@sjcrh/proteinpaint-client 2.208.0 → 2.209.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/2dmaf-VTMPVZGT.js +1367 -0
- package/dist/AggMatrixInput-CH3RQ2QC.js +406 -0
- package/dist/AggregateMatrix-DPCHUOMF.js +41 -0
- package/dist/AppHeader-RA7T467G.js +830 -0
- package/dist/BoxPlot-7Q7SMT26.js +1211 -0
- package/dist/CorrelationVolcano-YV4UHOAX.js +617 -0
- package/dist/Cuminc-ZN53C3MD.js +1219 -0
- package/dist/DE-BEWW5AIG.js +89 -0
- package/dist/DEinput-SJITUJF2.js +499 -0
- package/dist/DM-2LBNE4WE.js +90 -0
- package/dist/DifferentialAnalysis-WE4LBHEF.js +239 -0
- package/dist/DifferentialAnalysis-WE4LBHEF.js.map +7 -0
- package/dist/Disco-PTZQF7IM.js +3389 -0
- package/dist/Disco.UI-NBR67N5M.js +243 -0
- package/dist/DmrPlot-QROLI66S.js +362 -0
- package/dist/DmrPlot-QROLI66S.js.map +7 -0
- package/dist/GB-FEBSFX5U.js +1428 -0
- package/dist/GB-FEBSFX5U.js.map +7 -0
- package/dist/GSEA-KOXOVC5V.js +875 -0
- package/dist/GSEA-KOXOVC5V.js.map +7 -0
- package/dist/GeneExpInput-DYBK54HC.js +42 -0
- package/dist/Geomap-QRD2WZVL.js +84 -0
- package/dist/HicApp-VKET4QHD.js +2245 -0
- package/dist/IDCViewer-RLLTXGD7.js +10812 -0
- package/dist/NumBinaryEditor-GYHOYPQL.js +279 -0
- package/dist/NumBinaryEditor.unit.spec-E2HKBWOO.js +312 -0
- package/dist/NumContEditor-3V76ZSEY.js +105 -0
- package/dist/NumContEditor.unit.spec-RTT5Q5E5.js +164 -0
- package/dist/NumCustomBinEditor-O5DMPY7H.js +33 -0
- package/dist/NumCustomBinEditor.unit.spec-5LZBP2JL.js +397 -0
- package/dist/NumDiscreteEditor-DFOJ7AIH.js +170 -0
- package/dist/NumDiscreteEditor.unit.spec-PPJGEBFX.js +233 -0
- package/dist/NumRegularBinEditor-O6RDO32C.js +33 -0
- package/dist/NumRegularBinEditor.unit.spec-GOB3BF25.js +278 -0
- package/dist/NumSplineEditor-PUXJF2RW.js +210 -0
- package/dist/NumSplineEditor.unit.spec-4VOAAMOU.js +224 -0
- package/dist/NumericDensity-E6MH2THZ.js +33 -0
- package/dist/NumericDensity.unit.spec-IRPFBQUS.js +418 -0
- package/dist/NumericHandler-42RR54X3.js +34 -0
- package/dist/NumericHandler.unit.spec-YYOO7XVT.js +214 -0
- package/dist/ProteomeInput-4N2G6IFX.js +388 -0
- package/dist/Regression-LIWUWAGQ.js +1416 -0
- package/dist/Regression-LIWUWAGQ.js.map +7 -0
- package/dist/RunChart2-VAX5JGZY.js +749 -0
- package/dist/SC-UHBZ3HRO.js +1183 -0
- package/dist/SC-UHBZ3HRO.js.map +7 -0
- package/dist/Violin-V23VZR6B.js +1081 -0
- package/dist/Violin-V23VZR6B.js.map +7 -0
- package/dist/Volcano-64S4AW66.js +2443 -0
- package/dist/Volcano-64S4AW66.js.map +7 -0
- package/dist/Wsi-FOJCKDCP.js +629 -0
- package/dist/adSandbox-CLMUYNC3.js +33 -0
- package/dist/animatedBubbleChart-GMLNYTQC.js +547 -0
- package/dist/app-2SFDRDN2.js +32 -0
- package/dist/app-QOZ36UR4.js +42 -0
- package/dist/app.js +14 -14
- package/dist/bam-LLAK7FVG.js +876 -0
- package/dist/barchart-SEC6VKQ2.js +42 -0
- package/dist/barchart2-D4FXZCTU.js +309 -0
- package/dist/block-XGK6TEGH.js +6250 -0
- package/dist/block-XGK6TEGH.js.map +7 -0
- package/dist/block.init-UMRCAKCF.js +33 -0
- package/dist/block.mds.expressionrank-LFPJ52SX.js +354 -0
- package/dist/block.mds.geneboxplot-2QIEN6AH.js +823 -0
- package/dist/block.mds.junction-Z4HUFSG2.js +1539 -0
- package/dist/block.mds.svcnv-3GXGY6ET.js +6796 -0
- package/dist/block.svg-7RCJLMAP.js +159 -0
- package/dist/block.tk.aicheck-5N6EGZ6F.js +278 -0
- package/dist/block.tk.ase-V3AJRYT6.js +360 -0
- package/dist/block.tk.bam-W6QOVVEU.js +1901 -0
- package/dist/block.tk.bedgraphdot-FKTPJZTH.js +379 -0
- package/dist/block.tk.bigwig.ui-Y3M2TDM2.js +206 -0
- package/dist/block.tk.hicstraw-3SWYTMFQ.js +818 -0
- package/dist/block.tk.junction-OXB22PDS.js +2358 -0
- package/dist/block.tk.junction.textmatrixui-PWBLRGCO.js +194 -0
- package/dist/block.tk.ld-NTRJL5GA.js +94 -0
- package/dist/block.tk.menu-JIHSGGIO.js +1024 -0
- package/dist/block.tk.pgv-4Q6CY6QN.js +938 -0
- package/dist/brainImaging-MBI4XTTU.js +555 -0
- package/dist/brainRegions-YVTAESRP.js +217 -0
- package/dist/bubbleHeatmap-ZKTA3AIG.js +378 -0
- package/dist/cellTypeBubbleHeatmap-GJZNXDG4.js +278 -0
- package/dist/chunk-2PDBU42F.js +4375 -0
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- package/dist/chunk-33BE7AYS.js +299 -0
- package/dist/chunk-3FEP6B5T.js +119 -0
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- package/dist/chunk-BCCFJYPE.js +54 -0
- package/dist/chunk-BG3SGGVB.js +134 -0
- package/dist/chunk-C3HEDQPT.js +24921 -0
- package/dist/chunk-C3HEDQPT.js.map +7 -0
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- package/dist/chunk-CKOU3P27.js +26 -0
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- package/dist/chunk-FSLOUTTK.js.map +7 -0
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- package/dist/chunk-JMDUO47F.js +5071 -0
- package/dist/chunk-JTANDSTD.js +54 -0
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- package/dist/chunk-NDOKW2HJ.js +31 -0
- package/dist/chunk-NGMM2MNC.js +518 -0
- package/dist/chunk-OASGOTRM.js +80 -0
- package/dist/chunk-OASGOTRM.js.map +7 -0
- package/dist/chunk-OBDIJ4QS.js +2146 -0
- package/dist/chunk-OBDIJ4QS.js.map +7 -0
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- package/dist/chunk-WGDJX7WZ.js +2327 -0
- package/dist/chunk-WIQVSCD5.js +294 -0
- package/dist/chunk-WXXRVJSP.js +56 -0
- package/dist/chunk-X4MV2M5F.js +129 -0
- package/dist/chunk-XVVVNCXS.js +217 -0
- package/dist/chunk-XVVVNCXS.js.map +7 -0
- package/dist/chunk-YHP7MYB7.js +49 -0
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- package/dist/chunk-YKZOQTT4.js +1233 -0
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- package/dist/cohort-GVAJTICQ.js +70 -0
- package/dist/condition-EGPNMM47.js +327 -0
- package/dist/controls-HBROSXHF.js +34 -0
- package/dist/controls.config-FWKV66TU.js +34 -0
- package/dist/correlation-CEHE66EC.js +95 -0
- package/dist/customdata.inputui-LFT3N5FD.js +284 -0
- package/dist/dataDownload-ZPAIAAE4.js +329 -0
- package/dist/databrowser.ui-W5JGFBE6.js +425 -0
- package/dist/dictionary-RBE2CIZI.js +113 -0
- package/dist/dnaMethylation-CX22TSRO.js +33 -0
- package/dist/dnaMethylation.integration.spec-KEE6ZZRT.js +198 -0
- package/dist/dofetch-6NAGX5EG.js +48 -0
- package/dist/e2pca-XDGPTEXL.js +344 -0
- package/dist/ep-IUIDMIGW.js +1249 -0
- package/dist/expclust.gdc.spec-BMN2PTJX.js +302 -0
- package/dist/facet-DTJKZOBA.js +519 -0
- package/dist/gb-MV7MUJWO.js +81 -0
- package/dist/geneExpClustering-NFH5FS3S.js +244 -0
- package/dist/geneExpression-XVOLNYVN.js +310 -0
- package/dist/geneExpression-ZP2VWHED.js +33 -0
- package/dist/geneExpression.unit.spec-2NSK4ARK.js +128 -0
- package/dist/geneExpression.unit.spec-2NSK4ARK.js.map +7 -0
- package/dist/geneORA-HQ7FLMEJ.js +273 -0
- package/dist/geneRanking-MIABUKTN.js +548 -0
- package/dist/geneVariant-H52UUK6Z.js +289 -0
- package/dist/geneVariant-H52UUK6Z.js.map +7 -0
- package/dist/geneVariant-HDFWLALZ.js +36 -0
- package/dist/geneVariant.integration.spec-O36JK4B7.js +503 -0
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- package/dist/genefusion.ui-HSDZQHJA.js +303 -0
- package/dist/geneset-WKV3X2EJ.js +203 -0
- package/dist/genomeBrowser.spec-UTAHAU76.js +276 -0
- package/dist/grin2-M2JDZVYU.js +70 -0
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- package/dist/hierCluster.interactivity-4HP3JCON.js +49 -0
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- package/dist/imagePlot-OA4WTMLU.js +156 -0
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- package/dist/isoformExpression-LZ5RTUS5.js +35 -0
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getDefaultProfilePlotSettings,
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getProfilePlotConfig,
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makeChartBtnMenu,
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profilePlot
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renderTable
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// plots/profile/radarFacility2.ts
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var ProfileRadarFacility2 = class extends profilePlot {
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static {
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this.type = "profileRadarFacility2";
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constructor(opts) {
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super(opts, "profileRadarFacility2");
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async init(appState) {
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async main() {
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/**
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async fetchRadarFacility2Scores() {
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body: {
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genome: this.state.vocab.genome,
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scoreTerms: this.scoreTerms.map((t) => ({
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score: { term: { id: t.score.term.id }, q: t.score.q },
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filter: this.filter,
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}
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plot() {
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const { radarG, rows, data, data2 } = this.createSvgAndGrid(hasFacilityData);
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this.drawLines(radarG, data, data2, hasFacilityData);
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}
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/*
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Two layouts. Normally the legend column sits to the right of the radar inside the svg and
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the score table sits to its right again. In comparison mode two charts share the row, so
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the legend and filter blocks stack under the radar and the table moves below the svg. The
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filter legend grows a row per active filter, hence the derived height.
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*/
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createSvgAndGrid(hasFacilityData) {
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const width = isComparison ? 660 : 1100;
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const height = isComparison ? filterY + this.getFilterLegendRowCount() * 22 + 20 : 630;
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this.dom.svg = this.dom.plotDiv.append("div").style("display", "inline-block").append("svg").attr("width", width).attr("height", height);
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const rightDiv = this.dom.plotDiv.append("div").style("display", isComparison ? "block" : "inline-block").style("vertical-align", "top").style("margin-top", isComparison ? "0" : "80px").style("margin-right", "20px");
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this.dom.tableDiv = rightDiv.append("div").attr("data-testid", "sjpp-profileRadarFacility2-data-table");
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this.dom.svg.append("text").attr("transform", `translate(90, 30)`).attr("font-weight", "bold").text(this.config.title);
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const radarG = this.dom.svg.append("g").attr("transform", `translate(${x},${y})`);
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this.radarG = radarG;
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this.legendG = this.dom.svg.append("g").attr("data-testid", "sjpp-profileRadarFacility2-legend").attr("font-size", "0.9em").attr("transform", isComparison ? `translate(20, ${legendY})` : `translate(${x + 320},${y - 150})`);
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this.filterG = this.dom.svg.append("g").attr("transform", isComparison ? `translate(20, ${filterY})` : `translate(${x + 320},${y - 50})`);
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for (let i2 = 0; i2 <= 10; i2++) this.drawPolygon(i2 * 10);
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const rows = [];
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const angle = this.angle;
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let i = 0;
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for (const item of this.config.terms) {
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const rawFacility = this.getSamplePercentage(item);
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const tooltipDatum = { module: item.module, percentage1: p1, percentage2: p2 };
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this.radarG.append("path").datum(tooltipDatum).attr("fill", "transparent").attr(
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outerRadius: this.radius,
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})
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).on("click", (event) => this.onMouseOver(event));
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if (p2 !== null) this.addDataPoint(iangle, data2, p2, false, tooltipDatum);
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else data2.push(null);
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if (p1 !== null) this.addDataPoint(iangle, data, p1, true, tooltipDatum);
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else data.push(null);
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const bothPresent = p1 !== null && p2 !== null;
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const diff = bothPresent ? Math.abs(p1 - p2) : null;
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const diffRow = diff !== null ? { value: diff } : { value: "\u2014" };
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rows.push([
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{ color, disabled: true },
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{ value: item.module },
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diffRow
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this.drawModuleLabel(item.module, iangle);
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}
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drawLines(radarG, data, data2, hasFacilityData) {
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const closePolygon = (arr) => {
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const firstDefined = arr.find((v) => v !== null);
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if (firstDefined) arr.push(firstDefined);
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};
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closePolygon(data2);
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const color1 = "blue";
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const color2 = "gray";
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if (hasFacilityData) {
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closePolygon(data);
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radarG.append("g").append("path").style("stroke", color1).attr("fill", "none").attr("stroke-width", "2px").attr("d", this.lineGenerator(data));
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}
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if (this.state.logged) {
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radarG.append("g").append("path").style("stroke", color2).attr("fill", "none").style("stroke-dasharray", "5, 5").attr("d", this.lineGenerator(data2));
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}
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}
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drawPercentLabels(radarG) {
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for (let i = 0; i <= 10; i++) {
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const percent = i * 10;
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radarG.append("text").attr("transform", `translate(0, ${-percent / 100 * this.radius - 2})`).attr("text-anchor", "end").style("font-size", "0.8rem").text(`${percent}%`).attr("pointer-events", "none");
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}
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}
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drawTableAndLegend(rows, hasFacilityData) {
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const columns = [
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{ label: "Color" },
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{ label: "Module" },
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{ label: "Facility" },
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195
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{ label: "Global" },
|
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196
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{ label: "Difference*" }
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|
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];
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|
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renderTable({
|
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199
|
-
rows,
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-
columns,
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|
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div: this.dom.tableDiv,
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|
-
showLines: true,
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203
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resize: true
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204
|
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});
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205
|
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this.addDifferenceNote(
|
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206
|
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`* Difference between site and aggregated scores. If bigger than 20 and positive shown in blue, if negative shown in red.`
|
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207
|
-
);
|
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this.addFilterLegend();
|
|
209
|
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this.legendG.append("text").attr("text-anchor", "left").style("font-weight", "bold").text("Legend");
|
|
210
|
-
if (hasFacilityData) {
|
|
211
|
-
const site = this.sampleData.site;
|
|
212
|
-
this.addFacilityLegendItem(`${site.label} / ${site.value}`, "blue", 0, "none");
|
|
213
|
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this.addFacilityLegendItem(this.config.score, "gray", 1, "5, 5");
|
|
214
|
-
} else {
|
|
215
|
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this.legendG.append("text").attr("text-anchor", "start").style("font-style", "italic").style("font-size", "0.85em").attr("transform", "translate(0, 25)").text("No institutional data available for the current filter.");
|
|
216
|
-
if (this.state.logged) {
|
|
217
|
-
this.addFacilityLegendItem(this.config.score, "gray", 2, "5, 5");
|
|
218
|
-
}
|
|
219
|
-
}
|
|
220
|
-
}
|
|
221
|
-
addDifferenceNote(text) {
|
|
222
|
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const noteDiv = this.dom.tableDiv.append("div").attr("data-testid", "sjpp-profileRadarFacility2-difference-note").style("display", "flex").style("align-items", "center").style("gap", "6px").style("margin-top", "8px").style("font-size", "0.85em").style("font-style", "italic").style("color", "#555");
|
|
223
|
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noteDiv.append("span").attr("aria-hidden", "true").style("font-style", "normal").style("font-size", "1.1em").text("\u24D8");
|
|
224
|
-
noteDiv.append("span").text(text);
|
|
225
|
-
}
|
|
226
|
-
drawModuleLabel(module, iangle) {
|
|
227
|
-
const radius = this.radius;
|
|
228
|
-
const leftSide = iangle > Math.PI / 2 && iangle <= 3 / 2 * Math.PI;
|
|
229
|
-
const dx = radius * 1.1 * Math.cos(iangle);
|
|
230
|
-
let dy = radius * 1.1 * Math.sin(iangle) - 10;
|
|
231
|
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const textElem = this.radarG.append("text").attr("x", `${dx}px`).attr("y", `${dy}px`).attr("font-size", "0.9em");
|
|
232
|
-
const texts = module.split(" ");
|
|
233
|
-
let span;
|
|
234
|
-
for (const text of texts) {
|
|
235
|
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if (text != "and") {
|
|
236
|
-
dy += 15;
|
|
237
|
-
span = textElem.append("tspan").attr("x", `${dx}px`).attr("y", `${dy}px`).text(text);
|
|
238
|
-
} else span.append("tspan").text(" and");
|
|
239
|
-
}
|
|
240
|
-
if (leftSide) textElem.attr("text-anchor", "end");
|
|
241
|
-
}
|
|
242
|
-
addDataPoint(iangle, data, percentage, isFacility, tooltipDatum) {
|
|
243
|
-
const iradius = percentage / 100 * this.radius;
|
|
244
|
-
const x = iradius * Math.cos(iangle);
|
|
245
|
-
const y = iradius * Math.sin(iangle);
|
|
246
|
-
const color = isFacility ? "blue" : "#aaa";
|
|
247
|
-
this.radarG.append("g").attr("transform", `translate(${x}, ${y})`).append("circle").attr("r", 4).attr("fill", color).datum(tooltipDatum).on("click", (event) => this.onMouseOver(event));
|
|
248
|
-
data.push([x, y]);
|
|
249
|
-
}
|
|
250
|
-
drawPolygon(percent) {
|
|
251
|
-
const data = [];
|
|
252
|
-
for (let i = 0; i < this.config.terms.length; i++) {
|
|
253
|
-
const iangle = i * this.angle - Math.PI / 2;
|
|
254
|
-
const iradius = percent / 100 * this.radius;
|
|
255
|
-
const x = iradius * Math.cos(iangle);
|
|
256
|
-
const y = iradius * Math.sin(iangle);
|
|
257
|
-
data.push([x, y]);
|
|
258
|
-
}
|
|
259
|
-
data.push(data[0]);
|
|
260
|
-
this.radarG.append("g").append("path").style("stroke", "#aaa").attr("fill", "none").attr("d", this.lineGenerator(data)).style("opacity", "0.5");
|
|
261
|
-
}
|
|
262
|
-
addFacilityLegendItem(text, color, index, strokeDash) {
|
|
263
|
-
const step = 25;
|
|
264
|
-
const y = step + index * step;
|
|
265
|
-
const x = 35;
|
|
266
|
-
this.legendG.append("path").attr("stroke", color).style("stroke-dasharray", strokeDash).attr("stroke-width", "2px").attr(
|
|
267
|
-
"d",
|
|
268
|
-
this.lineGenerator([
|
|
269
|
-
[0, y - 5],
|
|
270
|
-
[x, y - 5]
|
|
271
|
-
])
|
|
272
|
-
);
|
|
273
|
-
this.legendG.append("g").attr("transform", `translate(0, ${y - 5})`).append("circle").attr("r", 4).attr("fill", color);
|
|
274
|
-
this.legendG.append("text").attr("font-size", "0.9em").attr("transform", `translate(${x + 5}, ${y})`).attr("text-anchor", "left").append("tspan").text(text);
|
|
275
|
-
}
|
|
276
|
-
onMouseOver(event) {
|
|
277
|
-
const d = event.target.__data__;
|
|
278
|
-
if (d?.module) {
|
|
279
|
-
const label1 = "Facility";
|
|
280
|
-
const label2 = this.config.score;
|
|
281
|
-
const menu = this.tip.clear();
|
|
282
|
-
menu.d.append("div").style("font-weight", "bold").text(d.module);
|
|
283
|
-
const table = menu.d.append("table");
|
|
284
|
-
let tr = table.append("tr");
|
|
285
|
-
tr.append("td").text(label1);
|
|
286
|
-
tr.append("td").text(d.percentage1 ?? "\u2014");
|
|
287
|
-
tr = table.append("tr");
|
|
288
|
-
tr.append("td").text(label2);
|
|
289
|
-
tr.append("td").text(d.percentage2 ?? "\u2014");
|
|
290
|
-
menu.show(event.clientX, event.clientY, true, true);
|
|
291
|
-
} else this.onMouseOut(event);
|
|
292
|
-
}
|
|
293
|
-
/**
|
|
294
|
-
* Returns the single-site percentage for term `d` — or `undefined` when the
|
|
295
|
-
* server omitted the term (no eligible data) OR when `sampleData` is absent.
|
|
296
|
-
* Callers must treat `undefined` as missing and NOT participate in arithmetic
|
|
297
|
-
* or coordinate math — coercing to 0 would conflate missing with a real 0 score.
|
|
298
|
-
*/
|
|
299
|
-
getSamplePercentage(d) {
|
|
300
|
-
if (!d) return void 0;
|
|
301
|
-
return this.sampleData?.term2Score?.[d.score.term.id];
|
|
302
|
-
}
|
|
303
|
-
};
|
|
304
|
-
async function getPlotConfig(opts, app, _activeCohort) {
|
|
305
|
-
try {
|
|
306
|
-
const activeCohort = _activeCohort === void 0 ? app.getState().activeCohort : _activeCohort;
|
|
307
|
-
const defaults = await getProfilePlotConfig(activeCohort, app, opts);
|
|
308
|
-
if (!defaults) throw "default config not found in termdbConfig.plotConfigByCohort.profileRadarFacility2";
|
|
309
|
-
const config = copyMerge(structuredClone(defaults), opts);
|
|
310
|
-
const settings = getDefaultProfilePlotSettings();
|
|
311
|
-
config.settings = {
|
|
312
|
-
profileRadarFacility2: settings,
|
|
313
|
-
controls: { isOpen: false }
|
|
314
|
-
};
|
|
315
|
-
const twlst = [];
|
|
316
|
-
for (const row of config.terms) {
|
|
317
|
-
row.score.q = row.maxScore.q = { mode: "continuous" };
|
|
318
|
-
twlst.push(row.score);
|
|
319
|
-
twlst.push(row.maxScore);
|
|
320
|
-
}
|
|
321
|
-
await fillTwLst(twlst, app.vocabApi);
|
|
322
|
-
return config;
|
|
323
|
-
} catch (e) {
|
|
324
|
-
throw `${e} [profileRadarFacility2 getPlotConfig()]`;
|
|
325
|
-
}
|
|
326
|
-
}
|
|
327
|
-
var profileRadarFacility2Init = getCompInit(ProfileRadarFacility2);
|
|
328
|
-
var componentInit = profileRadarFacility2Init;
|
|
329
|
-
export {
|
|
330
|
-
componentInit,
|
|
331
|
-
getPlotConfig,
|
|
332
|
-
makeChartBtnMenu,
|
|
333
|
-
profileRadarFacility2Init
|
|
334
|
-
};
|
|
335
|
-
//# sourceMappingURL=radarFacility2-ZGLZ5AKM.js.map
|
|
@@ -1,211 +0,0 @@
|
|
|
1
|
-
import {
|
|
2
|
-
require_tape
|
|
3
|
-
} from "./chunk-PJYCTAMC.js";
|
|
4
|
-
import {
|
|
5
|
-
mayShowRememberedGvQ
|
|
6
|
-
} from "./chunk-EEB5VE2A.js";
|
|
7
|
-
import {
|
|
8
|
-
dtcnv,
|
|
9
|
-
dtfusionrna,
|
|
10
|
-
dtsnvindel
|
|
11
|
-
} from "./chunk-4EZLVENZ.js";
|
|
12
|
-
import "./chunk-Z2ZITHT4.js";
|
|
13
|
-
import "./chunk-4OLM3KSB.js";
|
|
14
|
-
import "./chunk-5R63Q5KH.js";
|
|
15
|
-
import {
|
|
16
|
-
select_default
|
|
17
|
-
} from "./chunk-I6Y4O3RR.js";
|
|
18
|
-
import "./chunk-Q5RDQNIT.js";
|
|
19
|
-
import {
|
|
20
|
-
__toESM
|
|
21
|
-
} from "./chunk-HS5PO5ZQ.js";
|
|
22
|
-
|
|
23
|
-
// termdb/handlers/test/rememberedGvQ.unit.spec.ts
|
|
24
|
-
var import_tape = __toESM(require_tape(), 1);
|
|
25
|
-
var term = { type: "geneVariant", name: "BCR", genes: [{ kind: "gene", gene: "BCR", name: "BCR" }] };
|
|
26
|
-
var lst = [
|
|
27
|
-
{ label: "BCR-ABL1 fusion / Others", q: { type: "custom-groupset", customset: { groups: [{ name: "BCR-ABL1" }] } } },
|
|
28
|
-
{ label: "BCR-JAK2 fusion / Others", q: { type: "custom-groupset", customset: { groups: [{ name: "BCR-JAK2" }] } } }
|
|
29
|
-
];
|
|
30
|
-
function getQ(dtTerms) {
|
|
31
|
-
return {
|
|
32
|
-
type: "custom-groupset",
|
|
33
|
-
customset: {
|
|
34
|
-
groups: [
|
|
35
|
-
{
|
|
36
|
-
name: "Group 1",
|
|
37
|
-
filter: {
|
|
38
|
-
type: "tvslst",
|
|
39
|
-
join: "and",
|
|
40
|
-
in: true,
|
|
41
|
-
lst: dtTerms.map((t) => ({ type: "tvs", tvs: { term: { id: "dt", ...t }, values: [] } }))
|
|
42
|
-
}
|
|
43
|
-
}
|
|
44
|
-
]
|
|
45
|
-
}
|
|
46
|
-
};
|
|
47
|
-
}
|
|
48
|
-
function getVocabApi(remembered) {
|
|
49
|
-
return remembered ? { getGvQLst: () => structuredClone(remembered) } : {};
|
|
50
|
-
}
|
|
51
|
-
function getHolder() {
|
|
52
|
-
return select_default("body").append("div");
|
|
53
|
-
}
|
|
54
|
-
(0, import_tape.default)("\n", function(test) {
|
|
55
|
-
test.comment("-***- termdb/handlers/rememberedGvQ -***-");
|
|
56
|
-
test.end();
|
|
57
|
-
});
|
|
58
|
-
(0, import_tape.default)("renders the remembered settings of a term", (test) => {
|
|
59
|
-
const holder = getHolder();
|
|
60
|
-
const shown = mayShowRememberedGvQ({
|
|
61
|
-
holder,
|
|
62
|
-
vocabApi: getVocabApi(lst),
|
|
63
|
-
term,
|
|
64
|
-
skipLabel: "Continue without one",
|
|
65
|
-
callback: () => {
|
|
66
|
-
}
|
|
67
|
-
});
|
|
68
|
-
test.equal(shown, true, "should report that the caller must wait for a choice");
|
|
69
|
-
test.equal(holder.style("display"), "block", "should show the holder");
|
|
70
|
-
const options = holder.selectAll(".sja_menuoption").nodes();
|
|
71
|
-
test.deepEqual(
|
|
72
|
-
options.map((n) => n.textContent),
|
|
73
|
-
["BCR-ABL1 fusion / Others", "BCR-JAK2 fusion / Others", "Continue without one"],
|
|
74
|
-
"should offer each setting, then the way to decline them"
|
|
75
|
-
);
|
|
76
|
-
test.equal(
|
|
77
|
-
holder.selectAll('[data-testid="sjpp-genevariant-rememberedQ"]').size(),
|
|
78
|
-
2,
|
|
79
|
-
"should mark only the remembered settings"
|
|
80
|
-
);
|
|
81
|
-
test.ok(
|
|
82
|
-
options.every((n) => n.getAttribute("tabindex") == "0" && n.getAttribute("role") == "button"),
|
|
83
|
-
"should make every option keyboard operable"
|
|
84
|
-
);
|
|
85
|
-
test.equal(document.activeElement, options[0], "should focus the most recent setting");
|
|
86
|
-
options[0].dispatchEvent(new KeyboardEvent("keydown", { key: "ArrowUp", bubbles: true }));
|
|
87
|
-
test.equal(document.activeElement, options[2], "should wrap when arrowing past the first option");
|
|
88
|
-
holder.remove();
|
|
89
|
-
test.end();
|
|
90
|
-
});
|
|
91
|
-
(0, import_tape.default)("orders the settings by the selected mutation type", (test) => {
|
|
92
|
-
const cnvEntry = { label: "CNV groups", q: getQ([{ dt: dtcnv }]) };
|
|
93
|
-
const snvindelEntry = { label: "Somatic SNV/indel groups", q: getQ([{ dt: dtsnvindel, origin: "somatic" }]) };
|
|
94
|
-
const allelicEntry = { label: "Bi-allelic / Mono-allelic", q: getQ([{ dt: dtsnvindel }, { dt: dtcnv }]) };
|
|
95
|
-
const remembered = [cnvEntry, snvindelEntry, allelicEntry];
|
|
96
|
-
const getLabels = (holder) => holder.selectAll(".sja_menuoption").nodes().map((n) => n.textContent);
|
|
97
|
-
{
|
|
98
|
-
const holder = getHolder();
|
|
99
|
-
mayShowRememberedGvQ({
|
|
100
|
-
holder,
|
|
101
|
-
vocabApi: getVocabApi(remembered),
|
|
102
|
-
term,
|
|
103
|
-
mutationType: { dt: dtsnvindel, origin: "somatic" },
|
|
104
|
-
skipLabel: "Continue with SNV/indel (somatic)",
|
|
105
|
-
callback: () => {
|
|
106
|
-
}
|
|
107
|
-
});
|
|
108
|
-
test.deepEqual(
|
|
109
|
-
getLabels(holder),
|
|
110
|
-
["Somatic SNV/indel groups", "CNV groups", "Bi-allelic / Mono-allelic", "Continue with SNV/indel (somatic)"],
|
|
111
|
-
"should lead with the setting built for the selected mutation type, keeping the rest in order"
|
|
112
|
-
);
|
|
113
|
-
test.equal(
|
|
114
|
-
document.activeElement,
|
|
115
|
-
holder.selectAll(".sja_menuoption").nodes()[0],
|
|
116
|
-
"should focus the leading setting"
|
|
117
|
-
);
|
|
118
|
-
holder.remove();
|
|
119
|
-
}
|
|
120
|
-
{
|
|
121
|
-
const holder = getHolder();
|
|
122
|
-
mayShowRememberedGvQ({
|
|
123
|
-
holder,
|
|
124
|
-
vocabApi: getVocabApi(remembered),
|
|
125
|
-
term,
|
|
126
|
-
mutationType: { dts: [dtsnvindel, dtcnv] },
|
|
127
|
-
skipLabel: "Continue with Bi/mono-allelic",
|
|
128
|
-
callback: () => {
|
|
129
|
-
}
|
|
130
|
-
});
|
|
131
|
-
test.deepEqual(
|
|
132
|
-
getLabels(holder)[0],
|
|
133
|
-
"Bi-allelic / Mono-allelic",
|
|
134
|
-
"should lead with the setting filtering by the same dts as a multi-dt mutation type"
|
|
135
|
-
);
|
|
136
|
-
holder.remove();
|
|
137
|
-
}
|
|
138
|
-
{
|
|
139
|
-
const holder = getHolder();
|
|
140
|
-
mayShowRememberedGvQ({
|
|
141
|
-
holder,
|
|
142
|
-
vocabApi: getVocabApi(remembered),
|
|
143
|
-
term,
|
|
144
|
-
mutationType: { dt: dtfusionrna },
|
|
145
|
-
skipLabel: "Continue with Fusion RNA",
|
|
146
|
-
callback: () => {
|
|
147
|
-
}
|
|
148
|
-
});
|
|
149
|
-
test.deepEqual(
|
|
150
|
-
getLabels(holder),
|
|
151
|
-
["Continue with Fusion RNA", "CNV groups", "Somatic SNV/indel groups", "Bi-allelic / Mono-allelic"],
|
|
152
|
-
"should lead with the mutation type when nothing was remembered for it"
|
|
153
|
-
);
|
|
154
|
-
test.equal(
|
|
155
|
-
document.activeElement,
|
|
156
|
-
holder.selectAll(".sja_menuoption").nodes()[0],
|
|
157
|
-
"should focus the way to continue with the mutation type"
|
|
158
|
-
);
|
|
159
|
-
test.equal(
|
|
160
|
-
holder.selectAll('[data-testid="sjpp-genevariant-rememberedQ"]').size(),
|
|
161
|
-
3,
|
|
162
|
-
"should still mark only the remembered settings"
|
|
163
|
-
);
|
|
164
|
-
holder.remove();
|
|
165
|
-
}
|
|
166
|
-
test.end();
|
|
167
|
-
});
|
|
168
|
-
(0, import_tape.default)("picks a setting, or declines them", (test) => {
|
|
169
|
-
const picked = [];
|
|
170
|
-
const holder = getHolder();
|
|
171
|
-
mayShowRememberedGvQ({
|
|
172
|
-
holder,
|
|
173
|
-
vocabApi: getVocabApi(lst),
|
|
174
|
-
term,
|
|
175
|
-
skipLabel: "Continue without one",
|
|
176
|
-
callback: (q) => {
|
|
177
|
-
picked.push(q);
|
|
178
|
-
}
|
|
179
|
-
});
|
|
180
|
-
const options = holder.selectAll(".sja_menuoption").nodes();
|
|
181
|
-
options[1].dispatchEvent(new KeyboardEvent("keydown", { key: "Enter", bubbles: true }));
|
|
182
|
-
test.deepEqual(picked[0], lst[1].q, "should call back with the q of the picked setting");
|
|
183
|
-
options[2].click();
|
|
184
|
-
test.equal(picked[1], void 0, "should call back with nothing when the settings are declined");
|
|
185
|
-
holder.remove();
|
|
186
|
-
test.end();
|
|
187
|
-
});
|
|
188
|
-
(0, import_tape.default)("renders nothing when there is nothing to offer", (test) => {
|
|
189
|
-
const holder = getHolder();
|
|
190
|
-
test.equal(
|
|
191
|
-
mayShowRememberedGvQ({ holder, vocabApi: getVocabApi(), term, skipLabel: "x", callback: () => {
|
|
192
|
-
} }),
|
|
193
|
-
false,
|
|
194
|
-
"should offer nothing in a host app that does not remember settings"
|
|
195
|
-
);
|
|
196
|
-
test.equal(
|
|
197
|
-
mayShowRememberedGvQ({ holder, vocabApi: getVocabApi([]), term, skipLabel: "x", callback: () => {
|
|
198
|
-
} }),
|
|
199
|
-
false,
|
|
200
|
-
"should offer nothing when the term has none remembered"
|
|
201
|
-
);
|
|
202
|
-
mayShowRememberedGvQ({ holder, vocabApi: getVocabApi(lst), term, skipLabel: "x", callback: () => {
|
|
203
|
-
} });
|
|
204
|
-
mayShowRememberedGvQ({ holder, vocabApi: getVocabApi(), term, skipLabel: "x", callback: () => {
|
|
205
|
-
} });
|
|
206
|
-
test.equal(holder.selectAll(".sja_menuoption").size(), 0, "should clear options left from a previous gene");
|
|
207
|
-
test.equal(holder.style("display"), "none", "should hide the holder again");
|
|
208
|
-
holder.remove();
|
|
209
|
-
test.end();
|
|
210
|
-
});
|
|
211
|
-
//# sourceMappingURL=rememberedGvQ.unit.spec-RLLLWU5M.js.map
|
package/dist/render-LR5BOYW6.js
DELETED
|
@@ -1,33 +0,0 @@
|
|
|
1
|
-
import {
|
|
2
|
-
renderGeomap
|
|
3
|
-
} from "./chunk-M367Y7ML.js";
|
|
4
|
-
import "./chunk-QJ3HYZH3.js";
|
|
5
|
-
import "./chunk-HJ6L54YS.js";
|
|
6
|
-
import "./chunk-KV4W2ACA.js";
|
|
7
|
-
import "./chunk-DMWOK4DS.js";
|
|
8
|
-
import "./chunk-ELJX3QIQ.js";
|
|
9
|
-
import "./chunk-5IMFPVGT.js";
|
|
10
|
-
import "./chunk-EEB5VE2A.js";
|
|
11
|
-
import "./chunk-6RRZRISL.js";
|
|
12
|
-
import "./chunk-2KM4PRQM.js";
|
|
13
|
-
import "./chunk-VMRO6DMC.js";
|
|
14
|
-
import "./chunk-HKKTNIMX.js";
|
|
15
|
-
import "./chunk-GMRIEUBW.js";
|
|
16
|
-
import "./chunk-4EZLVENZ.js";
|
|
17
|
-
import "./chunk-WINIL2KN.js";
|
|
18
|
-
import "./chunk-PF4DSFDR.js";
|
|
19
|
-
import "./chunk-7X6NF7NI.js";
|
|
20
|
-
import "./chunk-W5J3LTYS.js";
|
|
21
|
-
import "./chunk-Z2ZITHT4.js";
|
|
22
|
-
import "./chunk-4OLM3KSB.js";
|
|
23
|
-
import "./chunk-FXQXCOII.js";
|
|
24
|
-
import "./chunk-TLT4YIG3.js";
|
|
25
|
-
import "./chunk-5R63Q5KH.js";
|
|
26
|
-
import "./chunk-I6Y4O3RR.js";
|
|
27
|
-
import "./chunk-Q5RDQNIT.js";
|
|
28
|
-
import "./chunk-DQC5FFGV.js";
|
|
29
|
-
import "./chunk-HS5PO5ZQ.js";
|
|
30
|
-
export {
|
|
31
|
-
renderGeomap
|
|
32
|
-
};
|
|
33
|
-
//# sourceMappingURL=render-LR5BOYW6.js.map
|