@sjcrh/proteinpaint-client 2.210.0 → 2.210.1

package/dist/block.tk.junction-5DEVBA7G.js

@@ -1,2358 +0,0 @@
-import {
-  spliceevent_phrase_default
-} from "./chunk-PU5FQWAY.js";
-import {
-  spliceevent_exonskip_getdefault_default
-} from "./chunk-NDOKW2HJ.js";
-import {
-  legend_newrow
-} from "./chunk-NQNVLZOA.js";
-import "./chunk-V2OJLJSK.js";
-import "./chunk-4XYQG3XU.js";
-import {
-  appear2 as appear,
-  axisstyle,
-  category2legend,
-  export_data,
-  font,
-  gmmode,
-  keyupEnter,
-  sayerror,
-  tkt
-} from "./chunk-55FABQU2.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-KV4W2ACA.js";
-import "./chunk-UXD6G6G4.js";
-import {
-  Menu
-} from "./chunk-ELJX3QIQ.js";
-import "./chunk-3FEP6B5T.js";
-import "./chunk-EEB5VE2A.js";
-import "./chunk-6RRZRISL.js";
-import "./chunk-2KM4PRQM.js";
-import {
-  dofetch2,
-  dofetch3
-} from "./chunk-VA57CUC7.js";
-import "./chunk-BK6UDL7F.js";
-import "./chunk-KIAMLQ7S.js";
-import {
-  IN_frame,
-  OUT_frame,
-  bplen,
-  defaultcolor,
-  spliceeventchangegmexon
-} from "./chunk-SB36AUG7.js";
-import "./chunk-WINIL2KN.js";
-import "./chunk-PF4DSFDR.js";
-import "./chunk-7X6NF7NI.js";
-import "./chunk-W5J3LTYS.js";
-import {
-  axisRight,
-  category10_default
-} from "./chunk-Z2ZITHT4.js";
-import {
-  linear,
-  log,
-  ordinal
-} from "./chunk-4OLM3KSB.js";
-import "./chunk-FXQXCOII.js";
-import "./chunk-TLT4YIG3.js";
-import "./chunk-5R63Q5KH.js";
-import {
-  select_default
-} from "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-DQC5FFGV.js";
-import {
-  __commonJS,
-  __toESM
-} from "./chunk-HS5PO5ZQ.js";
-
-// ../node_modules/d3-beeswarm/build/d3-beeswarm.js
-var require_d3_beeswarm = __commonJS({
-  "../node_modules/d3-beeswarm/build/d3-beeswarm.js"(exports, module) {
-    (function(global, factory) {
-      typeof exports === "object" && typeof module !== "undefined" ? factory(exports) : typeof define === "function" && define.amd ? define(["exports"], factory) : factory(global.d3 = global.d3 || {});
-    })(exports, function(exports2) {
-      "use strict";
-      function beeswarm2() {
-        var data = [];
-        var radius = 4;
-        var orientation = "horizontal";
-        var side = "symetric";
-        var distributeOn = (
-          // accessor to the x value
-          function(datum) {
-            return datum.x;
-          }
-        );
-        var minDistanceBetweenCircles;
-        var minSquareDistanceBetweenCircles;
-        var xBasedDataManager;
-        var xBasedColliderManager;
-        var yBasedColliderManager;
-        var arrangement;
-        var totalPossibleColliders, maxPossibleColliders, totalTestedPlacements, visitedColliderCount, totalVisitedColliders, maxVisitedColliders;
-        function _beeswarm() {
-        }
-        _beeswarm.data = function(_) {
-          if (!arguments.length) {
-            return data;
-          }
-          data = _;
-          return _beeswarm;
-        };
-        _beeswarm.radius = function(_) {
-          if (!arguments.length) {
-            return radius;
-          }
-          radius = _;
-          return _beeswarm;
-        };
-        _beeswarm.orientation = function(_) {
-          if (!arguments.length) {
-            return orientation;
-          }
-          if (_ === "horizontal" || _ === "vertical") {
-            orientation = _;
-          }
-          return _beeswarm;
-        };
-        _beeswarm.side = function(_) {
-          if (!arguments.length) {
-            return side;
-          }
-          if (_ === "symetric" || _ === "positive" || _ === "negative") {
-            side = _;
-          }
-          return _beeswarm;
-        };
-        _beeswarm.distributeOn = function(_) {
-          if (!arguments.length) {
-            return distributeOn;
-          }
-          distributeOn = _;
-          return _beeswarm;
-        };
-        _beeswarm.arrange = function() {
-          initArrangement();
-          arrangement.forEach(function(d) {
-            var bestYPosition = -Infinity, relativeYPos, xBasedPossibleColliders = gatherXBasedPossibleColliders(d);
-            if (xBasedPossibleColliders.length === 0) {
-              bestYPosition = 0;
-            } else {
-              yBasedColliderManager.clear();
-              yBasedColliderManager.addMany(xBasedPossibleColliders);
-              d.free = 0;
-              if (!collidesWithOther(d, yBasedColliderManager.closestTo0())) {
-                bestYPosition = 0;
-                totalVisitedColliders += visitedColliderCount;
-                if (visitedColliderCount > maxVisitedColliders) {
-                  maxVisitedColliders = visitedColliderCount;
-                }
-                visitedColliderCount = 0;
-                totalTestedPlacements += 1;
-              } else {
-                xBasedPossibleColliders.forEach(function(xbpc) {
-                  relativeYPos = yPosRelativeToXbpc(xbpc, d);
-                  placeBelow(d, xbpc, relativeYPos);
-                  if (isAuthorizedPlacement(d) && isBetterPlacement(d, bestYPosition) && !collidesWithOther(d, yBasedColliderManager.dln(xbpc))) {
-                    bestYPosition = d.free;
-                  }
-                  totalVisitedColliders += visitedColliderCount;
-                  if (visitedColliderCount > maxVisitedColliders) {
-                    maxVisitedColliders = visitedColliderCount;
-                  }
-                  visitedColliderCount = 0;
-                  totalTestedPlacements += 1;
-                  placeAbove(d, xbpc, relativeYPos);
-                  if (isAuthorizedPlacement(d) && isBetterPlacement(d, bestYPosition) && !collidesWithOther(d, yBasedColliderManager.dln(xbpc))) {
-                    bestYPosition = d.free;
-                  }
-                  totalVisitedColliders += visitedColliderCount;
-                  if (visitedColliderCount > maxVisitedColliders) {
-                    maxVisitedColliders = visitedColliderCount;
-                  }
-                  visitedColliderCount = 0;
-                  totalTestedPlacements += 1;
-                });
-              }
-            }
-            ;
-            d.free = bestYPosition;
-            if (orientation === "horizontal") {
-              d.x = d.fixed;
-              d.y = bestYPosition;
-            } else {
-              d.x = bestYPosition;
-              d.y = d.fixed;
-            }
-            xBasedColliderManager.add(d);
-          });
-          return arrangement;
-        };
-        _beeswarm.metrics = function() {
-          return {
-            totalPossibleColliders,
-            maxPossibleColliders,
-            totalTestedPlacements,
-            visitedColliderCount,
-            totalVisitedColliders,
-            maxVisitedColliders
-          };
-        };
-        function initArrangement() {
-          arrangement = data.map(function(d, i) {
-            return {
-              datum: d,
-              id: i,
-              fixed: distributeOn(d),
-              free: -Infinity
-            };
-          });
-          minDistanceBetweenCircles = 2 * radius;
-          minSquareDistanceBetweenCircles = Math.pow(minDistanceBetweenCircles, 2);
-          xBasedDataManager = new SortedDirectAccessDoublyLinkedList().valueAccessor(function(d) {
-            return d.fixed;
-          }).addMany(arrangement);
-          xBasedColliderManager = new SortedDirectAccessDoublyLinkedList().valueAccessor(function(d) {
-            return d.fixed;
-          });
-          yBasedColliderManager = new SortedDirectAccessDoublyLinkedList().valueAccessor(function(d) {
-            return d.free;
-          });
-          totalPossibleColliders = maxPossibleColliders = 0;
-          totalTestedPlacements = 0;
-          visitedColliderCount = totalVisitedColliders = maxVisitedColliders = 0;
-        }
-        function findNearestPossibleCollider(dln, visitedDln, direction) {
-          if (visitedDln === null) {
-            return null;
-          } else if (direction === "prev" ? dln.value - visitedDln.value > minDistanceBetweenCircles : visitedDln.value - dln.value > minDistanceBetweenCircles) {
-            return null;
-          } else {
-            if (isFinite(visitedDln.datum.free)) {
-              return visitedDln.datum;
-            }
-            return findNearestPossibleCollider(dln, visitedDln[direction], direction);
-          }
-        }
-        function visitToGatherXBasedPossibleColliders(dln, visitedDln, direction, xBasedPossibleColliders) {
-          if (visitedDln === null) {
-            return;
-          } else if (direction === "prev" ? dln.value - visitedDln.value > minDistanceBetweenCircles : visitedDln.value - dln.value > minDistanceBetweenCircles) {
-            return;
-          } else {
-            xBasedPossibleColliders.push(visitedDln.datum);
-            visitToGatherXBasedPossibleColliders(dln, visitedDln[direction], direction, xBasedPossibleColliders);
-          }
-        }
-        function gatherXBasedPossibleColliders(datum) {
-          var xBasedPossibleColliders = [];
-          var dln = xBasedDataManager.dln(datum);
-          var nearestXPrevAlreadyArrangedData = findNearestPossibleCollider(dln, dln.prev, "prev");
-          var nearestXNextAlreadyArrangedData = findNearestPossibleCollider(dln, dln.next, "next");
-          if (nearestXPrevAlreadyArrangedData != null) {
-            dln = xBasedColliderManager.dln(nearestXPrevAlreadyArrangedData);
-            visitToGatherXBasedPossibleColliders(dln, dln, "prev", xBasedPossibleColliders);
-          }
-          if (nearestXNextAlreadyArrangedData != null) {
-            dln = xBasedColliderManager.dln(nearestXNextAlreadyArrangedData);
-            visitToGatherXBasedPossibleColliders(dln, dln, "next", xBasedPossibleColliders);
-          }
-          totalPossibleColliders += xBasedPossibleColliders.length;
-          if (xBasedPossibleColliders.length > maxPossibleColliders) {
-            maxPossibleColliders = xBasedPossibleColliders.length;
-          }
-          return xBasedPossibleColliders;
-        }
-        function isAuthorizedPlacement(datum) {
-          if (side === "symetric") {
-            return true;
-          } else if (side === "positive") {
-            return datum.free >= 0;
-          } else {
-            return datum.free <= 0;
-          }
-        }
-        function isBetterPlacement(datum, bestYPosition) {
-          return Math.abs(datum.free) < Math.abs(bestYPosition);
-        }
-        function yPosRelativeToXbpc(xbpc, d) {
-          return Math.sqrt(minSquareDistanceBetweenCircles - Math.pow(d.fixed - xbpc.fixed, 2)) + 1e-6;
-        }
-        function placeBelow(d, aad, relativeYPos) {
-          d.free = aad.free - relativeYPos;
-        }
-        function placeAbove(d, aad, relativeYPos) {
-          d.free = aad.free + relativeYPos;
-        }
-        function areCirclesColliding(d0, d1) {
-          visitedColliderCount++;
-          return Math.pow(d1.free - d0.free, 2) + Math.pow(d1.fixed - d0.fixed, 2) < minSquareDistanceBetweenCircles;
-        }
-        function visitToDetectCollisionWithOther(datum, visitedDln, direction, visitCount) {
-          if (visitedDln === null) {
-            return false;
-          } else if (direction === "prev" ? datum.free - visitedDln.datum.free > minDistanceBetweenCircles : visitedDln.datum.free - datum.free > minDistanceBetweenCircles) {
-            return false;
-          } else if (areCirclesColliding(datum, visitedDln.datum)) {
-            return true;
-          } else {
-            return visitToDetectCollisionWithOther(datum, visitedDln[direction], direction, visitCount++);
-          }
-        }
-        function collidesWithOther(datum, visitedDln) {
-          var visitCount = 0;
-          if (visitToDetectCollisionWithOther(datum, visitedDln, "prev", visitCount++)) {
-            return true;
-          } else {
-            return visitToDetectCollisionWithOther(datum, visitedDln, "next", visitCount++);
-          }
-        }
-        function SortedDirectAccessDoublyLinkedList() {
-          this._valueAccesor = // accessor to the value to sort on
-          function(obj) {
-            return obj.value;
-          };
-          this._min = null;
-          this._max = null;
-          this._closestTo0 = null;
-          this.size = 0;
-          this._idToNode = {};
-        }
-        SortedDirectAccessDoublyLinkedList.prototype.valueAccessor = function(_) {
-          if (!arguments.length) {
-            return this._valueAccesor;
-          }
-          this._valueAccesor = _;
-          return this;
-        };
-        SortedDirectAccessDoublyLinkedList.prototype.closestTo0 = function() {
-          return this._closestTo0;
-        };
-        SortedDirectAccessDoublyLinkedList.prototype.clear = function() {
-          this._min = null;
-          this._max = null;
-          this._closestTo0 = null;
-          this.size = 0;
-          this._idToNode = {};
-          return this;
-        };
-        SortedDirectAccessDoublyLinkedList.prototype.dln = function(datum) {
-          return this._idToNode[datum.id];
-        };
-        SortedDirectAccessDoublyLinkedList.prototype.addMany = function(data2) {
-          data2.forEach(function(datum, item) {
-            this.add(datum);
-          }, this);
-          return this;
-        };
-        SortedDirectAccessDoublyLinkedList.prototype.add = function(datum) {
-          var dln = {
-            datum,
-            // original datum
-            value: this._valueAccesor(datum),
-            prev: null,
-            // previous value-based node
-            next: null
-            // next value-based node
-          };
-          if (this.size === 0) {
-            this._min = this._max = this._closestTo0 = dln;
-          } else {
-            if (dln.value <= this._min.value) {
-              dln.next = this._min;
-              dln.next.prev = dln;
-              this._min = dln;
-            } else if (dln.value >= this._max.value) {
-              dln.prev = this._max;
-              dln.prev.next = dln;
-              this._max = dln;
-            } else {
-              var current = this._max;
-              while (current.value > dln.value) {
-                current = current.prev;
-              }
-              dln.prev = current;
-              dln.next = current.next;
-              dln.next.prev = dln;
-              dln.prev.next = dln;
-            }
-            if (Math.abs(dln.value) < Math.abs(this._closestTo0.value)) {
-              this._closestTo0 = dln;
-            }
-          }
-          this._idToNode[dln.datum.id] = dln;
-          this.size++;
-          return this;
-        };
-        SortedDirectAccessDoublyLinkedList.prototype.remove = function(datum) {
-          var dln = this.dln(datum);
-          if (this.size === 1) {
-            this._min = this._max = this._closestTo0 = null;
-          } else {
-            if (dln === this._closestTo0) {
-              if (this._closestTo0.next === null) {
-                this._closestTo0 = dln.prev;
-              } else if (this.closestToZero.prev === null) {
-                this._closestTo0 = dln.prev;
-              } else {
-                var prevAbsValue = Math.abs(this._closestTo0.prev.value);
-                var nextAbsValue = Math.abs(this._closestTo0.next.value);
-                if (prevAbsValue < nextAbsValue) {
-                  this._closestTo0 = this._closestTo0.prev;
-                } else {
-                  this._closestTo0 = this._closestTo0.next;
-                }
-              }
-            }
-            if (dln === this._min) {
-              this._min = this._min.next;
-              this._min.prev = null;
-            } else if (dln === this._max) {
-              this._max = this._max.prev;
-              this._max.next = null;
-            } else {
-              dln.next.prev = dln.prev;
-              dln.prev.next = dln.next;
-            }
-          }
-          dln = null;
-          delete this._idToNode[datum.id];
-          this.size--;
-          return this;
-        };
-        return _beeswarm;
-      }
-      ;
-      exports2.beeswarm = beeswarm2;
-      Object.defineProperty(exports2, "__esModule", { value: true });
-    });
-  }
-});
-
-// src/spliceevent.prep.js
-function mapjunctiontoexons(junctions, genes) {
-  for (const j of junctions) {
-    j.exonleft = [];
-    j.exonright = [];
-    j.exonleftin = [];
-    j.exonrightin = [];
-    j.intronleft = [];
-    j.intronright = [];
-    j.leftout = [];
-    j.rightout = [];
-    j.matchisoform = [];
-  }
-  const usegenes = [];
-  for (const gene of genes) {
-    let use = false;
-    for (const j of junctions) {
-      if (gene.chr == j.chr && Math.max(gene.start, j.start) < Math.min(gene.stop, j.stop)) {
-        use = true;
-        break;
-      }
-    }
-    if (use) {
-      usegenes.push(gene);
-    }
-  }
-  if (usegenes.length == 0) {
-    return;
-  }
-  const leftpos = /* @__PURE__ */ new Map();
-  const rightpos = /* @__PURE__ */ new Map();
-  for (const j of junctions) {
-    if (!leftpos.has(j.start)) {
-      leftpos.set(j.start, []);
-    }
-    leftpos.get(j.start).push(j);
-    if (!rightpos.has(j.stop)) {
-      rightpos.set(j.stop, []);
-    }
-    rightpos.get(j.stop).push(j);
-  }
-  for (const [pos, jlst] of leftpos) {
-    for (const gm of usegenes) {
-      if (!gm.exon) continue;
-      for (let i = 0; i < gm.exon.length; i++) {
-        if (gm.exon[i][1] - 1 == pos) {
-          for (const j of jlst) {
-            j.exonleft.push({
-              gm,
-              exonidx: i
-            });
-          }
-        }
-        if (gm.exon[i][0] <= pos && gm.exon[i][1] - 1 > pos) {
-          for (const j of jlst) {
-            j.exonleftin.push({
-              gm,
-              exonidx: i
-            });
-          }
-        }
-      }
-      if (gm.intron) {
-        for (let i = 0; i < gm.intron.length; i++) {
-          if (gm.intron[i][0] <= pos && gm.intron[i][1] > pos) {
-            for (const j of jlst) {
-              j.intronleft.push({
-                gm,
-                intronidx: i
-              });
-            }
-          }
-        }
-      }
-    }
-  }
-  for (const [pos, jlst] of rightpos) {
-    for (const gm of usegenes) {
-      if (!gm.exon) continue;
-      for (let i = 0; i < gm.exon.length; i++) {
-        if (gm.exon[i][0] == pos) {
-          for (const j of jlst) {
-            j.exonright.push({
-              gm,
-              exonidx: i
-            });
-          }
-        }
-        if (gm.exon[i][0] < pos && gm.exon[i][1] > pos) {
-          for (const j of jlst) {
-            j.exonrightin.push({
-              gm,
-              exonidx: i
-            });
-          }
-        }
-      }
-      if (gm.intron) {
-        for (let i = 0; i < gm.intron.length; i++) {
-          if (gm.intron[i][0] <= pos && gm.intron[i][1] > pos) {
-            for (const j of jlst) {
-              j.intronright.push({
-                gm,
-                intronidx: i
-              });
-            }
-          }
-        }
-      }
-    }
-  }
-  for (const j of junctions) {
-    {
-      const isoforms = /* @__PURE__ */ new Set();
-      for (const q of j.exonleft) isoforms.add(q.gm.isoform);
-      for (const q of j.exonleftin) isoforms.add(q.gm.isoform);
-      for (const q of j.intronleft) isoforms.add(q.gm.isoform);
-      if (isoforms.size) {
-        for (const gm of usegenes) {
-          if (!isoforms.has(gm.isoform)) continue;
-          if (gm.stop <= j.stop) {
-            j.rightout.push({
-              gm
-            });
-          }
-        }
-      }
-    }
-    {
-      const isoforms = /* @__PURE__ */ new Set();
-      for (const q of j.exonright) isoforms.add(q.gm.isoform);
-      for (const q of j.exonrightin) isoforms.add(q.gm.isoform);
-      for (const q of j.intronright) isoforms.add(q.gm.isoform);
-      if (isoforms.size) {
-        for (const gm of usegenes) {
-          if (!isoforms.has(gm.isoform)) continue;
-          if (gm.start > j.start) {
-            j.leftout.push({
-              gm
-            });
-          }
-        }
-      }
-    }
-  }
-  for (const j of junctions) {
-    if (j.exonleft.length == 0 || j.exonright.length == 0) continue;
-    for (const el of j.exonleft) {
-      for (const er of j.exonright) {
-        if (el.gm.isoform == er.gm.isoform) {
-          j.matchisoform.push({
-            gm: el.gm,
-            leftexonidx: el.exonidx,
-            rightexonidx: er.exonidx
-          });
-        }
-      }
-    }
-  }
-}
-
-// src/spliceevent.exonskip.js
-var exonskipcolor = "#99004d";
-var exonaltcolor = "#004d99";
-function findexonskipping(multisample, junctions, gmdata) {
-  const allevents = [];
-  for (const j0 of junctions) {
-    if (!j0.matchisoform || j0.matchisoform.length == 0) {
-      continue;
-    }
-    for (const j0isoform of j0.matchisoform) {
-      const j0exonbegin = Math.min(j0isoform.leftexonidx, j0isoform.rightexonidx);
-      const j0exonend = Math.max(j0isoform.leftexonidx, j0isoform.rightexonidx);
-      if (j0exonend - j0exonbegin <= 1) {
-        continue;
-      }
-      const jB = j0;
-      const thisevent = {
-        skippedexon: [],
-        junctionB: jB,
-        junctionAlst: []
-      };
-      for (let i = j0exonbegin + 1; i < j0exonend; i++) {
-        thisevent.skippedexon.push(i);
-      }
-      let gmB = null;
-      for (const gm of gmdata) {
-        if (!gm.intron) continue;
-        for (const i of gm.intron) {
-          if (i[0] - 1 == jB.start && i[1] == jB.stop) {
-            gmB = gm;
-            break;
-          }
-        }
-        if (gmB) {
-          break;
-        }
-      }
-      if (gmB) {
-        thisevent.isaltexon = true;
-        thisevent.color = exonaltcolor;
-        thisevent.gmA = j0isoform.gm;
-        thisevent.gmB = gmB;
-      } else {
-        thisevent.isskipexon = true;
-        thisevent.color = exonskipcolor;
-        thisevent.gm = j0isoform.gm;
-        const [utr3, utr5, coding] = checkexoncodingutr(thisevent.skippedexon, thisevent.gm);
-        if (utr3) thisevent.utr3 = true;
-        if (utr5) thisevent.utr5 = true;
-        if (coding) thisevent.coding = true;
-      }
-      {
-        const jAlst = findjunctionAlst(junctions, j0isoform.gm, j0exonbegin, j0exonend);
-        for (const ja of jAlst) {
-          thisevent.junctionAlst.push(ja);
-        }
-      }
-      if (thisevent.isskipexon) {
-        findupdown1junction4exonskip(thisevent, j0isoform.gm, junctions);
-      }
-      if (multisample) {
-        if (!jB.data) {
-          console.error("exonskip: jB.data missing when it is multi-sample");
-          continue;
-        }
-        if (jB.data.length == 0) {
-          console.error("exonskip: jB.data.length==0");
-          continue;
-        }
-        let percentagesamplesum = 0;
-        for (const sampleBdata of jB.data) {
-          const bcount = sampleBdata.v;
-          let acountsum = 0;
-          for (const junctionA of thisevent.junctionAlst) {
-            if (!junctionA) {
-              continue;
-            }
-            if (!junctionA.data) {
-              console.log("exonskip: jA.data missing when multi-sample");
-              continue;
-            }
-            for (const sampleAdata of junctionA.data) {
-              if (sampleAdata.tkid == sampleBdata.tkid) {
-                acountsum += sampleAdata.v;
-                break;
-              }
-            }
-          }
-          percentagesamplesum += 100 * bcount / (bcount + acountsum / thisevent.junctionAlst.length);
-        }
-        thisevent.percentage = Math.ceil(percentagesamplesum / jB.data.length);
-      } else {
-        let asum = 0;
-        for (const _j of thisevent.junctionAlst) {
-          asum += _j ? _j.data[0].v : 0;
-        }
-        thisevent.percentage = Math.ceil(
-          100 * thisevent.junctionB.data[0].v / (thisevent.junctionB.data[0].v + asum / thisevent.junctionAlst.length)
-        );
-      }
-      allevents.push(thisevent);
-    }
-  }
-  const exoncoords = /* @__PURE__ */ new Map();
-  for (const evt of allevents) {
-    const positionlst = [];
-    for (const eid of evt.skippedexon) {
-      let thisexon;
-      if (evt.isskipexon) {
-        thisexon = evt.gm.exon[eid];
-      } else {
-        thisexon = evt.gmA.exon[eid];
-      }
-      positionlst.push(thisexon[0]);
-      positionlst.push(thisexon[1]);
-    }
-    if (positionlst.length == 0) {
-      console.error("not possible: no skipped exon position for exon-skip");
-      console.log(evt);
-      continue;
-    }
-    positionlst.sort();
-    const posstr = positionlst.join(".") + "|" + evt.junctionB.start + "." + evt.junctionB.stop;
-    if (!exoncoords.has(posstr)) {
-      exoncoords.set(posstr, []);
-    }
-    exoncoords.get(posstr).push(evt);
-  }
-  const eventsetlst = [];
-  for (const eventlst of exoncoords.values()) {
-    const thisset = {
-      eventlst,
-      exonlst: []
-      // each exon: {start:, stop:}
-    };
-    eventsetlst.push(thisset);
-    const firstevent = eventlst[0];
-    for (const eid of firstevent.skippedexon) {
-      const gm = firstevent.isskipexon ? firstevent.gm : firstevent.gmA;
-      const thisexon = gm.exon[eid];
-      thisset.exonlst.push({
-        chr: gm.chr,
-        start: thisexon[0],
-        stop: thisexon[1]
-      });
-    }
-    let eventcount_skip = 0, eventcount_alt = 0;
-    for (const evt of eventlst) {
-      if (evt.isskipexon) {
-        eventcount_skip++;
-      } else {
-        eventcount_alt++;
-      }
-    }
-    thisset.color = eventcount_skip > 0 ? exonskipcolor : exonaltcolor;
-    const exonnumberset = /* @__PURE__ */ new Set();
-    for (const evt of eventlst) {
-      const thisexonnumbers = [];
-      for (const eid of evt.skippedexon) {
-        thisexonnumbers.push(eid + 1);
-      }
-      exonnumberset.add(thisexonnumbers.join(","));
-    }
-    if (exonnumberset.size == 1) {
-      thisset.toplabelsays = "exon " + [...exonnumberset][0] + " ";
-    } else {
-      thisset.toplabelsays = "exon ";
-    }
-    thisset.toplabelsays += eventcount_skip ? "skip" + (eventcount_alt ? "|alt" : "") : "alt";
-    if (multisample) {
-      let samplecount = 0;
-      for (const evt of eventlst) {
-        samplecount = Math.max(samplecount, evt.junctionB.data.length);
-      }
-      thisset.middlelabelsays = samplecount + " sample" + (samplecount > 1 ? "s" : "");
-    }
-    thisset.bottomlabelsays = firstevent.percentage + "%";
-  }
-  return eventsetlst;
-}
-function findjunctionbystartstop(lst, p1, p2) {
-  const start = Math.min(p1, p2);
-  const stop = Math.max(p1, p2);
-  for (const j of lst) {
-    if (j.start == start && j.stop == stop) return j;
-  }
-  return null;
-}
-function findjunctionAlst(junctions, gm, exonbegin, exonend) {
-  const lst = [];
-  const exonstart = Math.min(exonbegin, exonend);
-  const exonstop = Math.max(exonbegin, exonend);
-  if (gm.strand == "+") {
-    for (let i = exonstart; i < exonstop; i++) {
-      const p1 = gm.exon[i][1] - 1;
-      const p2 = gm.exon[i + 1][0];
-      lst.push(findjunctionbystartstop(junctions, p1, p2));
-    }
-  } else {
-    for (let i = exonstop; i > exonstart; i--) {
-      const p1 = gm.exon[i][1] - 1;
-      const p2 = gm.exon[i - 1][0];
-      lst.unshift(findjunctionbystartstop(junctions, p1, p2));
-    }
-  }
-  return lst;
-}
-function findupdown1junction4exonskip(evt, gm, junctions) {
-  let exonidx = evt.skippedexon[0];
-  if (exonidx > 1) {
-    let p1, p2;
-    if (gm.strand == "+") {
-      p1 = gm.exon[exonidx - 2][1] - 1;
-      p2 = gm.exon[exonidx - 1][0];
-    } else {
-      p1 = gm.exon[exonidx - 1][1] - 1;
-      p2 = gm.exon[exonidx - 2][0];
-    }
-    evt.up1junction = findjunctionbystartstop(junctions, p1, p2);
-  }
-  exonidx = evt.skippedexon[evt.skippedexon.length - 1];
-  if (exonidx < gm.exon.length - 2) {
-    let p1, p2;
-    if (gm.strand == "+") {
-      p1 = gm.exon[exonidx + 1][1] - 1;
-      p2 = gm.exon[exonidx + 2][0];
-    } else {
-      p1 = gm.exon[exonidx + 2][1] - 1;
-      p2 = gm.exon[exonidx + 1][0];
-    }
-    evt.down1junction = findjunctionbystartstop(junctions, p1, p2);
-  }
-}
-function checkexoncodingutr(exonidlst, gm) {
-  if (!gm.coding) {
-    return [false, false, false];
-  }
-  let exonstart = gm.exon[exonidlst[0]][0];
-  let exonstop = gm.exon[exonidlst[0]][1];
-  for (const idx of exonidlst) {
-    exonstart = Math.min(gm.exon[idx][0], exonstart);
-    exonstop = Math.max(gm.exon[idx][1], exonstop);
-  }
-  const forward = gm.strand == "+";
-  let utr3 = false, utr5 = false, coding = false;
-  if (exonstop <= gm.codingstart) {
-    if (forward) {
-      utr5 = true;
-    } else {
-      utr3 = true;
-    }
-  } else if (exonstart >= gm.codingstop) {
-    if (forward) {
-      utr3 = true;
-    } else {
-      utr5 = true;
-    }
-  } else {
-    coding = true;
-  }
-  return [utr3, utr5, coding];
-}
-
-// src/block.tk.junction.spliceevent.js
-function spliceeventanalyze(tk, block) {
-  if (tk.eventsg) {
-    tk.eventsg.selectAll("*").remove();
-  }
-  if (tk.type != tkt.junction) {
-    return;
-  }
-  if (!tk.data) {
-    return;
-  }
-  if (tk.data.length == 0) {
-    return;
-  }
-  const [gmdataerr, gmdata] = getgmdata(block);
-  if (gmdataerr) {
-    const fontsize = 12;
-    const pad = 2;
-    tk.eventsg.append("rect").attr("width", block.width).attr("height", pad * 2 + fontsize).attr("fill", "#f1f1f1");
-    tk.eventsg.append("text").text(gmdataerr).attr("font-family", font).attr("font-size", fontsize).attr("fill", "#858585").attr("text-anchor", "middle").attr("x", block.width / 2).attr("y", pad + fontsize / 2).attr("dominant-baseline", "central");
-    tk.height_main += pad * 2 + fontsize;
-    block.block_setheight();
-    return;
-  }
-  if (!gmdata) {
-    return;
-  }
-  for (const junction of tk.data) {
-    delete junction.spliceevents;
-  }
-  mapjunctiontoexons(tk.data, gmdata);
-  const allevents = [];
-  const exonskipalt = findexonskipping(tk.totalsamplecount > 1, tk.data, gmdata);
-  if (exonskipalt.length > 0) {
-    for (const exonset of exonskipalt) {
-      if (exonlstoutofrange(exonset.exonlst, block)) {
-        continue;
-      }
-      allevents.push(exonset);
-      for (const thisevt of exonset.eventlst) {
-        if (!thisevt.junctionB.spliceevents) {
-          thisevt.junctionB.spliceevents = [];
-        }
-        thisevt.junctionB.spliceevents.push(thisevt);
-      }
-    }
-  }
-  if (allevents.length) {
-    rendereventsintrack(allevents, tk, block);
-  }
-}
-function rendereventsintrack(allevents, tk, block) {
-  const labelfontsize = 10;
-  const stackspace = 1;
-  const boxlabelspacing = 2;
-  let stackheight;
-  if (tk.totalsamplecount > 1) {
-    stackheight = labelfontsize * 3 + stackspace * 2;
-  } else {
-    stackheight = labelfontsize * 2 + stackspace;
-  }
-  for (const eventset of allevents) {
-    eventset.g = tk.eventsg.append("g");
-    const junctionB = eventset.eventlst[0].junctionB;
-    const jbstr = junctionB.chr + "-" + junctionB.start + "-" + junctionB.stop;
-    eventset.toplabel = eventset.g.append("text").text(eventset.toplabelsays).attr("font-size", labelfontsize).attr("font-family", font).attr("fill", eventset.color).attr("y", labelfontsize / 2).attr("dominant-baseline", "central");
-    if (tk.totalsamplecount > 1) {
-      eventset.middlelabel = eventset.g.append("text").text(eventset.middlelabelsays).attr("font-size", labelfontsize).attr("font-family", font).attr("fill", eventset.color).attr("y", labelfontsize * 1.5).attr("dominant-baseline", "central");
-    }
-    let willshowframe = false;
-    let thiseventframe = null;
-    for (const evt of eventset.eventlst) {
-      if (evt.isaltexon) {
-        evt.framenocheck = true;
-        continue;
-      }
-      if (evt.isskipexon) {
-        if (!evt.gm.coding) {
-          evt.framenocheck = true;
-          continue;
-        }
-        if (evt.utr3 || evt.utr5) {
-          evt.framenocheck = true;
-          continue;
-        }
-      }
-      willshowframe = true;
-      if (block.genome.junctionframecache.has(jbstr)) {
-        let isoform;
-        if (evt.isskipexon) {
-          isoform = evt.gm.isoform;
-        }
-        const thisframe = block.genome.junctionframecache.get(jbstr).get(isoform);
-        if (thisframe == void 0) {
-        } else {
-          evt.frame = thisframe;
-          if (thiseventframe == null) {
-            thiseventframe = thisframe;
-          } else {
-            if (thisframe == IN_frame) {
-              thiseventframe = IN_frame;
-            }
-          }
-        }
-      } else {
-      }
-    }
-    eventset.bottomlabel = eventset.g.append("text").text(
-      eventset.bottomlabelsays + (willshowframe ? ", " + (thiseventframe == null ? "checking" : thiseventframe == IN_frame ? "IN" : "OUT") : "")
-    ).attr("font-size", labelfontsize).attr("font-family", font).attr("fill", eventset.color).attr("y", stackheight - labelfontsize / 2).attr("dominant-baseline", "central");
-    if (willshowframe && thiseventframe == null) {
-      for (const evt of eventset.eventlst) {
-        let gm;
-        if (evt.isaltexon) {
-          gm = evt.gmB;
-        } else if (evt.isskipexon) {
-          gm = evt.gm;
-        }
-        if (!block.genome.junctionframecache.has(jbstr)) {
-          checkjunctionframe({
-            jbstr,
-            evt,
-            gm,
-            block,
-            eventset
-          });
-          continue;
-        }
-        if (!block.genome.junctionframecache.get(jbstr).has(gm.isoform)) {
-          checkjunctionframe({
-            jbstr,
-            evt,
-            gm,
-            block,
-            eventset
-          });
-        }
-      }
-    }
-    const exonobjlst = [];
-    let boxstart = null, boxstop;
-    for (const exon of eventset.exonlst) {
-      const pointa = block.seekcoord(exon.chr, exon.start)[0];
-      if (!pointa) {
-        console.log("skipped exon start position not mapped: " + exon.start);
-        return;
-      }
-      const pointb = block.seekcoord(exon.chr, exon.stop - 1)[0];
-      if (!pointb) {
-        console.log("skipped exon stop position not mapped: " + exon.stop);
-        return;
-      }
-      const exonobj = {
-        x: Math.min(pointa.x, pointb.x),
-        w: Math.max(1, Math.abs(pointa.x - pointb.x))
-      };
-      exonobj.rect = eventset.g.append("rect").attr("fill", eventset.color).attr("width", exonobj.w).attr("height", stackheight).attr("shape-rendering", "crispEdges").on("click", () => {
-        console.log(eventset);
-      });
-      if (boxstart == null) {
-        boxstart = exonobj.x;
-        boxstop = exonobj.x + exonobj.w;
-      } else {
-        boxstart = Math.min(boxstart, exonobj.x);
-        boxstop = Math.max(boxstop, exonobj.x + exonobj.w);
-      }
-      exonobjlst.push(exonobj);
-    }
-    for (const exon of exonobjlst) {
-      exon.rect.attr("x", exon.x - boxstart);
-    }
-    eventset.boxstart = boxstart;
-    eventset.boxwidth = boxstop - boxstart;
-    if (eventset.exonlst.length > 1) {
-      eventset.g.append("line").attr("stroke", eventset.color).attr("stroke-opacity", 0.2).attr("stroke-width", 2).attr("shape-rendering", "crispEdges").attr("x1", 0).attr("x2", eventset.boxwidth).attr("y1", stackheight / 2 - 0.5).attr("y2", stackheight / 2 - 0.5);
-    }
-    eventset.toplabel.each(function() {
-      eventset.labelwidth = this.getBBox().width;
-    });
-    if (eventset.middlelabel) {
-      eventset.middlelabel.each(function() {
-        eventset.labelwidth = this.getBBox().width;
-      });
-    }
-    eventset.bottomlabel.each(function() {
-      eventset.labelwidth = Math.max(eventset.labelwidth, this.getBBox().width);
-    });
-    if (eventset.labelwidth > eventset.boxstart) {
-      eventset.labelonright = true;
-      eventset.toplabel.attr("x", eventset.boxwidth + boxlabelspacing);
-      eventset.bottomlabel.attr("x", eventset.boxwidth + boxlabelspacing);
-      if (eventset.middlelabel) {
-        eventset.middlelabel.attr("x", eventset.boxwidth + boxlabelspacing);
-      }
-    } else {
-      eventset.toplabel.attr("text-anchor", "end").attr("x", -boxlabelspacing);
-      eventset.bottomlabel.attr("text-anchor", "end").attr("x", -boxlabelspacing);
-      if (eventset.middlelabel) {
-        eventset.middlelabel.attr("text-anchor", "end").attr("x", -boxlabelspacing);
-      }
-    }
-    eventset.cover = eventset.g.append("rect").attr("x", eventset.labelonright ? 0 : -eventset.labelwidth - boxlabelspacing).attr("width", eventset.labelwidth + boxlabelspacing + eventset.boxwidth).attr("height", stackheight).attr("fill", "#858585").attr("fill-opacity", 0).on("mouseover", () => {
-      eventset.cover.attr("fill-opacity", 0.1);
-    }).on("mouseout", () => {
-      eventset.cover.attr("fill-opacity", 0);
-    }).on("click", () => {
-      tk.tktip.clear();
-      displayspliceevents(eventset.eventlst, tk.tktip.d);
-      tk.tktip.showunder(eventset.cover.node());
-    });
-  }
-  const stacks = [0];
-  for (const eventset of allevents) {
-    let x1 = eventset.boxstart - (eventset.labelonright ? 0 : boxlabelspacing + eventset.labelwidth);
-    let x2 = eventset.boxstart + eventset.boxwidth + (eventset.labelonright ? boxlabelspacing + eventset.labelwidth : 0);
-    for (let stackidx = 0; stackidx < stacks.length; stackidx++) {
-      if (x1 > stacks[stackidx]) {
-        eventset.stackidx = stackidx;
-        stacks[stackidx] = x2;
-        break;
-      }
-      if (!eventset.labelonright) {
-        const newx1 = eventset.boxstart;
-        const newx2 = eventset.boxstart + eventset.boxwidth + boxlabelspacing + eventset.labelwidth;
-        if (newx1 > stacks[stackidx] && newx2 <= block.width) {
-          eventset.labelonright = true;
-          eventset.stackidx = stackidx;
-          stacks[stackidx] = newx2;
-          eventset.toplabel.attr("x", eventset.boxwidth + boxlabelspacing).attr("text-anchor", "start");
-          eventset.bottomlabel.attr("x", eventset.boxwidth + boxlabelspacing).attr("text-anchor", "start");
-          if (eventset.middlelabel) {
-            eventset.middlelabel.attr("x", eventset.boxwidth + boxlabelspacing).attr("text-anchor", "start");
-          }
-          eventset.cover.attr("x", 0);
-          break;
-        }
-      }
-    }
-    if (eventset.stackidx == void 0) {
-      eventset.stackidx = stacks.length;
-      stacks.push(x2);
-    }
-    eventset.g.attr(
-      "transform",
-      "translate(" + eventset.boxstart + "," + eventset.stackidx * (stackheight + stackspace) + ")"
-    );
-  }
-  tk.height_main += stacks.length * (stackheight + stackspace) + tk.bottompad;
-  block.block_setheight();
-}
-function checkjunctionframe(arg) {
-  if (!arg.block.genome.junctionframecache.has(arg.jbstr)) {
-    arg.block.genome.junctionframecache.set(arg.jbstr, /* @__PURE__ */ new Map());
-  }
-  if (!arg.gm.coding) {
-    arg.block.genome.junctionframecache.get(arg.jbstr).set(arg.gm.isoform, false);
-    mayupdateeventsetlabel(arg);
-    return;
-  }
-  const gm2 = spliceeventchangegmexon(arg.gm, arg.evt);
-  dofetch2("translategm", { method: "POST", body: JSON.stringify({ genome: arg.block.genome.name, gm: gm2 }) }).then((data) => {
-    if (!data) {
-      console.log("server error");
-      return;
-    }
-    if (data.error) {
-      console.log(data.error);
-      return;
-    }
-    if (typeof data.frame != "boolean") {
-      console.log("invalid result from translategm: " + data.frame);
-      return;
-    }
-    arg.evt.frame = data.frame;
-    arg.block.genome.junctionframecache.get(arg.jbstr).set(arg.gm.isoform, data.frame);
-    mayupdateeventsetlabel(arg);
-  });
-}
-function mayupdateeventsetlabel(arg) {
-  if (!arg.block.genome.junctionframecache.has(arg.jbstr)) {
-    return;
-  }
-  let frame = OUT_frame;
-  for (const evt of arg.eventset.eventlst) {
-    if (evt.framenocheck) {
-      continue;
-    }
-    let isoform;
-    if (evt.isskipexon) {
-      isoform = evt.gm.isoform;
-    }
-    const thisframe = arg.block.genome.junctionframecache.get(arg.jbstr).get(isoform);
-    if (thisframe == void 0) {
-      return;
-    }
-    if (thisframe == IN_frame) {
-      frame = IN_frame;
-    }
-  }
-  arg.eventset.bottomlabel.text(arg.eventset.bottomlabelsays + ", " + (frame == IN_frame ? "IN" : "OUT"));
-}
-function displayspliceevents(events, holder) {
-  const evt2showidx = spliceevent_exonskip_getdefault_default(events);
-  if (events.length > 1) {
-    holder.append("div").style("margin", "3px 0px").style("color", "#858585").text("Additional interpretations:");
-    const name = Math.random().toString();
-    for (const [idx, evt] of events.entries()) {
-      const id = name + idx;
-      const row = holder.append("div").style("margin-top", "3px");
-      row.append("input").attr("type", "radio").property("checked", idx == evt2showidx).attr("name", name).attr("id", id).on("change", () => {
-        displayspliceevents_show(events, idx, showdiv);
-      });
-      row.append("label").attr("for", id).html("&nbsp;" + spliceevent_phrase_default(evt));
-    }
-  }
-  const showdiv = holder.append("div");
-  displayspliceevents_show(events, evt2showidx, showdiv);
-}
-function displayspliceevents_show(events, idx, div) {
-  div.selectAll("*").remove();
-  import("./spliceevent.exonskip.diagram-CZ7MVRLK.js").then((p) => {
-    p.default({
-      event: events[idx],
-      holder: div,
-      nophrase: events.length > 1
-    });
-  });
-}
-function exonlstoutofrange(lst, block) {
-  const chr = lst[0].chr;
-  let start = lst[0].start;
-  let stop = lst[0].stop;
-  for (const e of lst) {
-    start = Math.min(start, e.start);
-    stop = Math.max(stop, e.stop);
-  }
-  const starthit = block.seekcoord(chr, start)[0];
-  const stophit = block.seekcoord(chr, stop)[0];
-  if (!starthit || !stophit) {
-    return true;
-  }
-  let startoutleft = false;
-  let startoutright = false;
-  if (starthit.x <= 0) {
-    startoutleft = true;
-  } else if (starthit.x >= block.width) {
-    startoutright = true;
-  }
-  let stopoutleft = false;
-  let stopoutright = false;
-  if (stophit.x <= 0) {
-    stopoutleft = true;
-  } else if (stophit.x >= block.width) {
-    stopoutright = true;
-  }
-  if (startoutleft && stopoutleft) return true;
-  if (startoutright && stopoutright) return true;
-  return false;
-}
-function getgmdata(block) {
-  if (!block.gmmode || block.gmmode == gmmode.genomic) {
-    const genetk = [];
-    for (const t of block.tklst) {
-      if (t.__isgene) {
-        genetk.push(t);
-      }
-    }
-    if (genetk.length == 0) {
-      return ["Add a gene track to analyze splice junctions."];
-    }
-    const gmdatalst = [];
-    for (const t of genetk) {
-      if (t.gmdata) {
-        for (const m of t.gmdata) {
-          gmdatalst.push(m);
-        }
-      }
-    }
-    if (gmdatalst.length == 0) {
-      return [null];
-    }
-    const regions = [];
-    for (const m of gmdatalst) {
-      let overlap = false;
-      for (const r of regions) {
-        if (Math.max(r.start, m.start) < Math.min(r.stop, m.stop)) {
-          overlap = true;
-          r.start = Math.min(r.start, m.start);
-          r.stop = Math.max(r.stop, m.stop);
-          break;
-        }
-      }
-      if (!overlap) {
-        regions.push({ start: m.start, stop: m.stop });
-      }
-    }
-    if (regions.length >= 3) {
-      return ["Zoom in on a single gene to analyze splice junctions."];
-    }
-    return [null, gmdatalst];
-  }
-  if (block.gmmode == gmmode.gmsum) {
-    if (!block.allgm) {
-      return ["Error: block.allgm[] is missing"];
-    }
-    return [null, block.allgm];
-  }
-  if (!block.usegm) {
-    return ["Error: block.usegm is missing"];
-  }
-  return [null, [block.usegm]];
-}
-
-// src/block.tk.junction.renderjunctions.js
-var import_d3_beeswarm = __toESM(require_d3_beeswarm(), 1);
-var colorfunc = ordinal(category10_default);
-var minfontsize = 12;
-function rendertk(junctions, tk, block) {
-  if (tk.data) {
-    const map = /* @__PURE__ */ new Map();
-    for (const j of tk.data) {
-      map.set(j.chr + "." + j.start + "." + j.stop, j);
-    }
-    const pannedpx = Number.isInteger(block.pannedpx) ? block.pannedpx : 0;
-    for (const i of junctions) {
-      const j = map.get(i.chr + "." + i.start + "." + i.stop);
-      if (j) {
-        i.x = j.x + pannedpx;
-        i.mode = j.mode;
-        i.modefix = j.modefix;
-        if (i.mode == modesample) {
-          i.mode = moderaise;
-        }
-      }
-    }
-  }
-  tk.data = junctions;
-  tk.glider.selectAll("*").remove();
-  tk.leftaxis.selectAll("*").remove();
-  if (tk.readcountcutoff) {
-    const newj = [];
-    for (const j of tk.data) {
-      if (j.data) {
-        const newsamples = [];
-        for (const s of j.data) {
-          if (s.v >= tk.readcountcutoff) {
-            newsamples.push(s);
-          }
-        }
-        if (newsamples.length == 0) {
-          continue;
-        }
-        j.data = newsamples;
-        newj.push(j);
-      } else {
-        if (j.v >= tk.readcountcutoff) {
-          newj.push(j);
-        }
-      }
-    }
-    tk.data = newj;
-  }
-  if (tk.data.length == 0) {
-    tk.height_main = 50;
-    block.tkcloakoff(tk, { error: tk.name + ": No junction in view range" });
-    tk.label_mcount.text("");
-    if (tk.label_samplecount) {
-      tk.label_samplecount.text("");
-    }
-    get_leftLabelMaxwidth(tk);
-    block.setllabel();
-    block.block_setheight();
-    return;
-  }
-  tk.label_mcount.text(tk.data.length + " junction" + (tk.data.length > 1 ? "s" : ""));
-  get_leftLabelMaxwidth(tk);
-  block.setllabel();
-  junctiontype2color(tk, block);
-  const mg = tk.glider.append("g");
-  tk.data.sort((a, b) => {
-    return a._x - b._x;
-  });
-  let maxsamplecount = 0;
-  if (tk.totalsamplecount > 1) {
-    maxsamplecount = tk.data.reduce((max, j) => Math.max(max, j.data.length), 0);
-    const radius = 5;
-    let mrd = 0;
-    const w = Math.pow(radius, 2) * Math.PI;
-    if (maxsamplecount <= 10) {
-      mrd = w * maxsamplecount * 0.9;
-    } else if (maxsamplecount <= 100) {
-      mrd = w * 10;
-    } else if (maxsamplecount <= 1e3) {
-      mrd = w * 14;
-    } else {
-      mrd = w * 20;
-    }
-    const sf_discradius = linear().domain([
-      1,
-      maxsamplecount * 0.5 + 0.1,
-      maxsamplecount * 0.6 + 0.1,
-      maxsamplecount * 0.7 + 0.1,
-      maxsamplecount * 0.8 + 0.1,
-      maxsamplecount
-    ]).range([w, w + (mrd - w) * 0.8, w + (mrd - w) * 0.85, w + (mrd - w) * 0.9, w + (mrd - w) * 0.95, mrd]);
-    let maxradius = 0;
-    for (const j of tk.data) {
-      j.radius = Math.sqrt(sf_discradius(j.data.length) / Math.PI);
-      if (j.data.length > 1) {
-        mg.append("text").attr("font-family", font).attr("font-size", Math.max(minfontsize, j.radius)).text(j.data.length).each(function() {
-          const b = this.getBBox();
-          const newrad = Math.sqrt(Math.pow(b.width, 2) + Math.pow(b.height, 2)) / 2;
-          j.radius = Math.max(j.radius, newrad);
-        }).remove();
-      }
-      j.rimwidth = j.rimcount ? Math.max(2, j.radius / 6) : 0;
-      j.radius2 = j.radius + j.rimwidth + (j.rimwidth > 0 ? 1 : 0);
-      maxradius = Math.max(maxradius, j.radius2);
-    }
-    tk.maxradius = maxradius;
-  } else {
-    maxsamplecount = tk.data.reduce((max, j) => Math.max(max, j.data[0].v), 0);
-    const radius = 5;
-    let mrd = 0;
-    const w = Math.pow(radius, 2) * Math.PI;
-    if (maxsamplecount <= 10) {
-      mrd = w * maxsamplecount * 0.9;
-    } else if (maxsamplecount <= 100) {
-      mrd = w * 5;
-    } else if (maxsamplecount <= 1e3) {
-      mrd = w * 7;
-    } else {
-      mrd = w * 10;
-    }
-    const sf_discradius = linear().domain([
-      1,
-      maxsamplecount * 0.5 + 0.1,
-      maxsamplecount * 0.6 + 0.1,
-      maxsamplecount * 0.7 + 0.1,
-      maxsamplecount * 0.8 + 0.1,
-      maxsamplecount
-    ]).range([w, w + (mrd - w) * 0.8, w + (mrd - w) * 0.85, w + (mrd - w) * 0.9, w + (mrd - w) * 0.95, mrd]);
-    let maxradius = 0;
-    for (const j of tk.data) {
-      j.radius = Math.sqrt(sf_discradius(j.data[0].v) / Math.PI);
-      j.rimwidth = j.rimcount ? Math.max(2, j.radius / 6) : 0;
-      j.radius2 = j.radius + j.rimwidth + (j.rimwidth > 0 ? 1 : 0);
-      maxradius = Math.max(maxradius, j.radius2);
-    }
-    tk.maxradius = maxradius;
-  }
-  let maxread = 0, maxmedian = 0, maxmedianradius = 0;
-  for (const j of tk.data) {
-    for (const s of j.data) {
-      maxread = Math.max(s.v, maxread);
-    }
-    if (j.data.length == 1) {
-      j.median = j.data[0].v;
-    } else {
-      const readlst = j.data.map((s) => s.v);
-      readlst.sort((a, b) => a - b);
-      j.median = readlst[Math.floor(j.data.length / 2)];
-    }
-    if (j.median > maxmedian) {
-      maxmedian = j.median;
-      maxmedianradius = j.radius;
-    }
-  }
-  tk.yscale = log().domain([tk.readcountcutoff || 1, maxread]).range([tk.axisheight, 0]);
-  axisstyle({
-    axis: tk.leftaxis.call(axisRight().scale(tk.yscale).ticks(6, ".0f")),
-    color: "black",
-    showline: true
-  });
-  tk.height_main = tk.toppad + tk.axisheight + tk.maxradius * 4 + tk.padheight + tk.lowpad + tk.legheight + tk.bottompad;
-  tk.eventsg = tk.glider.append("g").attr("transform", "translate(0," + (tk.height_main - tk.toppad) + ")");
-  automode(tk, null, block.width);
-  mg.attr("transform", "translate(0," + (tk.height_main - tk.toppad - tk.bottompad) + ")");
-  {
-    const topy = -tk.legheight - tk.lowpad - tk.maxradius * 4 - tk.padheight - tk.axisheight;
-    mg.append("line").attr("x1", 0).attr("y1", topy).attr("y2", topy).attr("x2", block.width).attr("stroke", "#858585").attr("stroke-opacity", 0.2).attr("shape-rendering", "crispEdges");
-    mg.append("line").attr("x1", 0).attr("y1", topy + tk.axisheight).attr("y2", topy + tk.axisheight).attr("x2", block.width).attr("stroke", "#858585").attr("stroke-opacity", 0.2).attr("shape-rendering", "crispEdges");
-    let v = 10;
-    while (v <= maxread) {
-      mg.append("line").attr("x1", 0).attr("y1", topy + tk.yscale(v)).attr("y2", topy + tk.yscale(v)).attr("x2", block.width).attr("stroke", "#858585").attr("stroke-opacity", 0.2).attr("stroke-dasharray", "4,4").attr("shape-rendering", "crispEdges");
-      v *= 10;
-    }
-  }
-  const jug = mg.selectAll().data(tk.data).enter().append("g").attr("transform", (d) => set_jug(d)).each(function(j) {
-    j.jugg = this;
-  });
-  tk.jug = jug;
-  if (tk.hljunctions) {
-    jug.attr("class", (d) => {
-      for (const j of tk.hljunctions) {
-        if (d.chr == j.chr && d.start == j.start && d.stop == j.stop) {
-          return "sja_pulse";
-        }
-      }
-      return null;
-    });
-  }
-  jug.append("line").attr("stroke", (d) => d.color).attr("x1", (d) => set_leg_x1(d)).attr("y2", (d) => set_leg_y(d, tk)).attr("stroke-opacity", (d) => set_lineopacity(d)).each(function(d) {
-    d.leg1 = this;
-  }).classed("sja_jug_leg1", true);
-  jug.append("line").attr("stroke", (d) => d.color).attr("x2", (d) => set_leg_x2(d)).attr("y1", (d) => set_leg_y(d, tk)).attr("stroke-opacity", (d) => set_lineopacity(d)).classed("sja_jug_leg2", true).each(function(d) {
-    d.leg2 = this;
-  });
-  const jug2 = jug.append("g").attr("class", "sja_jug_jug2").attr("transform", (d) => set_jug2(d, tk));
-  jug2.append("line").attr("stroke", (d) => d.color).classed("sja_jug_stem", true).attr("stroke-dasharray", "2,2").attr("shape-rendering", "crispEdges").attr("y1", (d) => set_stem_y1(d)).attr("y2", (d) => set_stem_y2(d, tk)).attr("stroke-opacity", (d) => set_lineopacity(d)).each(function(d) {
-    d.stem = this;
-  });
-  jug2.append("circle").attr("r", (d) => d.radius).attr("fill", (d) => d.color).attr("stroke", "white").attr("fill-opacity", 0.5);
-  jug2.filter((d) => d.data.length > 1).append("text").text((d) => d.data.length).attr("font-size", (d) => Math.max(minfontsize, d.radius)).attr("fill-opacity", (d) => set_discnum(d)).classed("sja_jug_discnum", true).attr("fill", "white").attr("font-family", font).attr("text-anchor", "middle").attr("dominant-baseline", "central");
-  jug2.append("circle").attr("r", (d) => d.radius).attr("stroke", (d) => d.color).classed("sja_aa_disckick", true).attr("fill", "white").attr("fill-opacity", 0).attr("stroke-opacity", 0).on("mouseover", (event, d) => {
-    jug.selectAll(".sja_jug_leg1").attr("stroke-opacity", 0.2);
-    jug.selectAll(".sja_jug_leg2").attr("stroke-opacity", 0.2);
-    jug.selectAll(".sja_jug_stem").attr("stroke-opacity", 0.2);
-    select_default(d.leg1).attr("stroke-opacity", 1);
-    select_default(d.leg2).attr("stroke-opacity", 1);
-    select_default(d.stem).attr("stroke-opacity", 1);
-    if (d.mode == modefold) {
-      foldedjunctioninfo(d, tk);
-      return;
-    }
-    const circle = event.target.getBoundingClientRect();
-    expandedjunctioninfo(d, tk, circle);
-  }).on("mouseout", () => {
-    tk.pica.g.selectAll("*").remove();
-    tk.tktip.hide();
-    jug.selectAll(".sja_jug_leg1").attr("stroke-opacity", (d) => set_lineopacity(d));
-    jug.selectAll(".sja_jug_leg2").attr("stroke-opacity", (d) => set_lineopacity(d));
-    jug.selectAll(".sja_jug_stem").attr("stroke-opacity", (d) => set_lineopacity(d));
-  }).on("mousedown", (event) => {
-    event.stopPropagation();
-  }).on("click", (event, d) => {
-    if (d.mode == modefold) {
-      d.mode = moderaise;
-    } else if (d.mode == moderaise) {
-      if (d.data.length == 1) {
-        d.mode = modefold;
-      } else {
-        d.mode = modesample;
-        junctionsamplespread(d, tk, block);
-      }
-    } else {
-      d.mode = modefold;
-    }
-    d.modefix = true;
-    horiplace(tk.data, block.width, tk);
-  });
-  horiplace(tk.data, block.width, tk);
-  function set_lineopacity(d) {
-    return 0.5;
-  }
-  block.onloadalltk.push(() => {
-    spliceeventanalyze(tk, block);
-  });
-  block.tkcloakoff(tk, {});
-  block.block_setheight();
-}
-function horiplace(lst, width, tk) {
-  const todo = [];
-  for (const i of lst) {
-    if (i.x0 < 0) {
-      i.tox = i.x1 - i.radius2 * 2;
-    } else if (i.x1 > width) {
-      i.tox = i.x0 + i.radius2 * 2;
-    } else {
-      i.tox = i._x;
-    }
-    if (i.mode == modefold) {
-      i.x = i.tox;
-    } else {
-      todo.push(i);
-    }
-  }
-  for (const i of lst) {
-    i.x = i.tox;
-  }
-  set_all(tk);
-  return;
-}
-function automode(tk, usemode, blockwidth) {
-  for (const i of tk.data) {
-    if (!i.mode) i.mode = moderaise;
-  }
-  return;
-  const samplecountlst = [];
-  for (let i = 0; i < tk.data.length; i++) {
-    samplecountlst.push({
-      idx: i,
-      count: tk.data[i].data ? tk.data[i].data.length : tk.data[i].v
-    });
-  }
-  samplecountlst.sort((a, b) => b.count - a.count);
-  let cumx = 0;
-  for (const cc of samplecountlst) {
-    const d = tk.data[cc.idx];
-    if (!d.mode) {
-      cumx += d.radius2 * 2;
-      d.mode = cumx >= blockwidth ? modefold : moderaise;
-    } else {
-      if (d.modefix) {
-        if (d.mode != modefold) {
-          cumx += d.radius2 * 2;
-        }
-      } else {
-        if (usemode) {
-          d.mode = usemode;
-          if (d.mode != modefold) {
-            cumx += d.radius2 * 2;
-          }
-        } else {
-          cumx += d.radius2 * 2;
-          d.mode = cumx >= blockwidth ? modefold : moderaise;
-        }
-      }
-    }
-  }
-}
-function set_jug(d) {
-  return "translate(" + d.x + ",0)";
-}
-function set_leg_x1(d) {
-  return d.x0 - d.x;
-}
-function set_leg_x2(d) {
-  return d.x1 - d.x;
-}
-function set_discnum(d) {
-  return d.mode == modefold ? 0 : 1;
-}
-function set_stem_y1(d) {
-  if (d.mode == modefold) return d.radius;
-  return d.radius2;
-}
-function set_qmg(d, tk) {
-  if (d.mode == modesample)
-    return "translate(0,-" + (tk.legheight + tk.maxradius * 4 + tk.lowpad + tk.padheight) + ") scale(1)";
-  return "translate(0,0) scale(0)";
-}
-function set_leg_y(d, tk) {
-  if (d.mode == modefold) return -tk.legheight;
-  return -tk.legheight - tk.lowpad - tk.maxradius * 2;
-}
-function set_jug2(d, tk) {
-  if (d.mode == modefold) return "translate(0,-" + (tk.legheight + tk.lowpad + d.radius) + ")";
-  if (d.mode == moderaise)
-    return "translate(0,-" + (tk.legheight + tk.lowpad + tk.maxradius * 4 + tk.padheight + tk.axisheight - tk.yscale(d.median)) + ")";
-  return "translate(0,-" + (tk.legheight + tk.lowpad + tk.maxradius * 3 + tk.padheight) + ")";
-}
-function set_stem_y2(d, tk) {
-  if (d.mode == modefold) return d.radius + tk.lowpad;
-  if (d.mode == moderaise) return tk.padheight + tk.maxradius * 2 + tk.axisheight - tk.yscale(d.median);
-  return tk.maxradius + tk.padheight;
-}
-function set_all(tk) {
-  const dur = 500;
-  if (tk.totalsamplecount > 1) {
-    tk.jug.selectAll(".sja_jug_qmg").transition().duration(dur).attr("transform", (d) => set_qmg(d, tk));
-    tk.jug.selectAll(".sja_jug_discnum").transition().duration(dur).attr("fill-opacity", (d) => set_discnum(d));
-  }
-  tk.jug.selectAll(".sja_jug_leg1").transition().duration(dur).attr("y2", (d) => set_leg_y(d, tk)).attr("x1", (d) => set_leg_x1(d));
-  tk.jug.selectAll(".sja_jug_leg2").transition().duration(dur).attr("y1", (d) => set_leg_y(d, tk)).attr("x2", (d) => set_leg_x2(d));
-  tk.jug.selectAll(".sja_jug_jug2").transition().duration(dur).attr("transform", (d) => set_jug2(d, tk));
-  tk.jug.selectAll(".sja_jug_stem").transition().duration(dur).attr("y2", (d) => set_stem_y2(d, tk)).attr("y1", (d) => set_stem_y1(d));
-  tk.jug.transition().duration(dur).attr("transform", (d) => set_jug(d));
-}
-function junctiontype2color(tk, block) {
-  for (const j of tk.data) {
-    j.color = defaultcolor;
-  }
-  if (tk.nocatepreconfig) {
-    let categories = {};
-    if (tk.categories) {
-      categories = tk.categories;
-    }
-    let hasnewtype = false;
-    for (const j of tk.data) {
-      if (j.type) {
-        if (!categories[j.type]) {
-          hasnewtype = true;
-          categories[j.type] = {
-            label: j.type
-          };
-          if (j.type.toLowerCase() == "known") {
-            categories[j.type].color = "#0C72A8";
-          } else if (j.type.toLowerCase() == "novel") {
-            categories[j.type].color = "#A80C33";
-          } else {
-            categories[j.type].color = colorfunc(j.type);
-          }
-        }
-      }
-    }
-    if (hasnewtype) {
-      tk.categories = categories;
-      if (!tk.tr_legend) {
-        const [tr, td] = legend_newrow(block, tk.name);
-        tk.tr_legend = tr;
-        tk.td_legend = td;
-        tr.style("display", "none");
-        appear(tr, "table-row");
-      }
-      category2legend(tk.categories, tk.td_legend);
-    }
-  }
-  if (tk.categories) {
-    for (const j of tk.data) {
-      if (j.type && tk.categories[j.type]) {
-        j.color = tk.categories[j.type].color;
-      }
-    }
-  }
-}
-function foldedjunctioninfo(d, tk) {
-  const fontsize = 15;
-  let pad = 5, y = pad, width = 0;
-  const bg = tk.pica.g.append("rect").attr("stroke", d.color).attr("shape-rendering", "crispEdges").attr("fill", "white").attr("fill-opacity", 0.8);
-  if (d.type) {
-    tk.pica.g.append("text").text(d.type).attr("fill", d.color).attr("font-size", fontsize - 2).attr("font-family", font).attr("x", pad).attr("y", y + fontsize / 2).attr("dominant-baseline", "central").each(function() {
-      width = this.getBBox().width;
-    });
-    y += fontsize;
-  }
-  if (d.data) {
-    tk.pica.g.append("text").text(d.data.length + " sample" + (d.data.length > 1 ? "s" : "")).attr("fill", "#858585").attr("font-size", fontsize - 2).attr("font-family", font).attr("x", pad).attr("y", y + fontsize / 2).attr("dominant-baseline", "central").each(function() {
-      width = Math.max(width, this.getBBox().width);
-    });
-    y += fontsize;
-    tk.pica.g.append("text").text(d.median + " median").attr("fill", "#858585").attr("font-size", fontsize - 2).attr("font-family", font).attr("x", pad).attr("y", y + fontsize / 2).attr("dominant-baseline", "central").each(function() {
-      width = Math.max(width, this.getBBox().width);
-    });
-    y += fontsize;
-  } else {
-    tk.pica.g.append("text").text(d.v + " reads").attr("fill", "#858585").attr("font-size", fontsize - 2).attr("font-family", font).attr("x", pad).attr("y", y + fontsize / 2).attr("dominant-baseline", "central").each(function() {
-      width = Math.max(width, this.getBBox().width);
-    });
-    y += fontsize;
-  }
-  y += pad;
-  bg.attr("width", pad * 2 + width).attr("height", y);
-  tk.pica.g.append("line").attr("stroke", d.color).attr("shape-rendering", "crispEdges").attr("x1", 30).attr("x2", 30).attr("y1", y).attr("y2", y + 15);
-  y += 15;
-  tk.pica.g.attr(
-    "transform",
-    "translate(" + (d.x - 30) + "," + (tk.toppad + tk.axisheight + tk.maxradius * 4 + tk.padheight - d.radius * 2 - y) + ")"
-  );
-}
-function expandedjunctioninfo(d, tk, circle) {
-  tk.tktip.clear();
-  const holder = tk.tktip.d;
-  if (d.type) {
-    holder.append("div").style("display", "inline-block").text(d.type).classed("sja_mcdot", true).style("background-color", d.color).style("padding", "1px 8px").style("margin-bottom", "3px");
-  }
-  holder.append("div").html(
-    bplen(d.stop - d.start) + ' <span style="font-size:.8em;">' + d.chr + ":" + (d.start + 1) + "-" + (d.stop + 1) + "</span>"
-  );
-  if (d.data) {
-    if (d.data.length > 1) {
-      holder.append("div").html(d.data.length + ' <span style="font-size:.8em;color:#858585">samples</span>');
-      if (d.rimcount) {
-        holder.append("div").html(d.rimcount + ' <span style="font-size:.8em;color:#858585">show ' + tk.rimwhat + "</span>");
-      }
-      holder.append("div").html(d.median + ' <span style="font-size:.8em;color:#858585">median read count</span>');
-    } else if (d.data.length == 1) {
-      samplejunctiontooltip(d, d.data[0], tk, holder);
-    }
-  } else {
-    holder.append("div").html(d.v + ' <span style="font-size:.8em;color:#858585">read count</span>');
-  }
-  if (d.spliceevents && d.spliceevents.length > 0) {
-    const renderdiv = holder.append("div").style("margin", "10px 0px");
-    displayspliceevents(d.spliceevents, renderdiv);
-  }
-  tk.tktip.show(circle.left + circle.width, circle.top - 50);
-}
-function junctionsamplespread(j, tk, block) {
-  if (j.qmg) {
-    j.qmg.remove();
-  }
-  if (tk.cohortsetting && tk.cohortsetting.uselevelidx != void 0) {
-    for (const d of j.data) {
-      if (!d[tk.cohortsetting.cohort.levels[0].k]) {
-        d.color = "gray";
-        continue;
-      }
-      const levelkeys = [];
-      for (let lidx = 0; lidx <= tk.cohortsetting.uselevelidx; lidx++) {
-        const levelvalue = d[tk.cohortsetting.cohort.levels[lidx].k];
-        if (levelvalue) {
-          levelkeys.push(levelvalue);
-        }
-      }
-      const str = levelkeys.join(tk.cohortsetting.levelseparator);
-      d.color = tk.cohortsetting.colorfunc(str);
-    }
-  }
-  j.swarm = (0, import_d3_beeswarm.beeswarm)().data(j.data).distributeOn((d) => tk.axisheight - tk.yscale(d.v)).radius(tk.qmradius).orientation("vertical").side("symetric").arrange();
-  const jugg = select_default(j.jugg);
-  j.qmg = jugg.append("g").attr("class", "sja_jug_qmg").attr("transform", set_qmg(j, tk));
-  const opacity = 0.8;
-  j.qmg.selectAll().data(j.swarm).enter().append("circle").attr("cx", 0).attr("cy", (bee) => -bee.y).attr("r", tk.qmradius).attr("fill", (bee) => {
-    return bee.datum.color || "green";
-  }).attr("fill-opacity", opacity).on("mousedown", (event) => event.stopPropagation()).on("mousemove", (event) => event.stopPropagation()).on("mouseover", (event, bee) => {
-    select_default(event.target).attr("fill-opacity", 1);
-    const p = event.target.getBoundingClientRect();
-    tk.tktip.clear();
-    tk.tktip.show(p.left + 20, p.top - 40);
-    samplejunctiontooltip(j, bee.datum, tk, tk.tktip.d);
-  }).on("mouseout", (event) => select_default(event.target).attr("fill-opacity", opacity)).on("click", (event, bee) => {
-    if (tk.tracks) {
-      return;
-    }
-  }).transition().attr("cx", (bee) => bee.x);
-}
-function samplejunctiontooltip(j, sample, tk, holder) {
-  if (sample.sample) {
-    holder.append("div").html(sample.sample);
-  } else if (sample.name) {
-    holder.append("div").html(sample.name);
-  } else if (sample.patient || sample.sampletype) {
-    if (sample.patient) {
-      holder.append("div").html(sample.patient + ' <span style="font-size:.7em;color:#858585">patient</span>');
-    }
-    if (sample.sampletype) {
-      holder.append("div").html(sample.sampletype + ' <span style="font-size:.7em;color:#858585">sample type</span>');
-    }
-  } else if (sample.tkid) {
-    for (const t of tk.tracks) {
-      if (t.tkid == sample.tkid) {
-        holder.append("div").text(t.name || "unnamed member");
-        break;
-      }
-    }
-  }
-  if (tk.cohortsetting && tk.cohortsetting.cohort && tk.cohortsetting.cohort.levels) {
-    for (const lev of tk.cohortsetting.cohort.levels) {
-      if (sample[lev.k]) {
-        holder.append("div").html(sample[lev.k] + ' <span style="font-size:.7em;color:#858585">' + lev.label + "</span>");
-      }
-    }
-  }
-  holder.append("div").html(sample.v + ' <span style="font-size:.7em;color:#858585">read count</span>');
-  if (sample.metadata) {
-    holder.append("div").html(
-      '<span style="background-color:' + sample.metadata.color + '" class=sja_mcdot>&nbsp;</span> ' + sample.metadata.value + ' <span style="font-size:.7em;color:#858585">' + tk.metadata.m.label + "</span>"
-    );
-  }
-  if (sample.hasrim) {
-    holder.append("div").text(tk.rimwhat);
-  }
-  if (j.spliceevents) {
-    const evtidx = spliceevent_exonskip_getdefault_default(j.spliceevents);
-    const evt = j.spliceevents[evtidx];
-    const skipwhichexon = "exon " + evt.skippedexon.map((i) => i + 1).join(",") + " " + (evt.isskipexon ? "skip" : "alt. use");
-    let jbcount = 0;
-    if (evt.junctionB && evt.junctionB.data) {
-      for (const d of evt.junctionB.data) {
-        if (d.tkid == sample.tkid) {
-          jbcount = d.v;
-          break;
-        }
-      }
-    }
-    let acountsum = 0;
-    if (evt.junctionAlst) {
-      for (const ja of evt.junctionAlst) {
-        if (ja && ja.data) {
-          for (const d of ja.data) {
-            if (d.tkid == sample.tkid) {
-              acountsum += d.v;
-              break;
-            }
-          }
-        }
-      }
-    }
-    let percent;
-    if (jbcount == 0) {
-      percent = 0;
-    } else {
-      percent = Math.ceil(100 * jbcount / (jbcount + acountsum / evt.junctionAlst.length));
-    }
-    holder.append("div").html(percent + '% <span style="font-size:.7em;color:#858585;">' + skipwhichexon + "</span>");
-  }
-}
-function get_leftLabelMaxwidth(tk) {
-  const collectlabw = [];
-  tk.tklabel.each(function() {
-    collectlabw.push(this.getBBox().width);
-  });
-  if (tk.label_mcount) {
-    tk.label_mcount.each(function() {
-      collectlabw.push(this.getBBox().width);
-    });
-  }
-  tk.leftLabelMaxwidth = Math.max(...collectlabw);
-}
-
-// src/block.tk.junction.js
-var binpxw = 5;
-var modefold = 1;
-var moderaise = 2;
-var modesample = 3;
-var labyspace = 5;
-function makeTk(tk, block) {
-  tk.leftaxis = tk.gleft.append("g");
-  let laby = labyspace + block.labelfontsize;
-  const thistip = new Menu({ padding: "none" });
-  tk.label_mcount = block.maketklefthandle(tk, laby).on("click", (event) => {
-    label_mcount_fillpane(tk, block, thistip);
-  });
-  laby += labyspace + block.labelfontsize;
-  tk.totalsamplecount = 0;
-  tk.height_main = 100;
-  tk.config_handle = block.maketkconfighandle(tk).on("click", (event) => configpanel(tk, block));
-  if (tk.categories || tk.cohortsetting) {
-    const [tr, td] = legend_newrow(block, tk.name);
-    tk.tr_legend = tr;
-    tk.td_legend = td;
-  }
-  if (tk.categories) {
-    category2legend(tk.categories, tk.td_legend);
-  }
-  if (tk.cohortsetting) {
-    tk.cohortsetting.holder = tk.td_legend.append("div").style("margin-top", "10px");
-    tk.cohortsetting.legendholder = tk.cohortsetting.holder.append("div");
-  }
-}
-function junctionload(tk, block) {
-  if (tk.uninitialized) {
-    makeTk(tk, block);
-    delete tk.uninitialized;
-  }
-  if ((block.zoomedin || block.resized) && tk.data) {
-    const junc = [];
-    for (const i of tk.data) {
-      const oldx = i.x;
-      const e = j2block(i, block);
-      if (e) {
-        continue;
-      }
-      if (i.x0 >= 0 && i.x0 <= block.width || i.x1 >= 0 && i.x1 <= block.width) {
-        i.x = oldx;
-        junc.push(i);
-      }
-    }
-    rendertk(junc, tk, block);
-    return;
-  }
-  if (tk.fixeddata) {
-    block.tkcloakon(tk);
-    const junc2 = [];
-    for (const j of tk.fixeddata) {
-      const j2 = {
-        chr: j.chr,
-        start: j.start,
-        stop: j.stop,
-        data: j.data,
-        type: j.type
-      };
-      const e = j2block(j2, block);
-      if (e) {
-        continue;
-      }
-      junc2.push(j2);
-    }
-    tk.totalsamplecount = tk.tracks[0].samplecount;
-    tk.axisheight = 200;
-    tk.legheight = 50;
-    tk.bottompad = 0;
-    tk.qmradius = 2;
-    tk.lowpad = 15;
-    tk.padheight = 10;
-    rendertk(junc2, tk, block);
-    return;
-  }
-  if (!tk.tracks) {
-    block.tkcloakoff(tk, { error: "neither .tracks[] or .fixeddata[] are available" });
-    tk.height_main = 50;
-    block.block_setheight();
-    return;
-  }
-  block.block_setheight();
-  block.tkcloakon(tk);
-  const bincount = Math.ceil(block.width / binpxw);
-  let bins = null;
-  let donenum = 0;
-  const tasks = [];
-  const allfiledata = [];
-  for (const t of tk.tracks) {
-    const getheader = new Promise((resolve, reject) => {
-      if (t.rnapegfile) {
-        t.samplecount = 1;
-        return resolve();
-      }
-      if (t.samplecount != void 0 && t.checkedheader) return resolve();
-      const par = {};
-      if (t.file) {
-        par.file = t.file;
-      } else {
-        par.url = t.url;
-        if (t.indexURL) par.indexURL = t.indexURL;
-      }
-      dofetch3("tabixheader", { body: par }).then((data) => {
-        if (data.error) return reject("cannot load header for member track " + t.name + ": " + data.error);
-        t.checkedheader = true;
-        const str = data.lines.join("");
-        if (!str) {
-        } else {
-          const l = str.trim().split("	");
-          t.headersamples = [];
-          for (let i = 5; i < l.length; i++) {
-            const str2 = l[i];
-            let j = null;
-            if (str2[0] == "{" && str2[str2.length - 1] == "}") {
-              try {
-                j = JSON.parse(str2);
-              } catch (e) {
-                console.error("header line field [" + i + "] is broken json: " + str2);
-              }
-            }
-            if (j) {
-              j.tkid = Math.random().toString();
-              t.headersamples.push(j);
-            } else {
-              t.headersamples.push({
-                name: l[i],
-                tkid: Math.random().toString()
-              });
-            }
-          }
-          t.samplecount = t.headersamples.length;
-          tk.totalsamplecount += t.samplecount;
-        }
-        resolve();
-      });
-    });
-    const getdata = new Promise((resolve, reject) => {
-      getheader.then(() => {
-        const par = {
-          genome: block.genome.name,
-          rglst: block.tkarg_maygm(t)
-        };
-        if (bincount) par.bincount = bincount;
-        if (t.file || t.rnapegfile) {
-          par.file = t.file || t.rnapegfile;
-        } else {
-          par.url = t.url;
-          if (t.indexURL) par.indexURL = t.indexURL;
-        }
-        if (t.rnapegfile) {
-          par.isrnapeg = 1;
-        }
-        dofetch3("termdb/junction/onesampletk", { body: par }).then((data) => {
-          donenum++;
-          if (tk.tracks.length > 1) {
-            block.tkprogress(tk, donenum / tk.tracks.length);
-          }
-          if (!data) reject("server error for getting member track " + t.name);
-          if (data.error) reject("Cannot get data: " + data.error);
-          if (!data.lst && !data.bins) reject("wrong response when getting data for " + t.name);
-          if (data.lst) {
-            if (data.lst[0] && data.lst[0].rawdata && t.samplecount == void 0) {
-              t.samplecount = data.lst[0].rawdata.length;
-              tk.totalsamplecount += t.samplecount;
-            }
-            if (bins) {
-            } else {
-              const thisfilejunctions = [];
-              for (const k of data.lst) {
-                k.data = [];
-                for (let i = 0; i < k.rawdata.length; i++) {
-                  const v = k.rawdata[i];
-                  if (!Number.isInteger(v) || v <= 0) {
-                    continue;
-                  }
-                  const s = { v };
-                  if (t.headersamples) {
-                    const s0 = t.headersamples[i];
-                    if (s0) {
-                      for (const _k in s0) {
-                        s[_k] = s0[_k];
-                      }
-                    }
-                  } else {
-                    if (t.name) s.name = t.name;
-                    if (t.sample) s.sample = t.sample;
-                    if (t.patient) s.patient = t.patient;
-                    if (t.sampeltype) s.sampletype = t.sampletype;
-                    if (t.tkid) s.tkid = t.tkid;
-                    if (t.file) s.file = t.file;
-                    if (t.url) s.url = t.url;
-                    if (t.indexURL) s.indexURL = t.indexURL;
-                  }
-                  k.data.push(s);
-                }
-                delete k.rawdata;
-                thisfilejunctions.push(k);
-              }
-              resolve(thisfilejunctions);
-            }
-          } else {
-          }
-        });
-      }).catch((err) => reject(err));
-    });
-    tasks.push(getdata);
-  }
-  Promise.all(tasks).then((data) => {
-    const junc = [];
-    data.forEach((dat) => {
-      if (!dat) return;
-      dat.forEach((k) => {
-        let notfound = true;
-        for (const j of junc) {
-          if (j.start == k.start && j.stop == k.stop) {
-            j.data = j.data.concat(k.data);
-            notfound = false;
-            break;
-          }
-        }
-        if (notfound) {
-          junc.push(k);
-        }
-      });
-    });
-    for (const j of junc) {
-      j2block(j, block);
-    }
-    for (const j of junc) {
-      smuggleattributes(j);
-    }
-    if (!tk.axisheight) {
-      if (tk.totalsamplecount > 1) {
-        tk.axisheight = 200;
-        tk.legheight = 50;
-        tk.bottompad = 0;
-        tk.qmradius = 2;
-        tk.lowpad = 15;
-        tk.padheight = 10;
-      } else {
-        tk.axisheight = 100;
-        tk.legheight = 20;
-        tk.bottompad = 0;
-        tk.lowpad = 10;
-        tk.padheight = 10;
-      }
-      if (tk.cohortsetting) {
-        initcohortsetting(tk, block);
-      }
-    }
-    rendertk(junc, tk, block);
-  }).catch((err) => {
-    tk.glider.selectAll("*").remove();
-    block.tkcloakoff(tk, { error: err });
-    block.block_setheight();
-  });
-}
-function j2block(j, block) {
-  const starthit = block.seekcoord(j.chr, j.start)[0];
-  if (!starthit) {
-    return true;
-  }
-  const stophit = block.seekcoord(j.chr, j.stop)[0];
-  if (!stophit) {
-    return true;
-  }
-  const startout = starthit.x < 0 || starthit.x > block.width;
-  const stopout = stophit.x < 0 || stophit.x > block.width;
-  if (startout && stopout) {
-    return true;
-  }
-  j.x0 = starthit.x;
-  j.x1 = stophit.x;
-  j.x = (j.x0 + j.x1) / 2;
-  j._x = j.x;
-  if (!j.modefix) {
-    j.mode = moderaise;
-  }
-  return false;
-}
-function smuggleattributes(j) {
-}
-function label_mcount_fillpane(tk, block, tip) {
-  tip.clear();
-  const holder = tip.d;
-  const types = /* @__PURE__ */ new Map();
-  for (const j of tk.data) {
-    if (!j.type) continue;
-    if (!types.has(j.type)) {
-      types.set(j.type, []);
-    }
-    if (j.data) {
-      types.get(j.type).push(j.data.map((i) => i.v));
-    } else {
-      types.get(j.type).push(j.v);
-    }
-  }
-  if (types.size) {
-    const d = holder.append("div").style("margin", "8px");
-    for (const [type, valuelst] of types) {
-      d.append("div").style("margin", "2px").html(
-        valuelst.length + ' <span style="font-size:.8em;color:' + tk.categories[type].color + '">' + type + " junction" + (valuelst.length > 1 ? "s" : "") + "</span>"
-      );
-      let vlst = valuelst;
-      if (tk.tracks) {
-        vlst = [];
-        for (const l of valuelst) {
-          vlst.push(...l);
-        }
-      }
-      if (vlst.length == 1) {
-      } else {
-        d.append("table").style("margin-left", "20px").html(
-          '<tr><td style="text-align:right;">' + Math.max(...vlst) + '</td><td style="color:#858585;font-size:.7em">max read count</td></tr><tr><td style="text-align:right;">' + Math.min(...vlst) + '</td><td style="color:#858585;font-size:.7em">min</td></tr><tr><td style="text-align:right;">' + Math.ceil(vlst.reduce((i, j) => j + i, 0) / vlst.length) + '</td><td style="color:#858585;font-size:.7em">mean</td></tr>'
-        );
-      }
-    }
-  } else {
-    let vlst = [];
-    if (tk.tracks) {
-      for (const j of tk.data) {
-        vlst.push(...j.data.map((i) => i.v));
-      }
-    } else {
-      vlst = tk.data.map((j) => j.v);
-    }
-    if (vlst.length > 1) {
-      holder.append("table").html(
-        '<tr><td style="text-align:right;">' + Math.max(...vlst) + '</td><td style="color:#858585;font-size:.7em">max read count</td></tr><tr><td style="text-align:right;">' + Math.min(...vlst) + '</td><td style="color:#858585;font-size:.7em">min</td></tr><tr><td style="text-align:right;">' + Math.ceil(vlst.reduce((i, j) => j + i, 0) / vlst.length) + '</td><td style="color:#858585;font-size:.7em">mean</td></tr>'
-      );
-    }
-  }
-  holder.append("div").text("Fold").classed("sja_menuoption", true).on("click", (event) => {
-    tip.hide();
-    for (const j of tk.data) {
-      j.mode = modefold;
-      j.modefix = true;
-    }
-    horiplace(tk.data, block.width, tk);
-  });
-  holder.append("div").text("Expand").classed("sja_menuoption", true).on("click", (event) => {
-    tip.hide();
-    for (const j of tk.data) {
-      j.modefix = false;
-    }
-    automode(tk, null, block.width);
-    for (const j of tk.data) {
-      j.modefix = true;
-    }
-    horiplace(tk.data, block.width, tk);
-  });
-  holder.append("div").text("Download").classed("sja_menuoption", true).on("click", (event) => {
-    tip.hide();
-    downloadjunctions(tk);
-  });
-  tip.showunder(tk.label_mcount.node());
-}
-function downloadjunctions(tk) {
-  const txt = [];
-  if (tk.file || tk.url) {
-    if (tk.data) {
-      txt.push("chromosome	start	stop	read_count" + (tk.categories ? "	type" : ""));
-      for (const j of tk.data) {
-        txt.push(j.chr + "	" + j.start + "	" + j.stop + "	" + j.v + (tk.categories ? "	" + j.type : ""));
-      }
-    }
-  } else if (tk.tracks) {
-    if (tk.data) {
-      const header = ["chromosome	start	stop" + (tk.categories ? "	type" : "")];
-      for (const t of tk.tracks) {
-        const lst = [];
-        if (t.patient) lst.push(t.patient);
-        if (t.sampletype) lst.push(t.sampletype);
-        if (lst.length == 0) {
-          lst.push(t.name);
-        }
-        header.push(lst.join(", "));
-      }
-      txt.push(header.join("	"));
-      for (const j of tk.data) {
-        const lst = [j.chr + "	" + j.start + "	" + j.stop + (tk.categories ? "	" + j.type : "")];
-        const hash = /* @__PURE__ */ new Map();
-        for (const jsample of j.data) {
-          hash.set(jsample.tkid, jsample.v);
-        }
-        for (const t of tk.tracks) {
-          lst.push(hash.has(t.tkid) ? hash.get(t.tkid) : "");
-        }
-        txt.push(lst.join("	"));
-      }
-    }
-  }
-  export_data(tk.name, [{ label: "Splice junction", text: txt.join("\n") }]);
-}
-function configpanel(tk, block) {
-  tk.tkconfigtip.clear().showunder(tk.config_handle.node());
-  const holder = tk.tkconfigtip.d;
-  {
-    const row = holder.append("div").style("margin-bottom", "10px");
-    row.append("span").html("Read count cutoff&nbsp;");
-    row.append("input").property("value", tk.readcountcutoff || 0).attr("type", "number").style("width", "50px").on("keyup", (event) => {
-      if (!keyupEnter(event)) return;
-      const v = Number.parseFloat(event.target.value);
-      if (v == 0) {
-        if (tk.readcountcutoff) {
-          tk.readcountcutoff = 0;
-          junctionload(tk, block);
-        } else {
-        }
-        return;
-      }
-      if (!v || v < 0) {
-        return;
-      }
-      if (tk.readcountcutoff) {
-        if (tk.readcountcutoff == v) {
-        } else if (tk.readcountcutoff > v) {
-          tk.readcountcutoff = v;
-          junctionload(tk, block);
-        } else {
-          tk.readcountcutoff = v;
-          rendertk(tk.data, tk, block);
-        }
-      } else {
-        tk.readcountcutoff = v;
-        junctionload(tk, block);
-      }
-    });
-    const note = row.append("div").style("font-size", ".7em").style("color", "#858585");
-    if (tk.totalsamplecount > 1) {
-      note.text("For a junction, samples with read count lower than cutoff will not be shown.");
-    } else {
-      note.text("Junctions with read count lower than cutoff will not be shown.");
-    }
-  }
-}
-function initcohortsetting(tk, block) {
-  if (!tk.cohortsetting.cohort) {
-    sayerror(tk.cohortsetting.holder, ".cohort missing from tk.cohortsetting");
-    return;
-  }
-  if (!tk.cohortsetting.cohort.levels) {
-    sayerror(tk.cohortsetting.holder, ".levels missing from tk.cohortsetting.cohort");
-    return;
-  }
-  if (!tk.cohortsetting.cohort.levels[0]) {
-    sayerror(tk.cohortsetting.holder, "tk.cohortsetting.cohort.levels[0] is invalid");
-    return;
-  }
-  tk.cohortsetting.levelseperator = ".";
-  tk.cohortsetting.uselevelidx = 0;
-  setcohortlegend_usecohortlevel(tk, block);
-}
-function setcohortlegend_usecohortlevel(tk, block) {
-  tk.cohortsetting.legendholder.selectAll("*").remove();
-  tk.cohortsetting.colorfunc = ordinal(category10_default);
-  const stratkey2count = /* @__PURE__ */ new Map();
-  for (const t of tk.tracks) {
-    for (const s of t.headersamples) {
-      if (!s[tk.cohortsetting.cohort.levels[0].k]) {
-        continue;
-      }
-      const thissamplekeys = [];
-      for (let lidx = 0; lidx <= tk.cohortsetting.uselevelidx; lidx++) {
-        const thislevelkey = s[tk.cohortsetting.cohort.levels[lidx].k];
-        if (thislevelkey) {
-          thissamplekeys.push(thislevelkey);
-        }
-      }
-      const str = thissamplekeys.join(tk.cohortsetting.levelseperator);
-      if (!stratkey2count.has(str)) {
-        stratkey2count.set(str, {
-          count: 0,
-          label: s[tk.cohortsetting.cohort.levels[tk.cohortsetting.uselevelidx].full]
-        });
-      }
-      stratkey2count.get(str).count++;
-    }
-  }
-  const sorteditems = [...stratkey2count].sort((a, b) => b[1].count - a[1].count);
-  for (const item of sorteditems) {
-    const color = tk.cohortsetting.colorfunc(item[0]);
-    const label = item[1].label;
-    const row = tk.cohortsetting.legendholder.append("div").style("margin-top", "5px");
-    row.append("div").style("display", "inline-block").attr("class", "sja_mcdot").style("background-color", color).style("margin-right", "10px").html("&nbsp;&nbsp;");
-    row.append("div").style("display", "inline-block").text(label);
-  }
-}
-export {
-  junctionload,
-  modefold,
-  moderaise,
-  modesample
-};
-//# sourceMappingURL=block.tk.junction-5DEVBA7G.js.map