@sjcrh/proteinpaint-client 2.182.1 → 2.183.1

package/dist/customdata.inputui-PBA5LZRT.js

@@ -0,0 +1,287 @@
+import {
+  mclasscolor2table
+} from "./chunk-2LCTMDCS.js";
+import {
+  aa2gmcoord,
+  rna2gmcoord
+} from "./chunk-HJ6L54YS.js";
+import "./chunk-E5JQ3PN6.js";
+import {
+  dofetch3
+} from "./chunk-RCYTUKAJ.js";
+import "./chunk-A6TQGNDQ.js";
+import "./chunk-HYZG6OPC.js";
+import "./chunk-FN5XPUPH.js";
+import "./chunk-LSEFWW72.js";
+import "./chunk-5EF5U7MX.js";
+import "./chunk-IQIXGTQV.js";
+import "./chunk-UCLS2SVB.js";
+import "./chunk-MVTCBVSX.js";
+import "./chunk-F6V4AYWP.js";
+import "./chunk-5OHXYXLD.js";
+import "./chunk-DQC5FFGV.js";
+import "./chunk-JOT4WDJE.js";
+import "./chunk-OTCYJP7G.js";
+import "./chunk-GXINX3WK.js";
+import "./chunk-SOED2SLH.js";
+import {
+  dtcnv,
+  dtfusionrna,
+  dtsnvindel,
+  mclass,
+  mclasscnvgain,
+  mclasscnvloss,
+  mclassfusionrna
+} from "./chunk-XRVBHNCW.js";
+import "./chunk-BEWDIM6H.js";
+import "./chunk-IH7ILDJS.js";
+import "./chunk-LOZEKOES.js";
+import "./chunk-TOU7EVFQ.js";
+import "./chunk-OAWQ6LOO.js";
+import "./chunk-SEEYV6P2.js";
+import "./chunk-NDWTN4U5.js";
+import "./chunk-OMR2DT66.js";
+import "./chunk-HFNDKYVF.js";
+
+// mds3/customdata.inputui.js
+function customdata_inputui_default(block) {
+  if (!block.usegm) {
+    return;
+  }
+  const div = block.tip.d.append("div").style("margin", "20px");
+  div.append("p").text(`Add mutation and/or fusion to show over ${block.usegm.name} ${block.usegm.isoform}`);
+  const textarea2 = div.append("textarea").attr("cols", "50").attr("rows", "5").property("placeholder", "Enter data");
+  textarea2.node().focus();
+  const nameinput = div.append("div").append("input").attr("type", "text").style("width", "130px").property("placeholder", "Dataset name");
+  const row = div.append("div").style("margin-top", "5px");
+  const select = row.append("select");
+  select.append("option").text("Codon position");
+  select.append("option").text("RNA position");
+  select.append("option").text("Genomic position");
+  row.append("button").style("margin-left", "5px").text("Submit").on("click", async () => {
+    const v = textarea2.property("value");
+    if (v == "") return;
+    says.style("display", "none");
+    const selecti = select.node().selectedIndex, mlst = [], bad = [];
+    for (const line0 of v.trim().split("\n")) {
+      const line = line0.trim();
+      if (!line) continue;
+      const l = line.split(line.includes("	") ? "	" : line.includes(",") ? "," : " ");
+      try {
+        if (l.length == 3 || l.length == 4) {
+          if (Number.isFinite(Number(l[2]))) {
+            parseCnv(l, mlst, selecti, block);
+          } else {
+            parseMutation(l, mlst, selecti, block);
+          }
+          continue;
+        }
+        if (l.length == 6 || l.length == 7) {
+          await parseFusion(l, mlst, selecti, block);
+          continue;
+        }
+        throw `Line="${l}" does not match the mutation, fusion, or cnv format. Please review.`;
+      } catch (e) {
+        bad.push(line + ": " + (e.message || e));
+      }
+    }
+    if (mlst.find((m) => m.sample) && mlst.find((m) => !m.sample)) {
+      bad.push("sample name is provided for some but not all variants");
+    }
+    if (bad.length) {
+      says.style("display", "block").text("Rejected: " + bad.join("\n"));
+    }
+    if (mlst.length == 0) return;
+    const tk = block.block_addtk_template({
+      type: "mds3",
+      name: nameinput.property("value") || "Custom data",
+      iscustom: true,
+      custom_variants: mlst
+    });
+    block.tk_load(tk);
+  });
+  row.append("button").text("Clear").style("margin-left", "5px").on("click", () => {
+    textarea2.property("value", "");
+    nameinput.property("value", "");
+  });
+  const says = div.append("div").style("display", "none", "margin-top", "20px");
+  printHelp(div);
+}
+function parseMutation(l, mlst, selecti, block) {
+  const _class = l[2].trim();
+  if (!mclass[_class]) throw `Invalid mutation class=${_class}`;
+  const m = {
+    class: _class,
+    dt: dtsnvindel,
+    isoform: block.usegm.isoform,
+    mname: l[0].trim()
+  };
+  if (!m.mname) throw "missing mutation name";
+  const o = parsePositionFromGm(selecti, l[1].trim(), block.usegm);
+  m.chr = o[0];
+  m.pos = o[1];
+  if (l[3]) m.sample = l[3];
+  mlst.push(m);
+}
+async function parseFusion(l, mlst, selecti, block) {
+  const m = {
+    class: mclassfusionrna,
+    dt: dtfusionrna
+    // compute and assign gene1/2, chr1/2, pos1/2
+  };
+  if (l[6]) m.sample = l[6];
+  const [gene1, isoform1, pos1, gene2, isoform2, pos2] = l;
+  if (!gene1) throw "gene1 is missing";
+  if (!gene2) throw "gene2 is missing";
+  if (!isoform1) throw "isoform1 is missing";
+  if (!isoform2) throw "isoform2 is missing";
+  if (!pos1) throw "pos1 is missing";
+  if (!pos2) throw "pos2 is missing";
+  {
+    const d = await dofetch3("genelookup", { body: { deep: 1, genome: block.genome.name, input: gene1 } });
+    if (d.error) throw "invalid gene1";
+    const gm = d.gmlst.find((i) => i.isoform == isoform1);
+    if (!gm) throw "invalid isoform1";
+    m.gene1 = gene1;
+    m.chr1 = gm.chr;
+    const o = parsePositionFromGm(selecti, pos1, gm);
+    m.pos1 = o[1];
+    m.strand1 = gm.strand;
+    m.isoform1 = isoform1;
+  }
+  {
+    const d = await dofetch3("genelookup", { body: { deep: 1, genome: block.genome.name, input: gene2 } });
+    if (d.error) throw "invalid gene2";
+    const gm = d.gmlst.find((i) => i.isoform == isoform2);
+    if (!gm) throw "invalid isoform2";
+    m.gene2 = gene2;
+    m.chr2 = gm.chr;
+    const o = parsePositionFromGm(selecti, pos2, gm);
+    m.pos2 = o[1];
+    m.strand2 = gm.strand;
+    m.isoform2 = isoform2;
+  }
+  mlst.push(m);
+}
+function parseCnv(l, mlst, selecti, block) {
+  const value = Number(l[2].trim());
+  if (!Number.isFinite(value)) throw "CNV value is not number";
+  const m = {
+    chr: block.usegm.chr,
+    dt: dtcnv,
+    value,
+    class: value > 0 ? mclasscnvgain : mclasscnvloss
+  };
+  if (l[3]) m.sample = l[3];
+  const a = parsePositionFromGm(selecti, l[0].trim(), block.usegm), b = parsePositionFromGm(selecti, l[1].trim(), block.usegm);
+  m.start = Math.min(a[1], b[1]);
+  m.stop = Math.max(a[1], b[1]);
+  mlst.push(m);
+}
+function parsePositionFromGm(selecti, str, gm) {
+  const value = parseInputPosition(str, gm.chr);
+  if (!Number.isInteger(value)) throw "position is not integer";
+  if (selecti == 0) {
+    const p = aa2gmcoord(value, gm);
+    if (p == null) throw "cannot convert codon to genomic position";
+    return [gm.chr, p];
+  }
+  if (selecti == 1) {
+    const p = rna2gmcoord(value, gm);
+    if (p == null) throw "cannot convert RNA position to genomic position";
+    return [gm.chr, p];
+  }
+  if (selecti == 2) {
+    return [gm.chr, value - 1];
+  }
+  throw "unknown selection";
+}
+function parseInputPosition(str, chr) {
+  let value;
+  if (str.includes(":")) {
+    const tmp = str.split(":");
+    if (tmp[0] != chr) throw `Included chromosome=${tmp[0]} does not match current chromosome position=${chr}`;
+    value = Number(tmp[1]);
+  } else {
+    value = Number(str);
+  }
+  return value;
+}
+function printHelp(div) {
+  {
+    const [label, infodiv] = makeHelpDiv(div);
+    label.text("Mutation format: mutation name, position, class, sample");
+    infodiv.html(
+      `One mutation per line. Fields are joined by tab, comma or space. Please do not use both comma and space as separator.
+		<ol>
+			<li>Mutation name, can be any string</li>
+			<li>Mutation position</li>
+			<li>Mutation class code</li>
+			<li>Optional sample name</li>
+		</ol>
+		Position types:
+		<ul><li>Codon position: integer, 1-based (do not use for noncoding gene)</li>
+		<li>RNA position: integer, 1-based, beginning from transcription start site</li>
+		<li>Genomic position: integer, 1-based coordinate</li></ul>`
+    );
+    mclasscolor2table(infodiv.append("table").style("margin-top", "3px"), true);
+  }
+  {
+    const [label, infodiv] = makeHelpDiv(div);
+    label.text("SV/fusion format: gene1, isoform1, position1, gene2, isoform2, position2, sample");
+    infodiv.html(
+      `Limited to two-gene fusion products. One product per line.
+			Fields are joined by tab, comma or space. Please do not use both comma and space as separator.
+		<ol><li>N-term gene symbol</li>
+		<li>N-term gene isoform</li>
+		<li>N-term gene break-end position</li>
+		<li>C-term gene symbol</li>
+		<li>C-term gene isoform</li>
+		<li>C-term gene break-end position</li>
+		<li>Optional sample name</li>
+		</ol>
+		Break-end position types:
+		<ul><li>Codon position: integer, 1-based</li>
+		<li>RNA position: integer, 1-based, beginning from transcription start site</li>
+		<li>Genomic position: 1-based coordinate</li></ul>
+		Either one of the isoforms must be already displayed.`
+    );
+  }
+  {
+    const [label, infodiv] = makeHelpDiv(div);
+    label.text("CNV format: segment start, segment stop, CNV value, sample");
+    infodiv.html(
+      `One CNV segment per line. Fields are joined by tab, comma or space. Please do not use both comma and space as separator.
+		<ol>
+			<li>Segment start position</li>
+			<li>Segment stop position</li>
+			<li>Copy number change value, positive value for gain, negative value for loss. Do not use 0</li>
+			<li>Optional sample name</li>
+		</ol>
+		Position types:
+		<ul><li>Codon position: integer, 1-based (do not use for noncoding gene)</li>
+		<li>RNA position: integer, 1-based, beginning from transcription start site</li>
+		<li>Genomic position: integer, 1-based coordinate</li></ul>`
+    );
+  }
+}
+function makeHelpDiv(div) {
+  const p = div.append("p");
+  const label = p.append("span").style("opacity", 0.6);
+  p.append("span").attr("class", "sja_clbtext").style("margin-left", "10px").text("Show details").on("click", (event) => {
+    const show = infodiv.style("display") == "none";
+    infodiv.style("display", show ? "" : "none");
+    event.target.innerHTML = show ? "Hide details" : "Show details";
+  });
+  const infodiv = div.append("div").style("display", "none").style("margin-left", "20px").style("padding-left", "10px").style("border-left", "solid 1px black").style("color", "#858585");
+  return [label, infodiv];
+}
+export {
+  customdata_inputui_default as default,
+  parseCnv,
+  parseFusion,
+  parseInputPosition,
+  parseMutation,
+  parsePositionFromGm
+};
+//# sourceMappingURL=customdata.inputui-PBA5LZRT.js.map

package/dist/customdata.inputui-PBA5LZRT.js.map

@@ -0,0 +1,7 @@
+{
+  "version": 3,
+  "sources": ["../mds3/customdata.inputui.js"],
+  "sourcesContent": ["import { mclasscolor2table } from '#src/client'\nimport { dofetch3 } from '#common/dofetch'\nimport * as common from '#shared/common.js'\nimport * as coord from '#src/coord'\n\n/*\nui only works for gm mode\n\nTODO\n- allow it to for genomic mode too, so can input custom data for \n- reuse ui on appdrawer card\n*/\n\nexport default function (block) {\n\tif (!block.usegm) {\n\t\treturn\n\t}\n\tconst div = block.tip.d.append('div').style('margin', '20px')\n\n\tdiv.append('p').text(`Add mutation and/or fusion to show over ${block.usegm.name} ${block.usegm.isoform}`)\n\n\tconst textarea = div.append('textarea').attr('cols', '50').attr('rows', '5').property('placeholder', 'Enter data')\n\ttextarea.node().focus()\n\n\tconst nameinput = div\n\t\t.append('div')\n\t\t.append('input')\n\t\t.attr('type', 'text')\n\t\t.style('width', '130px')\n\t\t.property('placeholder', 'Dataset name')\n\n\tconst row = div.append('div').style('margin-top', '5px')\n\tconst select = row.append('select')\n\tselect.append('option').text('Codon position')\n\tselect.append('option').text('RNA position')\n\tselect.append('option').text('Genomic position')\n\trow\n\t\t.append('button')\n\t\t.style('margin-left', '5px')\n\t\t.text('Submit')\n\t\t.on('click', async () => {\n\t\t\tconst v = textarea.property('value')\n\t\t\tif (v == '') return\n\t\t\tsays.style('display', 'none')\n\t\t\tconst selecti = select.node().selectedIndex,\n\t\t\t\tmlst = [], // array of custom variants passing filter, for all types\n\t\t\t\tbad = []\n\n\t\t\tfor (const line0 of v.trim().split('\\n')) {\n\t\t\t\tconst line = line0.trim()\n\t\t\t\tif (!line) continue // skip empty line\n\n\t\t\t\t// tab has high priority as it will allow comma and space in mutation name\n\t\t\t\t// comma has 2nd priority as user may use spaces after commas\n\t\t\t\tconst l = line.split(line.includes('\\t') ? '\\t' : line.includes(',') ? ',' : ' ')\n\n\t\t\t\t// each data type has different number of fields. having or not having sample will cause variable number of fields\n\t\t\t\ttry {\n\t\t\t\t\tif (l.length == 3 || l.length == 4) {\n\t\t\t\t\t\t// cnv and ssm could both be 3 or 4 fields\n\t\t\t\t\t\tif (Number.isFinite(Number(l[2]))) {\n\t\t\t\t\t\t\t// 3rd field is number, must be cnv. as mutation class cannot be number\n\t\t\t\t\t\t\tparseCnv(l, mlst, selecti, block)\n\t\t\t\t\t\t} else {\n\t\t\t\t\t\t\tparseMutation(l, mlst, selecti, block)\n\t\t\t\t\t\t}\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t\tif (l.length == 6 || l.length == 7) {\n\t\t\t\t\t\t// 6 or 7 fields must be fusion: gene1, isoform1, pos1, gene2, isoform2, pos2, sample\n\t\t\t\t\t\tawait parseFusion(l, mlst, selecti, block)\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t\tthrow `Line=\"${l}\" does not match the mutation, fusion, or cnv format. Please review.`\n\t\t\t\t} catch (e) {\n\t\t\t\t\tbad.push(line + ': ' + (e.message || e))\n\t\t\t\t}\n\t\t\t}\n\n\t\t\tif (mlst.find(m => m.sample) && mlst.find(m => !m.sample)) {\n\t\t\t\t// at least 1 item has sample. then all items must have sample\n\t\t\t\tbad.push('sample name is provided for some but not all variants')\n\t\t\t}\n\n\t\t\tif (bad.length) {\n\t\t\t\tsays.style('display', 'block').text('Rejected: ' + bad.join('\\n'))\n\t\t\t}\n\t\t\tif (mlst.length == 0) return\n\n\t\t\tconst tk = block.block_addtk_template({\n\t\t\t\ttype: 'mds3',\n\t\t\t\tname: nameinput.property('value') || 'Custom data',\n\t\t\t\tiscustom: true,\n\t\t\t\tcustom_variants: mlst\n\t\t\t})\n\t\t\tblock.tk_load(tk)\n\t\t})\n\trow\n\t\t.append('button')\n\t\t.text('Clear')\n\t\t.style('margin-left', '5px')\n\t\t.on('click', () => {\n\t\t\ttextarea.property('value', '')\n\t\t\tnameinput.property('value', '')\n\t\t})\n\n\t// div to show bad lines after parsing\n\tconst says = div.append('div').style('display', 'none', 'margin-top', '20px')\n\n\tprintHelp(div)\n}\n\nexport function parseMutation(l, mlst, selecti, block) {\n\t// mutation: aachange, pos, class, sample\n\tconst _class = l[2].trim()\n\tif (!common.mclass[_class]) throw `Invalid mutation class=${_class}`\n\tconst m = {\n\t\tclass: _class,\n\t\tdt: common.dtsnvindel,\n\t\tisoform: block.usegm.isoform,\n\t\tmname: l[0].trim()\n\t}\n\tif (!m.mname) throw 'missing mutation name'\n\tconst o = parsePositionFromGm(selecti, l[1].trim(), block.usegm)\n\tm.chr = o[0]\n\tm.pos = o[1]\n\tif (l[3]) m.sample = l[3] // line has optional sample\n\tmlst.push(m)\n}\n\nexport async function parseFusion(l, mlst, selecti, block) {\n\tconst m = {\n\t\tclass: common.mclassfusionrna,\n\t\tdt: common.dtfusionrna\n\t\t// compute and assign gene1/2, chr1/2, pos1/2\n\t}\n\tif (l[6]) m.sample = l[6] // line has optional sample\n\n\tconst [gene1, isoform1, pos1, gene2, isoform2, pos2] = l\n\tif (!gene1) throw 'gene1 is missing'\n\tif (!gene2) throw 'gene2 is missing'\n\tif (!isoform1) throw 'isoform1 is missing'\n\tif (!isoform2) throw 'isoform2 is missing'\n\tif (!pos1) throw 'pos1 is missing'\n\tif (!pos2) throw 'pos2 is missing'\n\n\t// chr and coordinate of each breakpoint are not given. to compute, require one of gene1/2 to be block.usegm and query server to fetch gmlst for the other one\n\t{\n\t\tconst d = await dofetch3('genelookup', { body: { deep: 1, genome: block.genome.name, input: gene1 } })\n\t\tif (d.error) throw 'invalid gene1'\n\t\tconst gm = d.gmlst.find(i => i.isoform == isoform1)\n\t\tif (!gm) throw 'invalid isoform1'\n\t\tm.gene1 = gene1\n\t\tm.chr1 = gm.chr\n\t\tconst o = parsePositionFromGm(selecti, pos1, gm)\n\t\tm.pos1 = o[1]\n\t\tm.strand1 = gm.strand\n\t\tm.isoform1 = isoform1\n\t}\n\t{\n\t\tconst d = await dofetch3('genelookup', { body: { deep: 1, genome: block.genome.name, input: gene2 } })\n\t\tif (d.error) throw 'invalid gene2'\n\t\tconst gm = d.gmlst.find(i => i.isoform == isoform2)\n\t\tif (!gm) throw 'invalid isoform2'\n\t\tm.gene2 = gene2\n\t\tm.chr2 = gm.chr\n\t\tconst o = parsePositionFromGm(selecti, pos2, gm)\n\t\tm.pos2 = o[1]\n\t\tm.strand2 = gm.strand\n\t\tm.isoform2 = isoform2\n\t}\n\tmlst.push(m)\n}\n\nexport function parseCnv(l, mlst, selecti, block) {\n\tconst value = Number(l[2].trim())\n\tif (!Number.isFinite(value)) throw 'CNV value is not number'\n\tconst m = {\n\t\tchr: block.usegm.chr,\n\t\tdt: common.dtcnv,\n\t\tvalue,\n\t\tclass: value > 0 ? common.mclasscnvgain : common.mclasscnvloss\n\t}\n\tif (l[3]) m.sample = l[3]\n\n\t// must assign start/stop this way to handle case when gene is on reverse strand, and using codon as coordinate\n\tconst a = parsePositionFromGm(selecti, l[0].trim(), block.usegm),\n\t\tb = parsePositionFromGm(selecti, l[1].trim(), block.usegm)\n\tm.start = Math.min(a[1], b[1])\n\tm.stop = Math.max(a[1], b[1])\n\n\tmlst.push(m)\n}\n\n/*\nargs:\n\tselecti=int\n\t\t0= str value should be codon\n\t\t1= str value should be rna position\n\t\t2= str value should be chromosomal position\n\tstr=string\n\t\tinput string to be cast into a number and used above\n\tgm={}\n\t\tgene model for a specific isoform, to map the given position against it and return chr/pos\nreturns:\n\t[chr, pos]\nthrows on any err\n*/\nexport function parsePositionFromGm(selecti, str, gm) {\n\tconst value = parseInputPosition(str, gm.chr)\n\tif (!Number.isInteger(value)) throw 'position is not integer'\n\tif (selecti == 0) {\n\t\tconst p = coord.aa2gmcoord(value, gm)\n\t\tif (p == null) throw 'cannot convert codon to genomic position'\n\t\treturn [gm.chr, p]\n\t}\n\tif (selecti == 1) {\n\t\tconst p = coord.rna2gmcoord(value, gm)\n\t\tif (p == null) throw 'cannot convert RNA position to genomic position'\n\t\treturn [gm.chr, p]\n\t}\n\tif (selecti == 2) {\n\t\treturn [gm.chr, value - 1]\n\t}\n\tthrow 'unknown selection'\n}\n\nexport function parseInputPosition(str, chr) {\n\tlet value\n\tif (str.includes(':')) {\n\t\t/** Allows users to submit the customary `chr##:`\n\t\t * position to avoid confusion.\n\t\t */\n\t\tconst tmp = str.split(':')\n\t\tif (tmp[0] != chr) throw `Included chromosome=${tmp[0]} does not match current chromosome position=${chr}`\n\t\tvalue = Number(tmp[1])\n\t} else {\n\t\tvalue = Number(str)\n\t}\n\treturn value\n}\n\n// instructions for mutation\nfunction printHelp(div) {\n\t{\n\t\tconst [label, infodiv] = makeHelpDiv(div)\n\t\tlabel.text('Mutation format: mutation name, position, class, sample')\n\t\tinfodiv.html(\n\t\t\t`One mutation per line. Fields are joined by tab, comma or space. Please do not use both comma and space as separator.\n\t\t<ol>\n\t\t\t<li>Mutation name, can be any string</li>\n\t\t\t<li>Mutation position</li>\n\t\t\t<li>Mutation class code</li>\n\t\t\t<li>Optional sample name</li>\n\t\t</ol>\n\t\tPosition types:\n\t\t<ul><li>Codon position: integer, 1-based (do not use for noncoding gene)</li>\n\t\t<li>RNA position: integer, 1-based, beginning from transcription start site</li>\n\t\t<li>Genomic position: integer, 1-based coordinate</li></ul>`\n\t\t)\n\t\tmclasscolor2table(infodiv.append('table').style('margin-top', '3px'), true)\n\t}\n\t{\n\t\tconst [label, infodiv] = makeHelpDiv(div)\n\t\tlabel.text('SV/fusion format: gene1, isoform1, position1, gene2, isoform2, position2, sample')\n\t\tinfodiv.html(\n\t\t\t`Limited to two-gene fusion products. One product per line.\n\t\t\tFields are joined by tab, comma or space. Please do not use both comma and space as separator.\n\t\t<ol><li>N-term gene symbol</li>\n\t\t<li>N-term gene isoform</li>\n\t\t<li>N-term gene break-end position</li>\n\t\t<li>C-term gene symbol</li>\n\t\t<li>C-term gene isoform</li>\n\t\t<li>C-term gene break-end position</li>\n\t\t<li>Optional sample name</li>\n\t\t</ol>\n\t\tBreak-end position types:\n\t\t<ul><li>Codon position: integer, 1-based</li>\n\t\t<li>RNA position: integer, 1-based, beginning from transcription start site</li>\n\t\t<li>Genomic position: 1-based coordinate</li></ul>\n\t\tEither one of the isoforms must be already displayed.`\n\t\t)\n\t}\n\t{\n\t\tconst [label, infodiv] = makeHelpDiv(div)\n\t\tlabel.text('CNV format: segment start, segment stop, CNV value, sample')\n\t\tinfodiv.html(\n\t\t\t`One CNV segment per line. Fields are joined by tab, comma or space. Please do not use both comma and space as separator.\n\t\t<ol>\n\t\t\t<li>Segment start position</li>\n\t\t\t<li>Segment stop position</li>\n\t\t\t<li>Copy number change value, positive value for gain, negative value for loss. Do not use 0</li>\n\t\t\t<li>Optional sample name</li>\n\t\t</ol>\n\t\tPosition types:\n\t\t<ul><li>Codon position: integer, 1-based (do not use for noncoding gene)</li>\n\t\t<li>RNA position: integer, 1-based, beginning from transcription start site</li>\n\t\t<li>Genomic position: integer, 1-based coordinate</li></ul>`\n\t\t)\n\t}\n}\n\nfunction makeHelpDiv(div) {\n\tconst p = div.append('p')\n\tconst label = p.append('span').style('opacity', 0.6)\n\tp.append('span')\n\t\t.attr('class', 'sja_clbtext')\n\t\t.style('margin-left', '10px')\n\t\t.text('Show details')\n\t\t.on('click', event => {\n\t\t\tconst show = infodiv.style('display') == 'none'\n\t\t\tinfodiv.style('display', show ? '' : 'none')\n\t\t\tevent.target.innerHTML = show ? 'Hide details' : 'Show details'\n\t\t})\n\tconst infodiv = div\n\t\t.append('div')\n\t\t.style('display', 'none')\n\t\t.style('margin-left', '20px')\n\t\t.style('padding-left', '10px')\n\t\t.style('border-left', 'solid 1px black')\n\t\t.style('color', '#858585')\n\treturn [label, infodiv]\n}\n\n// itd not enabled\nfunction customdataui_itd(block, x, y) {\n\tblock.tip.clear()\n\tconst div = block.tip.d.append('div').style('margin', '25px')\n\tdiv.append('p').text('ITD events of ' + block.usegm.name + ' (' + block.genome.name + ')')\n\tdiv\n\t\t.append('p')\n\t\t.style('font-size', '.9em')\n\t\t.html('<span style=\"font-size:.8em;color:#aaa\">FORMAT</span> position1 ; position2/span')\n\tconst ta = div.append('textarea').attr('cols', '20').attr('rows', '5')\n\n\tconst nameinput = div\n\t\t.append('div')\n\t\t.append('input')\n\t\t.attr('type', 'text')\n\t\t.style('width', '130px')\n\t\t.property('placeholder', 'Dataset name')\n\n\tconst row = div.append('div').style('margin-top', '5px')\n\tconst select = row.append('select')\n\tselect.append('option').text('RNA position and basepair length of duplication')\n\tselect.append('option').text('Genomic start and stop position')\n\trow\n\t\t.append('button')\n\t\t.style('margin-left', '5px')\n\t\t.text('Submit')\n\t\t.on('click', () => {\n\t\t\tconst v = ta.property('value')\n\t\t\tif (v == '') return\n\t\t\tsays.style('display', 'none')\n\t\t\tconst mlst = []\n\t\t\tconst bad = []\n\t\t\tfor (const line of v.trim().split('\\n')) {\n\t\t\t\tconst l = line.split(';')\n\t\t\t\tif (l.length != 2) {\n\t\t\t\t\tbad.push(line + ': not two fields')\n\t\t\t\t\tcontinue\n\t\t\t\t}\n\t\t\t\tconst selecti = select.node().selectedIndex\n\t\t\t\tconst m = {\n\t\t\t\t\tclass: common.mclassitd,\n\t\t\t\t\tdt: common.dtitd,\n\t\t\t\t\tisoform: block.usegm.isoform,\n\t\t\t\t\tmname: 'ITD'\n\t\t\t\t}\n\t\t\t\tif (selecti == 0) {\n\t\t\t\t\tm.rnaposition = Number.parseInt(l[0].trim())\n\t\t\t\t\tif (Number.isNaN(m.rnaposition)) {\n\t\t\t\t\t\tbad.push(line + ': RNA position is not integer')\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t\tm.rnaduplength = Number.parseInt(l[1].trim())\n\t\t\t\t\tif (Number.isNaN(m.rnaduplength)) {\n\t\t\t\t\t\tbad.push(line + ': duplication length is not integer')\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t} else if (selecti == 1) {\n\t\t\t\t\tconst pos1 = Number.parseInt(l[0].trim())\n\t\t\t\t\tif (Number.isNaN(pos1)) {\n\t\t\t\t\t\tbad.push(line + ': genomic start position is not integer')\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t\tconst pos2 = Number.parseInt(l[1].trim())\n\t\t\t\t\tif (Number.isNaN(pos2)) {\n\t\t\t\t\t\tbad.push(line + ': genomic stop position is not integer')\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t\tlet t = coord.genomic2gm(pos1, block.usegm)\n\t\t\t\t\tconst rnapos1 = Math.ceil(t.rnapos)\n\t\t\t\t\tt = coord.genomic2gm(pos2, block.usegm)\n\t\t\t\t\tconst rnapos2 = Math.ceil(t.rnapos)\n\t\t\t\t\tm.rnaposition = Math.min(rnapos1, rnapos2)\n\t\t\t\t\tm.rnaduplength = Math.abs(rnapos1 - rnapos2)\n\t\t\t\t}\n\t\t\t\tmlst.push(m)\n\t\t\t}\n\t\t\tif (bad.length) {\n\t\t\t\tsays.style('display', 'block').text('Rejected: ' + bad.join('\\n'))\n\t\t\t}\n\t\t\tif (mlst.length == 0) return\n\t\t\tconst ds = {\n\t\t\t\tbulkdata: {},\n\t\t\t\tiscustom: true\n\t\t\t}\n\t\t\tds.bulkdata[block.usegm.name.toUpperCase()] = mlst\n\t\t\tconst label = nameinput.property('value') || 'custom ITD'\n\t\t\tds.label = label\n\t\t\tlet i = 0\n\t\t\twhile (block.ownds[ds.label]) {\n\t\t\t\tds.label = label + ' ' + ++i\n\t\t\t}\n\t\t\tblock.ownds[ds.label] = ds\n\t\t\t//block.dshandle_new(ds.label)\n\t\t\tconst tk = block.block_addtk_template({ type: 'dataset', ds: ds })\n\t\t\tblock.tk_load(tk)\n\t\t})\n\trow\n\t\t.append('button')\n\t\t.text('Clear')\n\t\t.style('margin-left', '5px')\n\t\t.on('click', () => {\n\t\t\tta.property('value', '')\n\t\t\tnameinput.property('value', '')\n\t\t})\n\tconst says = div.append('div').style('display', 'none', 'margin-top', '20px')\n\tdiv\n\t\t.append('div')\n\t\t.style('margin-top', '20px')\n\t\t.style('color', '#858585')\n\t\t.html(\n\t\t\t`One ITD per line.<br>\nEach line has two integer values joined by <strong>semicolon</strong>.<br>\nPosition types:\n<li>RNA position: integer, 1-based, beginning from transcription start site. Span of duplication is number of bases in the RNA.</li>\n<li>Genomic position: start and stop position of the ITD</li>`\n\t\t)\n}\n\n// not enabled\nfunction customdataui_del(block, x, y) {\n\tblock.tip.clear()\n\tconst div = block.tip.d.append('div').style('margin', '25px')\n\tdiv.append('p').text('Deletion events of ' + block.usegm.name + ' (' + block.genome.name + ')')\n\tdiv\n\t\t.append('p')\n\t\t.style('font-size', '.9em')\n\t\t.html('<span style=\"font-size:.8em;color:#aaa\">FORMAT</span> position1 ; position2/span')\n\tconst ta = div.append('textarea').attr('cols', '20').attr('rows', '5')\n\n\tconst nameinput = div\n\t\t.append('div')\n\t\t.append('input')\n\t\t.attr('type', 'text')\n\t\t.style('width', '130px')\n\t\t.property('placeholder', 'Dataset name')\n\n\tconst row = div.append('div').style('margin-top', '5px')\n\tconst select = row.append('select')\n\tselect.append('option').text('RNA position and basepair length of deletion')\n\tselect.append('option').text('Genomic start and stop position')\n\trow\n\t\t.append('button')\n\t\t.style('margin-left', '5px')\n\t\t.text('Submit')\n\t\t.on('click', () => {\n\t\t\tconst v = ta.property('value')\n\t\t\tif (v == '') return\n\t\t\tsays.style('display', 'none')\n\t\t\tconst mlst = []\n\t\t\tconst bad = []\n\t\t\tfor (const line of v.trim().split('\\n')) {\n\t\t\t\tconst l = line.split(';')\n\t\t\t\tif (l.length != 2) {\n\t\t\t\t\tbad.push(line + ': not two fields')\n\t\t\t\t\tcontinue\n\t\t\t\t}\n\t\t\t\tconst selecti = select.node().selectedIndex\n\t\t\t\tconst m = {\n\t\t\t\t\tclass: common.mclassdel,\n\t\t\t\t\tdt: common.dtdel,\n\t\t\t\t\tisoform: block.usegm.isoform,\n\t\t\t\t\tmname: 'DEL'\n\t\t\t\t}\n\t\t\t\tif (selecti == 0) {\n\t\t\t\t\tm.rnaposition = Number.parseInt(l[0].trim())\n\t\t\t\t\tif (Number.isNaN(m.rnaposition)) {\n\t\t\t\t\t\tbad.push(line + ': RNA position is not integer')\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t\tm.rnadellength = Number.parseInt(l[1].trim())\n\t\t\t\t\tif (Number.isNaN(m.rnaduplength)) {\n\t\t\t\t\t\tbad.push(line + ': deletion length is not integer')\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t} else if (selecti == 1) {\n\t\t\t\t\tconst pos1 = Number.parseInt(l[0].trim())\n\t\t\t\t\tif (Number.isNaN(pos1)) {\n\t\t\t\t\t\tbad.push(line + ': genomic start position is not integer')\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t\tconst pos2 = Number.parseInt(l[1].trim())\n\t\t\t\t\tif (Number.isNaN(pos2)) {\n\t\t\t\t\t\tbad.push(line + ': genomic stop position is not integer')\n\t\t\t\t\t\tcontinue\n\t\t\t\t\t}\n\t\t\t\t\tlet t = coord.genomic2gm(pos1, block.usegm)\n\t\t\t\t\tconst rnapos1 = Math.ceil(t.rnapos)\n\t\t\t\t\tt = coord.genomic2gm(pos2, block.usegm)\n\t\t\t\t\tconst rnapos2 = Math.ceil(t.rnapos)\n\t\t\t\t\tm.rnaposition = Math.min(rnapos1, rnapos2)\n\t\t\t\t\tm.rnadellength = Math.abs(rnapos1 - rnapos2)\n\t\t\t\t}\n\t\t\t\tmlst.push(m)\n\t\t\t}\n\t\t\tif (bad.length) {\n\t\t\t\tsays.style('display', 'block').text('Rejected: ' + bad.join('\\n'))\n\t\t\t}\n\t\t\tif (mlst.length == 0) return\n\t\t\tconst ds = {\n\t\t\t\tbulkdata: {},\n\t\t\t\tiscustom: true\n\t\t\t}\n\t\t\tds.bulkdata[block.usegm.name.toUpperCase()] = mlst\n\t\t\tconst label = nameinput.property('value') || 'custom deletion'\n\t\t\tds.label = label\n\t\t\tlet i = 0\n\t\t\twhile (block.ownds[ds.label]) {\n\t\t\t\tds.label = label + ' ' + ++i\n\t\t\t}\n\t\t\tblock.ownds[ds.label] = ds\n\t\t\t//block.dshandle_new(ds.label)\n\t\t\tconst tk = block.block_addtk_template({ type: 'dataset', ds: ds })\n\t\t\tblock.tk_load(tk)\n\t\t})\n\trow\n\t\t.append('button')\n\t\t.text('Clear')\n\t\t.style('margin-left', '5px')\n\t\t.on('click', () => {\n\t\t\ttextarea.property('value', '')\n\t\t\tnameinput.property('value', '')\n\t\t})\n\tconst says = div.append('div').style('display', 'none', 'margin-top', '20px')\n\tdiv\n\t\t.append('div')\n\t\t.style('margin-top', '20px')\n\t\t.style('color', '#858585')\n\t\t.html(\n\t\t\t`One deletion per line.<br>\nEach line has two integer values joined by <strong>semicolon</strong>.<br>\nPosition types:\n<ul>\n<li>RNA position: integer, 1-based, beginning from transcription start site. Span of deletion is number of bases in the RNA.</li>\n<li>Genomic position: start and stop position of the deletion</li></ul>`\n\t\t)\n}\n"],
+  "mappings": 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+  "names": ["textarea"]
+}

package/dist/dataDownload-CRGQTCOW.js

@@ -0,0 +1,328 @@
+import {
+  fillTermWrapper,
+  sayerror,
+  termsettingInit
+} from "./chunk-2LCTMDCS.js";
+import "./chunk-HJ6L54YS.js";
+import "./chunk-E5JQ3PN6.js";
+import "./chunk-RCYTUKAJ.js";
+import "./chunk-A6TQGNDQ.js";
+import "./chunk-HYZG6OPC.js";
+import "./chunk-FN5XPUPH.js";
+import "./chunk-LSEFWW72.js";
+import "./chunk-5EF5U7MX.js";
+import "./chunk-IQIXGTQV.js";
+import "./chunk-UCLS2SVB.js";
+import {
+  copyMerge,
+  getCompInit
+} from "./chunk-MVTCBVSX.js";
+import "./chunk-F6V4AYWP.js";
+import "./chunk-5OHXYXLD.js";
+import "./chunk-DQC5FFGV.js";
+import "./chunk-JOT4WDJE.js";
+import "./chunk-OTCYJP7G.js";
+import "./chunk-GXINX3WK.js";
+import "./chunk-SOED2SLH.js";
+import "./chunk-XRVBHNCW.js";
+import "./chunk-BEWDIM6H.js";
+import "./chunk-IH7ILDJS.js";
+import "./chunk-LOZEKOES.js";
+import "./chunk-TOU7EVFQ.js";
+import "./chunk-OAWQ6LOO.js";
+import "./chunk-SEEYV6P2.js";
+import {
+  select_default
+} from "./chunk-NDWTN4U5.js";
+import "./chunk-OMR2DT66.js";
+import "./chunk-HFNDKYVF.js";
+
+// plots/dataDownload.js
+var DataDownload = class _DataDownload {
+  static type = "dataDownload";
+  constructor(opts) {
+    this.type = _DataDownload.type;
+    this.genomeObj = opts.app.opts.genome;
+    this.pillBy$id = {};
+  }
+  async init(appState) {
+    setInteractivity(this);
+    setRenderers(this);
+    this.dom = {
+      header: this.opts.header,
+      // header is optional
+      errordiv: this.opts.holder.append("div"),
+      titleDiv: this.opts.holder.append("div").style("margin", "10px"),
+      // the whole holder has white-space=nowrap (likely from sjpp-output-sandbox-content)
+      terms: this.opts.holder.append("div").style("white-space", "normal"),
+      submitDiv: this.opts.holder.append("div").style("margin", "10px")
+    };
+    this.dom.submitBtn = this.dom.submitDiv.append("button").html("Download").on("click", this.download);
+    this.dom.submitNote = this.dom.submitDiv.append("span").style("margin-left", "5px").style("font-style", "italic");
+  }
+  getState(appState, sub) {
+    const config = appState.plots.find((p) => p.id === this.id);
+    if (!config) {
+      throw `No plot with id='${this.id}' found. Did you set this.id before this.api = getComponentApi(this)?`;
+    }
+    this.termdbConfig = appState.termdbConfig;
+    return {
+      vocab: appState.vocab,
+      activeCohort: appState.activeCohort,
+      termfilter: appState.termfilter,
+      config,
+      hasVerifiedToken: this.app.vocabApi.hasVerifiedToken(),
+      tokenVerificationPayload: this.app.vocabApi.tokenVerificationPayload
+    };
+  }
+  /* do not set reactsTo
+  so it reacts to all actions matching with the plot id (controlled by store method)
+  including filter/cohort change
+  */
+  async main() {
+    try {
+      this.config = structuredClone(this.state.config);
+      this.mayUpdateSandboxHeader();
+      if (this.mayRequireToken()) return;
+      const reqOpts = await this.getDataRequestOpts();
+      this.data = await this.app.vocabApi.getAnnotatedSampleData(reqOpts);
+      this.processData();
+      const n = this.activeSamples.length;
+      this.dom.submitBtn.property("disabled", n < 1);
+      this.dom.submitNote.html(n ? `${n} samples` : "no sample data");
+      this.render();
+    } catch (e) {
+      sayerror(this.dom.errordiv, "Error: " + (e.error || e));
+      if (e.stack) console.log(e.stack);
+    }
+  }
+  mayUpdateSandboxHeader() {
+    if (!this.dom.header) return;
+    this.dom.header.html("<span>Data download</span>");
+  }
+  mayRequireToken() {
+    if (this.state.hasVerifiedToken) {
+      this.dom.titleDiv.style("color", "").html("Selected terms");
+      this.dom.terms.style("display", "");
+      this.dom.submitDiv.style("display", "");
+      return false;
+    } else {
+      const e = this.state.tokenVerificationPayload;
+      const missingAccess = e?.error == "Missing access" && this.termdbConfig.dataDownloadCatch?.missingAccess;
+      const message = missingAccess?.message?.replace("MISSING-ACCESS-LINK", missingAccess?.links[e?.linkKey]);
+      const helpLink = this.termdbConfig.dataDownloadCatch?.helpLink;
+      this.dom.titleDiv.style("color", "#e44").html(
+        message || (this.state.tokenVerificationMessage || "Requires sign-in") + (helpLink ? ` <a href='${helpLink}' target=_blank>Tutorial</a>` : "")
+      );
+      this.dom.terms.style("display", "none");
+      this.dom.submitDiv.style("display", "none");
+      return true;
+    }
+  }
+  // creates an opts object for the vocabApi.getNestedChartsData()
+  async getDataRequestOpts() {
+    const terms = this.config.terms;
+    return { terms, filter: this.state.termfilter.filter };
+  }
+  processData() {
+    const { lst, bySampleId } = this.data;
+    this.activeSamples = [];
+    for (const d of lst) {
+      for (const tw of this.config.terms) {
+        if (tw.term && tw.$id in d) {
+          this.activeSamples.push(d);
+          break;
+        }
+      }
+    }
+  }
+  async getNewPill(holder, d) {
+    const pill = await termsettingInit({
+      placeholder: "+Add variable",
+      holder,
+      menuOptions: "all",
+      vocabApi: this.app.vocabApi,
+      activeCohort: this.state.activeCohort,
+      debug: this.app.opts.debug,
+      usecase: { target: "dataDownload" },
+      numericEditMenuVersion: ["continuous", "discrete"],
+      noTermPromptOptions: this.getNoTermPromptOptions(),
+      genomeObj: this.genomeObj,
+      abbrCutoff: 50,
+      defaultQ4fillTW: {
+        condition: { mode: "cuminc" },
+        numeric: { mode: "continuous" }
+      },
+      callback: (tw) => {
+        const termsCopy = this.config.terms.slice(0);
+        const i = this.config.terms.findIndex((tw2) => tw2.$id === d.tw.$id);
+        if (!tw?.term) {
+          termsCopy.splice(i, 1);
+        } else if (i === -1) {
+          tw.$id = d.tw.$id;
+          if (!tw.q?.mode && (tw.term.type == "integer" || tw.term.type == "float")) {
+            tw.q.mode = "continuous";
+          }
+          termsCopy.push(tw);
+        } else {
+          tw.$id = d.tw.$id;
+          termsCopy[i] = tw;
+        }
+        this.app.dispatch({
+          type: "plot_edit",
+          id: this.id,
+          chartType: "dataDownload",
+          config: {
+            terms: termsCopy
+          }
+        });
+      }
+    });
+    this.pillBy$id[d.tw.$id] = pill;
+    return pill;
+  }
+  getNoTermPromptOptions() {
+    const lst = [];
+    if (this.termdbConfig.allowedTermTypes.includes("snplst")) {
+      lst.push({
+        termtype: "snplst",
+        text: "A list of variants",
+        q: {
+          doNotRestrictAncestry: 1,
+          geneticModel: 3,
+          // by genotype
+          AFcutoff: 0
+          // do not drop any
+        }
+      });
+    }
+    if (this.termdbConfig.allowedTermTypes.includes("snplocus")) {
+      lst.push({
+        termtype: "snplocus",
+        text: "Variants from a locus",
+        q: {
+          doNotRestrictAncestry: 1,
+          geneticModel: 3,
+          // by genotype
+          AFcutoff: 0
+          // do not drop any
+        }
+      });
+    }
+    if (lst.length) lst.unshift({ isDictionary: true, text: "Dictionary variable" });
+    return lst;
+  }
+};
+var dataDownloadInit = getCompInit(DataDownload);
+var componentInit = dataDownloadInit;
+var idSuffix = `_ts_${(+/* @__PURE__ */ new Date()).toString().slice(-8)}_${Math.random().toString().slice(-6)}`;
+var $id = 0;
+function getTw$id() {
+  return `${$id++}${idSuffix}`;
+}
+function setRenderers(self) {
+  self.render = function() {
+    const data = self.config.terms.map((tw) => {
+      return { tw, pill: self.pillBy$id[tw.$id] };
+    });
+    data.push({ tw: { $id: getTw$id() } });
+    const terms = self.dom.terms.selectAll(":scope>.sja-data-download-term").data(data, (d) => d.tw?.$id);
+    terms.exit().remove();
+    terms.each(self.renderTerm);
+    terms.enter().append("div").attr("class", "sja-data-download-term").each(self.addTerm);
+  };
+  self.addTerm = async function(d) {
+    const div = select_default(this).style("display", d.tw?.term ? "inline-block" : "block").style("width", "fit-content").style("margin", "10px").style("padding", "5px");
+    d.pill = await self.getNewPill(div, d);
+    await d.pill.main({
+      term: d.tw?.term,
+      q: d.tw?.q,
+      filter: self.state.termfilter.filter,
+      activeCohort: self.state.activeCohort,
+      numericEditMenuVersion: ["continuous", "discrete"]
+    });
+  };
+  self.renderTerm = async function(d) {
+    if (!d.pill) throw `no pill on update renderTerm()`;
+    select_default(this).style("display", d.tw.term ? "inline-block" : "block");
+    await d.pill.main({
+      term: d.tw?.term,
+      q: d.tw.q,
+      filter: self.state.termfilter.filter,
+      activeCohort: self.state.activeCohort
+    });
+  };
+}
+function setInteractivity(self) {
+  self.download = async () => {
+    const header = ["sample"];
+    for (const tw of self.config.terms) {
+      if (tw.term.type == "condition") {
+        header.push(`${tw.term.name}_event (0=censored, 1=grade ${tw.q.breaks[0]}-5, 2=non-${tw.term.name} death)`);
+        header.push(`${tw.term.name}_time (years from diagnosis to event)`);
+      } else if (tw.term.snps) {
+        for (const s of tw.term.snps) {
+          header.push(s.snpid);
+        }
+      } else {
+        header.push(tw.term.name);
+      }
+    }
+    const rows = [header];
+    for (const s of self.activeSamples) {
+      const row = [s.sampleName || self.data.refs.bySampleId[s.sample]?.label];
+      for (const tw of self.config.terms) {
+        if (!s[tw.$id]) row.push("");
+        else {
+          if (tw.term.type == "condition") {
+            row.push(s[tw.$id].key, s[tw.$id].value);
+          } else if (tw.term.snps) {
+            for (const snp of tw.term.snps) {
+              row.push(s[tw.$id]?.[snp.snpid] || ".");
+            }
+          } else {
+            const v = tw.term.values?.[s[tw.$id].key] || s[tw.$id];
+            row.push(v.label || v.key);
+          }
+        }
+      }
+      rows.push(row);
+    }
+    const matrix = rows.map((row) => row.join("	")).join("\n");
+    const a = document.createElement("a");
+    document.body.appendChild(a);
+    a.addEventListener(
+      "click",
+      function() {
+        a.download = "cohortData.txt";
+        a.href = URL.createObjectURL(new Blob([matrix], { type: "text/tab-separated-values" }));
+        document.body.removeChild(a);
+      },
+      false
+    );
+    a.click();
+    self.app.vocabApi.trackDsAction({
+      action: "download",
+      details: {
+        terms: self.config.terms.map((tw) => !("id" in tw.term) ? tw.term.name : tw.term.id),
+        filter: self.state.termfilter.filter
+      }
+    });
+  };
+}
+var _ID_ = 1;
+async function getPlotConfig(opts, app) {
+  const id = "id" in opts ? opts.id : `_DATADOWNLOAD_${_ID_++}`;
+  const config = { id, terms: [] };
+  copyMerge(config, opts);
+  for (const tw of config.terms) {
+    await fillTermWrapper(tw, app.vocabApi);
+  }
+  return config;
+}
+export {
+  componentInit,
+  dataDownloadInit,
+  getPlotConfig
+};
+//# sourceMappingURL=dataDownload-CRGQTCOW.js.map