluded.length > 1 && excluded.length == Object.keys(bar.config.term.q.hiddenValues).length,
+      "should have the correct number of excluded numeric series by q.hiddenValues"
+    );
+    const foundHiddenLabels = bar.dom.legendDiv.selectAll(".sjpp-htmlLegend").filter((d) => d?.isHidden == true).nodes();
+    test.equal(
+      foundHiddenLabels.length + 1,
+      excluded.length,
+      "should display the correct number of hidden legend labels"
+    );
+    const barOrder = [...bar.dom.holder.node().querySelectorAll(".bars-cell-grp")].sort(
+      (a, b) => a.__data__.data[0].y - b.__data__.data[0].y
+    );
+    test.deepEqual(
+      barOrder.map((d) => d.__data__.seriesId),
+      ["<5000", "5000 to <10000", "10000 to <15000", "15000 to <20000", "20000 to <25000", "\u226525000"],
+      "should render the bars in the expected order"
+    );
+  }
+  let numHiddenLegendBeforeClick;
+  function triggerHiddenLegendClick(barchart) {
+    numHiddenLegendBeforeClick = barchart.Inner.settings.exclude.cols.length;
+    const node = barchart.Inner.dom.legendDiv.selectAll(".sjpp-htmlLegend").filter((d) => d?.isHidden == true).node();
+    hideCategory(node.__data__, barchart.Inner, false);
+  }
+  function testRevealedBar(barchart) {
+    const bar = barchart.Inner;
+    const excluded = bar.settings.exclude.cols;
+    test.equal(excluded.length, numHiddenLegendBeforeClick - 1, "should adjust the number of excluded series data");
+    const foundHiddenLabels = bar.dom.legendDiv.selectAll(".legend-row").filter((d) => d?.isHidden == true).nodes();
+    test.equal(
+      foundHiddenLabels.length + 1,
+      excluded.length,
+      "should adjust the number of hidden legend labels after clicking to reveal one"
+    );
+  }
+  function triggerMenuClickToHide(barchart) {
+    const node = barchart.Inner.dom.holder.selectAll(".bars-cell-grp").filter((d) => d.seriesId == "not exposed").node().dispatchEvent(new Event("click", { bubbles: true }));
+    barchart.Inner.app.tip.d.selectAll(".sja_menuoption").filter((d) => d.label.includes("Hide")).node().click();
+  }
+  function testHiddenLegendDisplay(barchart) {
+    test.equal(
+      barchart.Inner.dom.legendDiv.selectAll(".sjpp-htmlLegend").filter(function() {
+        return this.innerHTML.includes("not exposed");
+      }).size(),
+      1,
+      "should hide a special numeric value by menu click"
+    );
+  }
+});
+(0, import_tape.default)("series visibility and order - condition", function(test) {
+  test.timeoutAfter(5e3);
+  const conditionHiddenValues = { "1: Mild": 1 };
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "Arrhythmias",
+            q: {
+              hiddenValues: conditionHiddenValues
+            }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testConditionHiddenValues
+      }
+    }
+  });
+  function testConditionHiddenValues(barchart) {
+    const bar = barchart.Inner;
+    const excluded = bar.settings.exclude.cols;
+    test.equal(excluded.length, 1, "should have the correct number of hidden condition bars by q.hiddenValues");
+    const barOrder = [...bar.dom.holder.node().querySelectorAll(".bars-cell-grp")].sort(
+      (a, b) => a.__data__.data[0].y - b.__data__.data[0].y
+    );
+    test.deepEqual(
+      barOrder.map((d) => d.__data__.seriesId),
+      ["0: No condition", "2: Moderate", "3: Severe", "4: Life-threatening"],
+      "should render the bars in the expected order"
+    );
+    if (test._ok) bar.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("single barchart, categorical filter", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      termfilter: {
+        filter: {
+          type: "tvslst",
+          in: 1,
+          join: "",
+          lst: [
+            {
+              type: "tvs",
+              tvs: { term: { id: "diaggrp" }, values: [{ key: "Acute lymphoblastic leukemia" }] }
+            }
+          ]
+        }
+      },
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "agedx"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 3;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} bars`);
+    test.true(numOverlays == numBars, "number of overlays should equal number of bars");
+  }
+});
+(0, import_tape.default)("single barchart, categorical filter (patient-level)", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      termfilter: {
+        filter: {
+          type: "tvslst",
+          in: 1,
+          join: "",
+          lst: [
+            {
+              type: "tvs",
+              tvs: { term: { id: "sex" }, values: [{ key: "2" }] }
+            }
+          ]
+        }
+      },
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "agedx"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 3;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} bars`);
+    test.true(numOverlays == numBars, "number of overlays should equal number of bars");
+  }
+});
+(0, import_tape.default)("single barchart (relapse-level), categorical filter (patient-level)", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      termfilter: {
+        filter: {
+          type: "tvslst",
+          in: 1,
+          join: "",
+          lst: [
+            {
+              type: "tvs",
+              tvs: { term: { id: "sex" }, values: [{ key: "2" }] }
+            }
+          ]
+        }
+      },
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "age_relapse"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 2;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} bars`);
+    test.true(numOverlays == numBars, "number of overlays should equal number of bars");
+  }
+});
+(0, import_tape.default)("single geneExp barchart, categorical filter (patient-level)", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      termfilter: {
+        filter: {
+          type: "tvslst",
+          in: 1,
+          join: "",
+          lst: [
+            {
+              type: "tvs",
+              tvs: { term: { id: "sex" }, values: [{ key: "2" }] }
+            }
+          ]
+        }
+      },
+      plots: [
+        {
+          chartType: "summary",
+          childType: "barchart",
+          term: {
+            term: { type: "geneExpression", gene: "TP53" },
+            q: { mode: "discrete" }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    await detectOne({ elem: barDiv.node(), selector: ".pp-bars-svg" });
+    testBarCount();
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount() {
+    const minBars = 3;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    const numOverlays = barDiv.selectAll(".bars-cell").size();
+    test.true(numBars > minBars, `should have more than ${minBars} bars`);
+    test.true(numOverlays == numBars, "number of overlays should equal number of bars");
+  }
+});
+(0, import_tape.default)("single barchart (patient-level), compound filter (patient-level + sample-level)", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      termfilter: {
+        filter: {
+          type: "tvslst",
+          in: 1,
+          join: "and",
+          lst: [
+            {
+              type: "tvs",
+              tvs: { term: { id: "diaggrp" }, values: [{ key: "Wilms tumor" }] }
+            },
+            {
+              type: "tvs",
+              tvs: { term: { id: "sex" }, values: [{ key: "1" }] }
+            }
+          ]
+        }
+      },
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "sex"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    test.equal(
+      barchart.Inner.dom.holder.node().querySelectorAll(".bars-cell-grp").length,
+      1,
+      "should show one bar series"
+    );
+    test.equal(
+      barchart.Inner.dom.holder.node().querySelector(".bars-cell-grp").__data__.seriesId,
+      "1",
+      "should show one bar series that matches filter value"
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("genevariant barchart, compound filter", function(test) {
+  test.timeoutAfter(1e4);
+  runpp({
+    state: {
+      termfilter: {
+        filter: {
+          type: "tvslst",
+          join: "or",
+          in: true,
+          lst: [
+            { type: "tvs", tvs: { term: { id: "sex" }, values: [{ key: "1" }] } },
+            {
+              type: "tvs",
+              tvs: { term: { gene: "TP53", name: "TP53", type: "geneExpression" }, ranges: [{ start: 1, stop: 10 }] }
+            }
+          ]
+        }
+      },
+      plots: [{ chartType: "summary", childType: "barchart", term: getGeneVariantTw() }]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    test.equal(
+      barchart.Inner.dom.holder.node().querySelectorAll(".bars-cell-grp").length,
+      2,
+      "should show two bar series"
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("single barchart, TP53 mutation dtTerm filter", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      termfilter: { filter: tp53dtTermFilter },
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "agedx" }
+          // since p53 mutation filter is applied at sample level, barchart term must be sample-level (agedx)
+          // patient-level term (sex) won't show data
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    test.equal(
+      barchart.Inner.dom.holder.node().querySelectorAll(".bars-cell-grp").length,
+      2,
+      "should show two bar series"
+    );
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("click non-group bar to add filter", function(test) {
+  test.timeoutAfter(8e3);
+  test.plan(3);
+  const termfilter = { filter: [] };
+  runpp({
+    state: {
+      nav: {
+        activeCohort: 0
+      },
+      termfilter,
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "agedx", term: termjson["agedx"], q: termjson["agedx"].bins.less },
+          term2: {
+            id: "Arrhythmias",
+            term: termjson["Arrhythmias"],
+            q: {
+              hiddenValues: {
+                "Unknown status": 1
+              }
+            }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    if (barDiv) return;
+    barchart.Inner.bus.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    triggerBarClick(barchart);
+    await detectLst({ elem: barchart.Inner.app.tip.d.node(), selector: ".sja_menuoption", count: 1, matchAs: ">=" });
+    triggerMenuClick(barchart);
+    await detectLst({
+      elem: barchart.Inner.app.Inner.dom.holder.node(),
+      selector: ".sja_filter_item",
+      count: 1,
+      matchAs: ">="
+    });
+    testTermValues(barchart);
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  let clickedData, currData;
+  function triggerBarClick(barchart) {
+    const elem = barDiv.node().querySelector(".bars-cell").querySelector("rect");
+    clickedData = elem.__data__;
+    currData = barchart.Inner.currServerData;
+    elem.dispatchEvent(new Event("click", { bubbles: true }));
+  }
+  function triggerMenuClick(barchart) {
+    barchart.Inner.app.tip.d.selectAll(".sja_menuoption").filter((d) => d.label.includes("filter")).node().dispatchEvent(new Event("click", { bubbles: true }));
+  }
+  function testTermValues(barchart) {
+    const config = barchart.Inner.state.config;
+    const termfilter2 = barchart.Inner.app.Inner.state.termfilter;
+    const filter = getFilterItemByTag(termfilter2.filter, "filterUiRoot");
+    test.equal(
+      filter && filter.lst.length,
+      2,
+      "should create two tvslst filters when a numeric term overlay is clicked"
+    );
+    test.deepEqual(
+      filter.lst[0],
+      {
+        type: "tvs",
+        tvs: {
+          term: config.term.term,
+          ranges: [currData.refs.bins[1].find((d) => d.label == clickedData.seriesId)]
+        }
+      },
+      "should create a numeric term-value filter with a ranges key"
+    );
+    const q = JSON.parse(JSON.stringify(config.term2.q));
+    const t2ValKey = config.term2 && config.term2.term.values && Object.keys(config.term2.term.values).filter((key) => config.term2.term.values[key].label == clickedData.dataId)[0];
+    test.deepEqual(
+      filter.lst[1],
+      {
+        type: "tvs",
+        tvs: Object.assign(
+          {
+            term: config.term2.term,
+            values: [
+              {
+                key: t2ValKey !== void 0 ? t2ValKey : clickedData.dataId,
+                label: clickedData.dataId in config.term2.term.values ? config.term2.term.values[clickedData.dataId].label : clickedData.dataId
+              }
+            ]
+          },
+          q
+        )
+      },
+      "should create a condition term-value filter with bar_by_*, value_by_*, and other expected keys"
+    );
+  }
+});
+(0, import_tape.default)("click custom categorical group bar to add filter", function(test) {
+  test.timeoutAfter(3e3);
+  const termfilter = { filter: [] };
+  const tw = getCategoryGroupsetting();
+  runpp({
+    state: {
+      termfilter,
+      plots: [{ chartType: "barchart", term: tw }]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    if (barDiv) return;
+    barchart.Inner.bus.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    rideInit({ arg: barchart, bus: barchart, eventType: "postRender.test" }).run(triggerBarClick, { wait: 600 }).use(triggerMenuClick, { wait: 500 }).to(testTermValues, { wait: 100 }).done(test);
+  }
+  let clickedData;
+  function triggerBarClick(barchart) {
+    const elem = barDiv.node().querySelector(".bars-cell").querySelector("rect");
+    clickedData = elem.__data__;
+    elem.dispatchEvent(new Event("click", { bubbles: true }));
+  }
+  function triggerMenuClick(barchart) {
+    barchart.Inner.app.tip.d.selectAll(".sja_menuoption").filter((d) => d.label.includes("filter")).node().click();
+  }
+  function testTermValues(barchart) {
+    const config = barchart.Inner.state.config;
+    const currData = barchart.Inner.currServerData;
+    const termfilter2 = barchart.Inner.app.Inner.state.termfilter;
+    const filter = getFilterItemByTag(termfilter2.filter, "filterUiRoot");
+    test.equal(
+      filter && filter.lst.length,
+      1,
+      "should create one tvslst filters when a numeric term overlay is clicked"
+    );
+    test.deepEqual(
+      filter.lst[0],
+      {
+        type: "tvs",
+        tvs: {
+          term: {
+            name: "group",
+            type: "samplelst",
+            values: {
+              Group: {
+                key: "Group",
+                label: "Group",
+                list: [
+                  { sampleId: "41" },
+                  { sampleId: "42" },
+                  { sampleId: "43" },
+                  { sampleId: "44" },
+                  { sampleId: "45" },
+                  { sampleId: "46" },
+                  { sampleId: "47" },
+                  { sampleId: "48" },
+                  { sampleId: "49" },
+                  { sampleId: "50" },
+                  { sampleId: "51" },
+                  { sampleId: "52" },
+                  { sampleId: "53" },
+                  { sampleId: "54" },
+                  { sampleId: "55" },
+                  { sampleId: "56" },
+                  { sampleId: "57" },
+                  { sampleId: "58" },
+                  { sampleId: "59" },
+                  { sampleId: "60" },
+                  { sampleId: "61" },
+                  { sampleId: "63" },
+                  { sampleId: "64" },
+                  { sampleId: "65" },
+                  { sampleId: "66" },
+                  { sampleId: "67" },
+                  { sampleId: "68" },
+                  { sampleId: "69" },
+                  { sampleId: "70" },
+                  { sampleId: "71" },
+                  { sampleId: "72" },
+                  { sampleId: "73" },
+                  { sampleId: "74" },
+                  { sampleId: "75" },
+                  { sampleId: "76" },
+                  { sampleId: "77" },
+                  { sampleId: "78" },
+                  { sampleId: "80" },
+                  { sampleId: "93" }
+                ]
+              },
+              "Not in Group": {
+                key: "Not in Group",
+                label: "Not in Group",
+                color: "#aaa",
+                list: [
+                  { sampleId: "41" },
+                  { sampleId: "42" },
+                  { sampleId: "43" },
+                  { sampleId: "44" },
+                  { sampleId: "45" },
+                  { sampleId: "46" },
+                  { sampleId: "47" },
+                  { sampleId: "48" },
+                  { sampleId: "49" },
+                  { sampleId: "50" },
+                  { sampleId: "51" },
+                  { sampleId: "52" },
+                  { sampleId: "53" },
+                  { sampleId: "54" },
+                  { sampleId: "55" },
+                  { sampleId: "56" },
+                  { sampleId: "57" },
+                  { sampleId: "58" },
+                  { sampleId: "59" },
+                  { sampleId: "60" },
+                  { sampleId: "61" },
+                  { sampleId: "63" },
+                  { sampleId: "64" },
+                  { sampleId: "65" },
+                  { sampleId: "66" },
+                  { sampleId: "67" },
+                  { sampleId: "68" },
+                  { sampleId: "69" },
+                  { sampleId: "70" },
+                  { sampleId: "71" },
+                  { sampleId: "72" },
+                  { sampleId: "73" },
+                  { sampleId: "74" },
+                  { sampleId: "75" },
+                  { sampleId: "76" },
+                  { sampleId: "77" },
+                  { sampleId: "78" },
+                  { sampleId: "80" },
+                  { sampleId: "93" }
+                ],
+                in: false
+              }
+            }
+          }
+        },
+        noEdit: true
+      },
+      "should create a customset filter with the clicked group.values array"
+    );
+  }
+});
+(0, import_tape.default)("numeric exclude range", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: { id: "aaclassic_5", term: termjson["aaclassic_5"] },
+          term2: { id: "sex" }
+        }
+      ],
+      termfilter: {
+        filter: {
+          type: "tvslst",
+          join: "and",
+          in: true,
+          lst: [
+            {
+              type: "tvs",
+              tag: "cohortFilter",
+              tvs: {
+                term: { id: "subcohort", type: "multivalue" },
+                values: [
+                  { key: "ABC", label: "ABC" }
+                  //{key:'XYZ',label:'XYZ'},
+                ]
+              }
+            },
+            {
+              type: "tvslst",
+              tag: "filterUiRoot",
+              join: "",
+              in: true,
+              lst: [
+                {
+                  type: "tvs",
+                  tvs: {
+                    term: termjson["aaclassic_5"],
+                    ranges: [{ start: 1e4, stopunbounded: true, startinclusive: false, stopinclusive: true }],
+                    isnot: true
+                  }
+                }
+              ]
+            }
+          ]
+        }
+      },
+      nav: {
+        header_mode: "with_tabs"
+      },
+      activeCohort: -1
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": testBarCount
+      }
+    }
+  });
+  function testBarCount(barchart) {
+    const barDiv = barchart.Inner.dom.barDiv;
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    test.equal(numBars, 8, "should have 8 bars");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("max number of bins: exceeded", (test) => {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            term: termjson["aaclassic_5"],
+            q: {
+              type: "regular-bin",
+              bin_size: 1e3,
+              stopinclusive: true,
+              first_bin: { startunbounded: true, stop: 1, stopinclusive: true, bin: "first" },
+              numDecimals: 1,
+              last_bin: { start: 3e4, bin: "last", stopunbounded: true },
+              startinclusive: false
+            }
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  let barDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    testBarCount(barchart);
+    triggerExceedMaxBin(barchart);
+    await testExceedMaxBin(barchart);
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+  function testBarCount(barchart) {
+    const numBars = barDiv.selectAll(".bars-cell-grp").size();
+    test.equal(numBars, 22, "should have 22 age bars");
+  }
+  function triggerExceedMaxBin(barchart) {
+    barchart.Inner.app.dispatch({
+      type: "plot_edit",
+      id: "aaclassic_5",
+      config: {
+        term: {
+          id: "aaclassic_5",
+          term: barchart.Inner.config.term.term,
+          q: {
+            type: "regular-bin",
+            bin_size: 100,
+            stopinclusive: true,
+            first_bin: { startunbounded: true, stop: 1, stopinclusive: true, bin: "first" },
+            numDecimals: 1,
+            last_bin: { start: 3e4, bin: "last", stopunbounded: true },
+            startinclusive: false
+          }
+        }
+      }
+    });
+  }
+  async function testExceedMaxBin(barchart) {
+    const barLoc = Locator.init(barchart.Inner.dom.holder.node());
+    const numBars = await barLoc.shows(".bars-cell-grp", { visibility: false, count: 22 }).get();
+    test.equal(numBars.length, 22, "should hide the previously rendered 22 age bars on error and not re-render");
+    const errorbar = await barLoc.shows(".sja_errorbar").get(0);
+    test.true(errorbar?.innerText.includes("max_num_bins_reached"), "should show a max number of bins error");
+  }
+});
+(0, import_tape.default)("minimum sample size", (test) => {
+  test.timeoutAfter(3e3);
+  const runpp2 = getRunPp("mass", {
+    state: {
+      vocab: {
+        dslabel: "ProtectedTest",
+        genome: "hg38-test"
+      }
+    },
+    debug: 1
+  });
+  runpp2({
+    state: {
+      termfilter: {
+        filter: {
+          type: "tvslst",
+          join: "and",
+          lst: [
+            {
+              type: "tvs",
+              tvs: {
+                term: termjson.agedx,
+                ranges: [{ start: 1, startinclusive: true, stop: 3, stopinclusive: true }]
+              }
+            },
+            {
+              type: "tvs",
+              tvs: {
+                term: termjson.sex,
+                values: [{ key: "1" }]
+              }
+            }
+          ]
+        }
+      },
+      nav: {
+        activeTab: 1
+      },
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            term: termjson["diaggrp"]
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests,
+        error: runTests
+      }
+    },
+    debug: 1
+  });
+  let barDiv, errDiv;
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null).on("error", null);
+    barDiv = barchart.Inner.dom.barDiv;
+    errDiv = barchart.Inner.dom.errdiv;
+    await testBarCount(0, "with stricter filter");
+    test.true(errDiv.text().includes("has less than 10 samples"), "should display the expected error message");
+    test.notEqual(errDiv.style("display"), "none", "should have a visible red error div");
+    await triggerClearedError(barchart);
+  }
+  async function testBarCount(expected, testcase) {
+    if (expected > 0) {
+      const numBars2 = await Locator.init(barDiv.node()).shows(".bars-cell-grp", { count: expected }).length();
+      test.equal(numBars2, expected, `should have ${expected} bars ${testcase}`);
+      return;
+    }
+    const numBars = await Locator.init(barDiv.node()).find(".bars-cell-grp").length();
+    test.equal(numBars, expected, `should have ${expected} bars ${testcase}`);
+  }
+  async function triggerClearedError(barchart) {
+    barchart.on("postRender.test", testClearedError).on("error", testClearedError);
+    await barchart.Inner.app.dispatch({
+      type: "filter_replace",
+      filter: {
+        type: "tvslst",
+        join: "",
+        in: true,
+        lst: [
+          {
+            type: "tvs",
+            tvs: {
+              term: termjson.agedx,
+              ranges: [{ start: 1, startinclusive: true, stop: 3, stopinclusive: true }]
+            }
+          }
+        ]
+      }
+    });
+  }
+  async function testClearedError(barchart) {
+    barchart.on("postRender.test", null).on("error", null);
+    await testBarCount(3, "with looser filter");
+    test.equal(errDiv.text(), "", "should have an empty error message");
+    test.equal(errDiv.style("display"), "none", "should have a hidden red error div");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+(0, import_tape.default)("no visible series data, no overlay", function(test) {
+  test.timeoutAfter(3e3);
+  runpp({
+    state: {
+      nav: {
+        header_mode: "search_only"
+      },
+      plots: [
+        {
+          chartType: "barchart",
+          term: {
+            id: "cisplateq_5"
+          }
+        }
+      ]
+    },
+    barchart: {
+      callbacks: {
+        "postRender.test": runTests
+      }
+    }
+  });
+  async function runTests(barchart) {
+    barchart.on("postRender.test", null);
+    const barLoc = Locator.init(barchart.Inner.dom.holder);
+    const banner = await barLoc.shows('[data-testid="sjpp-barchart-banner"]').get();
+    test.equal(banner.length, 1, "should show the banner");
+    test.true(
+      banner[0]?.innerText.includes("No visible barchart data "),
+      "should show a banner for no visible data to render"
+    );
+    test.equal(await barLoc.shows(".sjpp-hidden-legend-item").length(), 1, "should show a legend entry");
+    if (test._ok) barchart.Inner.app.destroy();
+    test.end();
+  }
+});
+var tp53dtTermFilter = {
+  type: "tvslst",
+  in: true,
+  join: "",
+  lst: [
+    {
+      type: "tvs",
+      tvs: {
+        term: {
+          id: "snvindel_somatic",
+          query: "snvindel",
+          name: "SNV/indel (somatic)",
+          parent_id: null,
+          isleaf: true,
+          type: "dtsnvindel",
+          dt: 1,
+          values: {
+            M: { label: "MISSENSE" },
+            F: { label: "FRAMESHIFT" },
+            WT: { label: "Wildtype" }
+          },
+          name_noOrigin: "SNV/indel",
+          origin: "somatic",
+          parentTerm: {
+            name: "TP53",
+            genes: [
+              {
+                kind: "gene",
+                id: "TP53",
+                gene: "TP53",
+                name: "TP53",
+                type: "geneVariant"
+              }
+            ],
+            type: "geneVariant"
+          }
+        },
+        values: [
+          {
+            key: "M",
+            label: "MISSENSE",
+            value: "M",
+            bar_width_frac: null
+          }
+        ],
+        genotype: "variant",
+        mcount: "any"
+      }
+    }
+  ],
+  tag: "filterUiRoot"
+};
+var runpp = getRunPp("mass", {
+  state: {
+    nav: {
+      activeTab: 1
+    },
+    vocab: {
+      dslabel: "TermdbTest",
+      genome: "hg38-test"
+    }
+  },
+  debug: 1
+});
+//# sourceMappingURL=barchart.integration.spec-Z6ECNFSM.js.map