@sjcrh/proteinpaint-client 2.220.0 → 2.221.0

package/dist/spliceevent.exonskip.diagram-NVEXVRIC.js

@@ -1,274 +0,0 @@
-import {
-  spliceevent_phrase_default
-} from "./chunk-3E26ITYK.js";
-import {
-  font
-} from "./chunk-PEKCVKJK.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-YR6EXI2K.js";
-import "./chunk-CNFTQSNE.js";
-import "./chunk-RIHO7ZD5.js";
-import "./chunk-TVJOSRCH.js";
-import "./chunk-3CIL7KH7.js";
-import "./chunk-T4XPCSLP.js";
-import "./chunk-4TJO2DGU.js";
-import "./chunk-W5J3LTYS.js";
-import "./chunk-MHWYRNGA.js";
-import "./chunk-JHLF2ZC2.js";
-import {
-  IN_frame,
-  exoncolor
-} from "./chunk-WJLRU5OF.js";
-import "./chunk-HBNB5TRH.js";
-import "./chunk-PF4DSFDR.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-6XKAOSQE.js";
-import "./chunk-TLT4YIG3.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-HS5PO5ZQ.js";
-
-// src/spliceevent.exonskip.diagram.js
-function spliceevent_exonskip_diagram_default(arg) {
-  const evt = arg.event;
-  const holder = arg.holder.append("div").style("vertical-align", "top");
-  if (!evt.isaltexon && !evt.isskipexon) {
-    holder.append("div").text(".isskipexon or .isaltexon is not set for event");
-    return;
-  }
-  if (!arg.nophrase) {
-    holder.append("div").html(spliceevent_phrase_default(evt));
-  }
-  const diagram = arg.holder.append("svg").style("display", "inline-block");
-  const canonicaljunctionreadcounttext = /* @__PURE__ */ new Map();
-  const canonicaljlst = [];
-  const exonwidth = 40;
-  const exonheight = 20;
-  const junctionheight = 20;
-  const intronwidth = 20;
-  const xpad = 20;
-  const ypad = 20;
-  const fontsize = 14;
-  const diagramg = diagram.append("g").attr("transform", "translate(" + xpad + "," + ypad + ")");
-  const skipexonidxbegin = evt.skippedexon[0];
-  const skipexonidxend = evt.skippedexon[evt.skippedexon.length - 1];
-  let showup1exon = false;
-  let showdown1exon = false;
-  if (evt.isskipexon) {
-    if (skipexonidxbegin > 1) {
-      showup1exon = true;
-    }
-    if (evt.down1junction) {
-      showdown1exon = true;
-    }
-  }
-  diagram.attr(
-    "width",
-    xpad + (showup1exon ? exonwidth + intronwidth : 0) + exonwidth + intronwidth + (exonwidth + intronwidth) * evt.skippedexon.length + exonwidth + (showdown1exon ? exonwidth + intronwidth : 0) + xpad
-  ).attr("height", ypad + fontsize + junctionheight + exonheight + junctionheight + fontsize + ypad);
-  const exony = fontsize + junctionheight;
-  const sample2jrc = /* @__PURE__ */ new Map();
-  let xoff = 0;
-  if (showup1exon) {
-    diagramg.append("rect").attr("x", xoff).attr("y", exony).attr("width", exonwidth).attr("height", exonheight).attr("fill", exoncolor);
-    diagramg.append("text").text("e" + (skipexonidxbegin - 1)).attr("x", xoff + exonwidth / 2).attr("y", exony + exonheight / 2).attr("text-anchor", "middle").attr("dominant-baseline", "central").attr("fill", "white").attr("font-size", fontsize);
-    xoff += exonwidth + intronwidth;
-    let nojunction = true;
-    let readcount = "?";
-    if (evt.up1junction) {
-      if (evt.junctionB.data) {
-        if (evt.junctionB.data.length == 1) {
-          const sampleid = evt.junctionB.data[0].tkid;
-          if (evt.up1junction.data) {
-            for (const sampledata of evt.up1junction.data) {
-              if (sampledata.tkid == sampleid) {
-                nojunction = false;
-                readcount = sampledata.v;
-                break;
-              }
-            }
-          }
-        } else if (evt.junctionB.data.length > 1) {
-          let readcountsum = 0;
-          let samplecount = 0;
-          for (const sample1 of evt.junctionB.data) {
-            for (const sample2 of evt.up1junction.data) {
-              if (sample1.tkid == sample2.tkid) {
-                readcountsum += sample2.v;
-                samplecount++;
-                break;
-              }
-            }
-          }
-          if (samplecount > 0) {
-            nojunction = false;
-            readcount = Math.ceil(readcountsum / samplecount);
-          }
-        }
-      } else {
-        nojunction = false;
-        readcount = evt.up1junction.v;
-      }
-    }
-    diagramg.append("path").attr(
-      "d",
-      "M" + (xoff - intronwidth) + "," + (exony + exonheight) + "L" + (xoff - intronwidth / 2) + "," + (exony + exonheight + junctionheight) + "L" + xoff + "," + (exony + exonheight)
-    ).attr("stroke", exoncolor).attr("stroke-dasharray", nojunction ? "2,2" : "none").attr("fill", "none");
-    if (!nojunction) {
-      const text = diagramg.append("text").text(readcount).attr("x", xoff - intronwidth / 2).attr("y", exony + exonheight + junctionheight + 2).attr("font-size", fontsize).attr("fill", "black").attr("font-family", font).attr("text-anchor", "middle").attr("dominant-baseline", "hanging");
-      canonicaljunctionreadcounttext.set(
-        evt.up1junction.start + "." + evt.up1junction.stop + "." + evt.up1junction.strand,
-        text
-      );
-      canonicaljlst.push([evt.up1junction.start, evt.up1junction.stop, evt.up1junction.strand]);
-    }
-  }
-  diagramg.append("rect").attr("x", xoff).attr("y", exony).attr("width", exonwidth).attr("height", exonheight).attr("fill", exoncolor);
-  diagramg.append("text").text("e" + skipexonidxbegin).attr("x", xoff + exonwidth / 2).attr("y", exony + exonheight / 2).attr("text-anchor", "middle").attr("dominant-baseline", "central").attr("fill", "white").attr("font-size", fontsize);
-  xoff += exonwidth + intronwidth;
-  for (let exonidx = skipexonidxbegin; exonidx <= skipexonidxend + 1; exonidx++) {
-    const islastone = exonidx == skipexonidxend + 1;
-    diagramg.append("rect").attr("x", xoff).attr("y", exony).attr("width", exonwidth).attr("height", exonheight).attr("fill", islastone ? exoncolor : "none").attr("stroke", islastone ? "none" : exoncolor).attr("shape-rendering", "crispEdges");
-    diagramg.append("text").text("e" + (exonidx + 1)).attr("x", xoff + exonwidth / 2).attr("y", exony + exonheight / 2).attr("text-anchor", "middle").attr("dominant-baseline", "central").attr("fill", islastone ? "white" : exoncolor).attr("font-size", fontsize);
-    const thisjunction = evt.junctionAlst[exonidx - skipexonidxbegin];
-    diagramg.append("path").attr(
-      "d",
-      "M" + (xoff - intronwidth) + "," + (exony + exonheight) + "L" + (xoff - intronwidth / 2) + "," + (exony + exonheight + junctionheight) + "L" + xoff + "," + (exony + exonheight)
-    ).attr("stroke", exoncolor).attr("stroke-dasharray", thisjunction ? "none" : "2,2").attr("fill", "none");
-    if (thisjunction) {
-      let readcount = "?";
-      if (evt.junctionB.data) {
-        if (evt.junctionB.data.length == 1) {
-          if (!thisjunction.data) {
-            console.error(".data missing from junctionA");
-          } else {
-            for (const sampledata of thisjunction.data) {
-              if (sampledata.tkid == evt.junctionB.data[0].tkid) {
-                readcount = sampledata.v;
-                break;
-              }
-            }
-          }
-        } else if (evt.junctionB.data.length > 1) {
-          readcount = "e" + exonidx + "-" + (exonidx + 1);
-          for (const thissample of evt.junctionB.data) {
-            if (!sample2jrc.has(thissample.tkid)) {
-              sample2jrc.set(thissample.tkid, {
-                sampleobj: thissample,
-                readcountlst: []
-              });
-            }
-            let thissamplereadcount = 0;
-            for (const sampledata of thisjunction.data) {
-              if (sampledata.tkid == thissample.tkid) {
-                thissamplereadcount = sampledata.v;
-                break;
-              }
-            }
-            sample2jrc.get(thissample.tkid).readcountlst.push(thissamplereadcount);
-          }
-        }
-      } else {
-        readcount = thisjunction.v;
-      }
-      const text = diagramg.append("text").text(readcount).attr("x", xoff - intronwidth / 2).attr("y", exony + exonheight + junctionheight + 2).attr("font-size", fontsize).attr("fill", "black").attr("font-family", font).attr("text-anchor", "middle").attr("dominant-baseline", "hanging");
-      canonicaljunctionreadcounttext.set(thisjunction.start + "." + thisjunction.stop + "." + thisjunction.strand, text);
-      canonicaljlst.push([thisjunction.start, thisjunction.stop, thisjunction.strand]);
-    }
-    xoff += exonwidth + intronwidth;
-  }
-  {
-    const midx = xoff - exonwidth - intronwidth - ((exonwidth + intronwidth) * evt.skippedexon.length + intronwidth) / 2;
-    diagramg.append("path").attr(
-      "d",
-      "M" + ((showup1exon ? exonwidth + intronwidth : 0) + exonwidth) + "," + exony + "L" + midx + "," + (exony - junctionheight) + "L" + (xoff - exonwidth - intronwidth) + "," + exony
-    ).attr("fill", "none").attr("stroke", evt.color);
-    let jBreadcount = "?";
-    if (evt.junctionB.data) {
-      if (evt.junctionB.data.length == 1) {
-        jBreadcount = evt.junctionB.data[0].v;
-      } else {
-        jBreadcount = "e" + skipexonidxbegin + "-" + (skipexonidxend + 2);
-        for (const thissample of evt.junctionB.data) {
-          if (!sample2jrc.has(thissample.tkid)) {
-            console.error("sample has junctionB but no junctionA! " + thissample.tkid);
-            continue;
-          }
-          let readcount = 0;
-          for (const sampledata of evt.junctionB.data) {
-            if (sampledata.tkid == thissample.tkid) {
-              readcount = sampledata.v;
-              break;
-            }
-          }
-          sample2jrc.get(thissample.tkid).readcountlst.unshift(readcount);
-        }
-      }
-    } else {
-      jBreadcount = evt.junctionB.v;
-    }
-    if (typeof evt.frame == "boolean") {
-      jBreadcount += ", " + (evt.frame == IN_frame ? "in frame" : "out of frame");
-    }
-    const bclab = diagramg.append("text").text(jBreadcount).attr("x", midx).attr("y", exony - junctionheight - 2).attr("font-size", fontsize).attr("fill", evt.color).attr("font-family", font).attr("text-anchor", "middle");
-  }
-  if (showdown1exon) {
-    diagramg.append("rect").attr("x", xoff).attr("y", exony).attr("width", exonwidth).attr("height", exonheight).attr("fill", exoncolor);
-    diagramg.append("text").text("e" + (skipexonidxend + 3)).attr("x", xoff + exonwidth / 2).attr("y", exony + exonheight / 2).attr("text-anchor", "middle").attr("dominant-baseline", "central").attr("fill", "white").attr("font-size", fontsize);
-    let nojunction = true;
-    let readcount = "?";
-    if (evt.down1junction) {
-      if (evt.junctionB.data) {
-        if (evt.junctionB.data.length == 1) {
-          const sampleid = evt.junctionB.data[0].tkid;
-          if (evt.down1junction.data) {
-            for (const sampledata of evt.down1junction.data) {
-              if (sampledata.tkid == sampleid) {
-                nojunction = false;
-                readcount = sampledata.v;
-                break;
-              }
-            }
-          }
-        } else if (evt.junctionB.data.length > 1) {
-          let readcountsum = 0;
-          let samplecount = 0;
-          for (const sample1 of evt.junctionB.data) {
-            for (const sample2 of evt.down1junction.data) {
-              if (sample1.tkid == sample2.tkid) {
-                readcountsum += sample2.v;
-                samplecount++;
-                break;
-              }
-            }
-          }
-          if (samplecount > 0) {
-            nojunction = false;
-            readcount = Math.ceil(readcountsum / samplecount);
-          }
-        }
-      } else {
-        nojunction = false;
-        readcount = evt.down1junction.v;
-      }
-    }
-    diagramg.append("path").attr(
-      "d",
-      "M" + (xoff - intronwidth) + "," + (exony + exonheight) + "L" + (xoff - intronwidth / 2) + "," + (exony + exonheight + junctionheight) + "L" + xoff + "," + (exony + exonheight)
-    ).attr("stroke", exoncolor).attr("stroke-dasharray", nojunction ? "2,2" : "none").attr("fill", "none");
-    if (!nojunction) {
-      const text = diagramg.append("text").text(readcount).attr("x", xoff - intronwidth / 2).attr("y", exony + exonheight + junctionheight + 2).attr("font-size", fontsize).attr("fill", "black").attr("font-family", font).attr("text-anchor", "middle").attr("dominant-baseline", "hanging");
-      canonicaljunctionreadcounttext.set(
-        evt.down1junction.start + "." + evt.down1junction.stop + "." + evt.down1junction.strand,
-        text
-      );
-      canonicaljlst.push([evt.down1junction.start, evt.down1junction.stop, evt.down1junction.strand]);
-    }
-  }
-  return [canonicaljunctionreadcounttext, canonicaljlst];
-}
-export {
-  spliceevent_exonskip_diagram_default as default
-};
-//# sourceMappingURL=spliceevent.exonskip.diagram-NVEXVRIC.js.map