@sjcrh/proteinpaint-client 2.146.4-1 → 2.147.1

package/dist/chunk-GKVUVJ3F.js

@@ -0,0 +1,226 @@
+import {
+  get_bin_label,
+  get_bin_range_equation
+} from "./chunk-EUFBKP6Q.js";
+import {
+  linear
+} from "./chunk-W2IWHXLL.js";
+import {
+  drag_default
+} from "./chunk-UJUXE42U.js";
+import {
+  pointer_default,
+  select_default
+} from "./chunk-NDWTN4U5.js";
+
+// termsetting/handlers/density.ts
+async function setDensityPlot(self) {
+  if (!self.num_obj) throw `Missing density data [density.ts setDensityPlot()]`;
+  const numObj = self.num_obj;
+  if (numObj.density_data.max == numObj.density_data.min) {
+    handleNoDensity(self);
+    numObj.brushes.forEach((brush) => {
+      if (brush.range.stop > numObj.density_data.min) brush.init();
+    });
+  } else {
+    self.vr.render();
+    self.num_obj.binsize_g = self.num_obj.svg.append("g").attr("transform", `translate(${numObj.plot_size.xpad}, ${numObj.plot_size.ypad})`).attr("class", "binsize_g");
+    const maxvalue = numObj.density_data.max;
+    const minvalue = numObj.density_data.min;
+    self.num_obj.xscale = linear().domain([minvalue, maxvalue]).range([numObj.plot_size.xpad, numObj.plot_size.width + numObj.plot_size.xpad]);
+    self.num_obj.ranges = [];
+    if (self.q.first_bin) {
+      self.num_obj.ranges.push(self.q.first_bin);
+      self.num_obj.ranges[0].bin = "first";
+    }
+    if (self.q.last_bin) {
+      self.num_obj.ranges.push(self.q.last_bin);
+      self.num_obj.ranges[1].bin = "last";
+    }
+    self.num_obj.brushes = [];
+    renderBinLines(self, self.q);
+  }
+  self.renderBinLines = renderBinLines;
+}
+function handleNoDensity(self) {
+  self.num_obj.no_density_data = true;
+  self.num_obj.ranges = [];
+  if (self.q.first_bin) {
+    self.num_obj.ranges.push(self.q.first_bin);
+    self.num_obj.ranges[0].bin = "first";
+  }
+  if (self.q.last_bin) {
+    self.num_obj.ranges.push(self.q.last_bin);
+    self.num_obj.ranges[1].bin = "last";
+  }
+  self.num_obj.brushes = [];
+  const brushes = self.num_obj.brushes;
+  if (!self.num_obj.custom_bins_q) {
+    return;
+  }
+  for (const r of self.num_obj.ranges.values()) {
+    const _b = brushes.find((b) => b.orig === r);
+    let brush;
+    if (!_b) {
+      brush = { orig: r, range: JSON.parse(JSON.stringify(r)) };
+      brushes.push(brush);
+    } else {
+      brush = _b;
+    }
+    const custom_bins_q = self.num_obj.custom_bins_q;
+    const maxvalue = self.num_obj.density_data.max;
+    const minvalue = self.num_obj.density_data.min;
+    const custom_bins = custom_bins_q.lst || [];
+    if (custom_bins.length == 0) {
+      const mean_value = (maxvalue + minvalue) / 2;
+      const first_bin = {
+        startunbounded: true,
+        stop: mean_value,
+        stopinclusive: true,
+        name: "First bin"
+      };
+      const last_bin = {
+        start: mean_value,
+        stopunbounded: true,
+        startinclusive: false,
+        name: "Last bin"
+      };
+      custom_bins.push(first_bin);
+      custom_bins.push(last_bin);
+      self.num_obj.custom_bins_q.lst = custom_bins;
+    }
+  }
+}
+function renderBinLines(self, data) {
+  const o = self.num_obj;
+  if (!o.density_data) throw `Missing .density_data [density.ts, renderBinLines()]`;
+  const scaledMinX = Math.round(o.xscale(o.density_data.min));
+  const scaledMaxX = Math.round(o.xscale(o.density_data.max));
+  const lines = [];
+  if (data.mode == "discrete" && data.type == "regular-bin") {
+    const binLinesStop = o.density_data.max + Math.abs(data.first_bin.stop) - Math.min(o.density_data.min, 0);
+    let index = 0;
+    for (let i = data.first_bin.stop; i <= binLinesStop; i = i + data.bin_size) {
+      lines.push({ x: i, index, scaledX: Math.round(o.xscale(i)) });
+      index++;
+    }
+    const lastVisibleLine2 = lines.slice().reverse().find((d) => d.scaledX <= scaledMaxX);
+    if (data.last_bin && data.last_bin.start && data.last_bin.start !== lastVisibleLine2.x) {
+      lines.push({ x: data.last_bin.start, index, scaledX: Math.round(o.xscale(data.last_bin.start)) });
+    }
+  } else if (data.mode == "discrete" && data.type == "custom-bin" || data.mode == "binary") {
+    lines.push(
+      ...data.lst.slice(1).map((d, index) => {
+        return { x: d.start, index, scaledX: Math.round(o.xscale(d.start)) };
+      })
+    );
+  } else if (data.mode == "spline") {
+    lines.push(
+      ...data.knots.map((d, index) => {
+        return { x: d.value, index, scaledX: Math.round(o.xscale(d.value)) };
+      })
+    );
+  }
+  lines.forEach((d, i) => {
+    d.isDraggable = self.q.type == "custom-bin" || self.q.mode == "spline" || i === 0 || self.q.last_bin && self.q.last_bin.start === d.x && d.index == lines.length - 1;
+  });
+  self.num_obj.binsize_g.selectAll("line").remove();
+  const lastVisibleLine = lines.length == 1 ? lines[0] : lines.slice().reverse().find((d) => d.scaledX < scaledMaxX);
+  let lastScaledX = lastVisibleLine ? Math.min(scaledMaxX, lastVisibleLine.scaledX) : scaledMaxX;
+  self.num_obj.binsize_g.selectAll("line").data(lines).enter().append("line").style("stroke", (d) => d.isDraggable ? "#cc0000" : "#555").style("stroke-width", 1).attr("x1", (d) => d.scaledX).attr("y1", 0).attr("x2", (d) => d.scaledX).attr("y2", o.plot_size.height).style("cursor", (d) => d.isDraggable ? "ew-resize" : "").style("display", (d) => !d.isDraggable && d.scaledX > lastScaledX ? "none" : "").on("mouseover", function(d) {
+    if (self.q.type != "regular-bin" || d.isDraggable) select_default(this).style("stroke-width", 3);
+  }).on("mouseout", function() {
+    select_default(this).style("stroke-width", 1);
+  }).each(function(d) {
+    if (d.isDraggable) {
+      const dragger = drag_default().on("drag", dragged).on("end", dragend);
+      select_default(this).call(dragger);
+    }
+  });
+  const middleLines = self.num_obj.binsize_g.selectAll("line").filter((d) => !d.isDraggable);
+  function dragged(event, b) {
+    const draggedX = pointer_default(event, this)[0];
+    if (draggedX <= scaledMinX || draggedX >= scaledMaxX) return;
+    const line = self.q.type == "regular-bin" ? select_default(this) : b.index > 0 && draggedX <= lines[b.index - 1].scaledX ? select_default(this.previousSibling) : b.index < lines.length - 1 && draggedX >= lines[b.index + 1].scaledX ? select_default(this.nextSibling) : select_default(this);
+    const d = line.datum();
+    d.draggedX = draggedX;
+    line.attr("x1", d.draggedX).attr("y1", 0).attr("x2", d.draggedX).attr("y2", o.plot_size.height);
+    const inverted = +o.xscale.invert(d.draggedX);
+    const value = self.term.type == "integer" ? Math.round(inverted) : inverted.toFixed(3);
+    if (self.q.mode == "discrete" && self.q.type == "regular-bin") {
+      if (d.index === 0) {
+        self.dom.first_stop_input.property("value", value);
+        const maxX = self.q.last_bin ? lastScaledX : scaledMaxX;
+        const diff = d.draggedX - d.scaledX;
+        middleLines.each(function(c) {
+          c.draggedX = c.scaledX + diff;
+          select_default(this).attr("x1", c.draggedX).attr("y1", 0).attr("x2", c.draggedX).attr("y2", o.plot_size.height).style("display", (c2) => c2.draggedX >= maxX ? "none" : "");
+        });
+        self.q.first_bin.stop = value;
+      } else {
+        self.dom.last_start_input.property("value", value);
+        self.q.last_bin.start = value;
+        middleLines.style("display", (c) => d.draggedX && c.scaledX >= d.draggedX ? "none" : "");
+      }
+    } else if (self.q.mode == "discrete" && self.q.type == "custom-bin" || self.q.mode == "binary") {
+      self.q.lst[d.index + 1].start = value;
+      self.q.lst[d.index + 1].label = get_bin_label(self.q.lst[d.index + 1], self.q);
+      self.q.lst[d.index + 1].range = get_bin_range_equation(self.q.lst[d.index + 1], self.q);
+      self.q.lst[d.index].stop = value;
+      self.q.lst[d.index].label = get_bin_label(self.q.lst[d.index], self.q);
+      self.q.lst[d.index].range = get_bin_range_equation(self.q.lst[d.index], self.q);
+      if (self.dom.customBinBoundaryInput) {
+        self.q.modeBinaryCutoffType = "normal";
+        if (self.dom.customBinBoundaryPercentileCheckbox) {
+          self.dom.customBinBoundaryPercentileCheckbox.property("checked", false);
+        }
+        self.dom.customBinBoundaryInput.property(
+          "value",
+          self.q.lst.slice(1).map((d2) => d2.start).join("\n")
+        );
+      }
+      if (self.dom.customBinLabelInput) {
+        self.dom.customBinLabelInput.property("value", (c) => c.label);
+      }
+      if (self.dom.customBinRanges) {
+        self.dom.customBinRanges.html((c) => c.range);
+      }
+    } else if (self.q.mode == "spline") {
+      self.q.knots[d.index].value = value;
+      if (self.dom.customKnotsInput) {
+        self.dom.customKnotsInput.property("value", self.q.knots.map((d2) => d2.value).join("\n"));
+      }
+    } else {
+      throw "Dragging not allowed for this term type";
+    }
+  }
+  function dragend(event, b) {
+    const draggedX = pointer_default(event, this)[0];
+    const line = self.q.type == "regular-bin" ? select_default(this) : b.index > 0 && draggedX <= lines[b.index - 1].scaledX ? select_default(this.previousSibling) : b.index < lines.length - 1 && draggedX >= lines[b.index + 1].scaledX ? select_default(this.nextSibling) : select_default(this);
+    const d = line.datum();
+    d.scaledX = d.draggedX;
+    d.x = +o.xscale.invert(d.draggedX).toFixed(self.term.type == "integer" ? 0 : 3);
+    if (self.q.mode == "discrete" && self.q.type == "regular-bin") {
+      if (d.index === 0) {
+        self.q.first_bin.stop = d.x;
+        middleLines.each(function(d2) {
+          d2.scaledX = d2.draggedX;
+          d2.x = +o.xscale.invert(d2.draggedX).toFixed(self.term.type == "integer" ? 0 : 3);
+        });
+      } else {
+        self.q.last_bin.start = d.x;
+      }
+      lastScaledX = lines.slice().reverse().find((d2) => d2.scaledX < scaledMaxX).scaledX;
+    } else if (self.q.mode == "discrete" && self.q.type == "custom-bin") {
+      self.q.lst[d.index + 1].start = d.x;
+      self.q.lst[d.index].stop = d.x;
+    } else if (self.q.mode == "spline") {
+      self.q.knots[d.index].value = d.x;
+    }
+  }
+}
+
+export {
+  setDensityPlot
+};
+//# sourceMappingURL=chunk-GKVUVJ3F.js.map

package/dist/chunk-GKVUVJ3F.js.map

@@ -0,0 +1,7 @@
+{
+  "version": 3,
+  "sources": ["../termsetting/handlers/density.ts"],
+  "sourcesContent": ["import { select, pointer } from 'd3-selection'\nimport { scaleLinear, drag as d3drag } from 'd3'\nimport { get_bin_label, get_bin_range_equation } from '#shared/termdb.bins.js'\nimport type { BaseType } from 'd3-selection'\nimport type { NumericBin } from '#types'\n/*\n********************** EXPORTED\n\tsetDensityPlot(self)\n********************** INTERNAL\n\thandleNoDensity(self) // if maxvalue is same as minvalue\n\trenderBinLines() // render binlines on top of densityplot based on term mode\n\n*/\n\n// this is violin route return\nexport type DensityData = {\n\tmax: number\n\tmin: number\n}\n\ntype BrushEntry = {\n\t//No documentation!\n\torig: string\n\trange: {\n\t\tstart: number\n\t\tstop: number\n\t}\n\tinit: () => void\n}\n\ntype NumberObj = {\n\tbinsize_g?: any //dom element??\n\tbrushes: BrushEntry[]\n\tcustom_bins_q: any\n\tdensity_data: DensityData\n\tno_density_data: true\n\tplot_size: {\n\t\twidth: number\n\t\theight: number\n\t\txpad: number\n\t\typad: number\n\t}\n\tranges?: NumericBin[]\n\tsvg: any\n\txscale: any\n}\n\nexport async function setDensityPlot(self) {\n\tif (!self.num_obj) throw `Missing density data [density.ts setDensityPlot()]`\n\tconst numObj = self.num_obj as NumberObj\n\tif (numObj.density_data.max == numObj.density_data.min) {\n\t\thandleNoDensity(self)\n\t\tnumObj.brushes.forEach((brush: BrushEntry) => {\n\t\t\tif (brush.range.stop > numObj.density_data.min) brush.init()\n\t\t})\n\t} else {\n\t\t// svg for range plot\n\t\t// const div = self.q.mode == 'spline' ? self.dom.knots_div : self.dom.bins_div\n\t\tself.vr.render()\n\n\t\t// add binsize_g for termsetting lines\n\t\tself.num_obj.binsize_g = self.num_obj.svg\n\t\t\t.append('g')\n\t\t\t.attr('transform', `translate(${numObj.plot_size.xpad}, ${numObj.plot_size.ypad})`)\n\t\t\t.attr('class', 'binsize_g')\n\n\t\tconst maxvalue = numObj.density_data.max\n\t\tconst minvalue = numObj.density_data.min\n\n\t\tself.num_obj.xscale = scaleLinear()\n\t\t\t.domain([minvalue, maxvalue])\n\t\t\t.range([numObj.plot_size.xpad, numObj.plot_size.width + numObj.plot_size.xpad])\n\n\t\tself.num_obj.ranges = []\n\t\tif (self.q.first_bin) {\n\t\t\tself.num_obj.ranges.push(self.q.first_bin)\n\t\t\tself.num_obj.ranges[0].bin = 'first'\n\t\t}\n\t\tif (self.q.last_bin) {\n\t\t\tself.num_obj.ranges.push(self.q.last_bin)\n\t\t\tself.num_obj.ranges[1].bin = 'last'\n\t\t}\n\t\tself.num_obj.brushes = []\n\t\trenderBinLines(self, self.q)\n\t}\n\n\tself.renderBinLines = renderBinLines\n}\n\nfunction handleNoDensity(self) {\n\tself.num_obj.no_density_data = true\n\tself.num_obj.ranges = []\n\tif (self.q.first_bin) {\n\t\tself.num_obj.ranges.push(self.q.first_bin)\n\t\tself.num_obj.ranges[0].bin = 'first'\n\t}\n\tif (self.q.last_bin) {\n\t\tself.num_obj.ranges.push(self.q.last_bin)\n\t\tself.num_obj.ranges[1].bin = 'last'\n\t}\n\tself.num_obj.brushes = []\n\tconst brushes = self.num_obj.brushes\n\n\tif (!self.num_obj.custom_bins_q) {\n\t\t/* when custom_bins_q is undefined, do not run below as a quick fix not to break\n\t\tFIXME where is this created and purpose?\n\t\t*/\n\t\treturn\n\t}\n\n\tfor (const r of self.num_obj.ranges.values()) {\n\t\tconst _b = brushes.find((b: BrushEntry) => b.orig === r)\n\t\tlet brush\n\t\tif (!_b) {\n\t\t\tbrush = { orig: r, range: JSON.parse(JSON.stringify(r)) }\n\t\t\tbrushes.push(brush)\n\t\t} else {\n\t\t\tbrush = _b\n\t\t}\n\n\t\tconst custom_bins_q = self.num_obj.custom_bins_q\n\t\tconst maxvalue = self.num_obj.density_data!.max\n\t\tconst minvalue = self.num_obj.density_data!.min\n\n\t\tconst custom_bins = custom_bins_q.lst || []\n\n\t\tif (custom_bins.length == 0) {\n\t\t\tconst mean_value = (maxvalue + minvalue) / 2\n\t\t\tconst first_bin = {\n\t\t\t\tstartunbounded: true,\n\t\t\t\tstop: mean_value,\n\t\t\t\tstopinclusive: true,\n\t\t\t\tname: 'First bin'\n\t\t\t}\n\t\t\tconst last_bin = {\n\t\t\t\tstart: mean_value,\n\t\t\t\tstopunbounded: true,\n\t\t\t\tstartinclusive: false,\n\t\t\t\tname: 'Last bin'\n\t\t\t}\n\t\t\tcustom_bins.push(first_bin)\n\t\t\tcustom_bins.push(last_bin)\n\t\t\tself.num_obj.custom_bins_q.lst = custom_bins\n\t\t}\n\t}\n}\n\nfunction renderBinLines(self, data: any) {\n\tconst o = self.num_obj as NumberObj\n\tif (!o.density_data) throw `Missing .density_data [density.ts, renderBinLines()]`\n\tconst scaledMinX = Math.round(o.xscale(o.density_data.min)) as number\n\tconst scaledMaxX = Math.round(o.xscale(o.density_data.max)) as number\n\ttype LineData = {\n\t\tx: any\n\t\tindex: number\n\t\tscaledX: number\n\t\tisDraggable?: boolean\n\t\tdraggedX?: number\n\t\tstart?: number\n\t\tend?: number\n\t\tvalue?: number\n\t}\n\tconst lines: any = []\n\n\tif (data.mode == 'discrete' && data.type == 'regular-bin') {\n\t\t// assume that boundary lines will be hidden if x > last_bin.start\n\t\t// offset max value by first_bin.stop in case the first boundary is dragged\n\t\t// to the left, will reveal additional non-draggable boundaries from the right\n\t\tconst binLinesStop = o.density_data.max + Math.abs(data.first_bin.stop) - Math.min(o.density_data.min, 0)\n\t\tlet index = 0\n\t\t//\n\t\tfor (let i = data.first_bin.stop; i <= binLinesStop; i = i + data.bin_size) {\n\t\t\tlines.push({ x: i, index, scaledX: Math.round(o.xscale(i)) })\n\t\t\tindex++\n\t\t}\n\t\tconst lastVisibleLine = lines\n\t\t\t.slice()\n\t\t\t.reverse()\n\t\t\t.find((d: LineData) => d.scaledX <= scaledMaxX)\n\n\t\tif (data.last_bin && data.last_bin.start && data.last_bin.start !== lastVisibleLine.x) {\n\t\t\tlines.push({ x: data.last_bin.start, index, scaledX: Math.round(o.xscale(data.last_bin.start)) })\n\t\t}\n\t} else if ((data.mode == 'discrete' && data.type == 'custom-bin') || data.mode == 'binary') {\n\t\tlines.push(\n\t\t\t...data.lst.slice(1).map((d: LineData, index: number) => {\n\t\t\t\treturn { x: d.start, index, scaledX: Math.round(o.xscale(d.start)) }\n\t\t\t})\n\t\t)\n\t} else if (data.mode == 'spline') {\n\t\tlines.push(\n\t\t\t...data.knots.map((d: LineData, index: number) => {\n\t\t\t\treturn { x: d.value, index, scaledX: Math.round(o.xscale(d.value)) }\n\t\t\t})\n\t\t)\n\t}\n\n\tlines.forEach((d: LineData, i: number) => {\n\t\td.isDraggable =\n\t\t\tself.q.type == 'custom-bin' ||\n\t\t\tself.q.mode == 'spline' ||\n\t\t\ti === 0 ||\n\t\t\t(self.q.last_bin && self.q.last_bin.start === d.x && d.index == lines.length - 1)\n\t})\n\n\tself.num_obj.binsize_g.selectAll('line').remove()\n\tconst lastVisibleLine =\n\t\tlines.length == 1\n\t\t\t? lines[0]\n\t\t\t: lines\n\t\t\t\t\t.slice()\n\t\t\t\t\t.reverse()\n\t\t\t\t\t.find((d: LineData) => d.scaledX < scaledMaxX)\n\tlet lastScaledX = lastVisibleLine ? Math.min(scaledMaxX, lastVisibleLine.scaledX) : (scaledMaxX as number)\n\tself.num_obj.binsize_g\n\t\t.selectAll('line')\n\t\t.data(lines)\n\t\t.enter()\n\t\t.append('line')\n\t\t.style('stroke', (d: LineData) => (d.isDraggable ? '#cc0000' : '#555'))\n\t\t.style('stroke-width', 1)\n\t\t.attr('x1', (d: LineData) => d.scaledX)\n\t\t.attr('y1', 0)\n\t\t.attr('x2', (d: LineData) => d.scaledX)\n\t\t.attr('y2', o.plot_size.height)\n\t\t.style('cursor', (d: LineData) => (d.isDraggable ? 'ew-resize' : ''))\n\t\t.style('display', (d: LineData) => (!d.isDraggable && d.scaledX > lastScaledX ? 'none' : ''))\n\t\t.on('mouseover', function (this: BaseType, d: LineData) {\n\t\t\tif (self.q.type != 'regular-bin' || d.isDraggable) select(this).style('stroke-width', 3)\n\t\t})\n\t\t.on('mouseout', function (this: BaseType) {\n\t\t\tselect(this).style('stroke-width', 1)\n\t\t})\n\t\t.each(function (this: Element, d: LineData) {\n\t\t\tif (d.isDraggable) {\n\t\t\t\tconst dragger = d3drag().on('drag', dragged).on('end', dragend)\n\t\t\t\tselect(this).call(dragger)\n\t\t\t}\n\t\t})\n\n\tconst middleLines = self.num_obj.binsize_g.selectAll('line').filter((d: LineData) => !d.isDraggable)\n\n\tfunction dragged(this: any, event: PointerEvent, b: any) {\n\t\tconst draggedX: number = pointer(event, this)[0]\n\t\tif (draggedX <= scaledMinX || draggedX >= scaledMaxX) return\n\t\tconst line =\n\t\t\tself.q.type == 'regular-bin'\n\t\t\t\t? select(this)\n\t\t\t\t: b.index > 0 && draggedX <= lines[b.index - 1].scaledX\n\t\t\t\t? select(this.previousSibling)\n\t\t\t\t: b.index < lines.length - 1 && draggedX >= lines[b.index + 1].scaledX\n\t\t\t\t? select(this.nextSibling)\n\t\t\t\t: select(this)\n\n\t\tconst d = line.datum() as LineData\n\n\t\td.draggedX = draggedX\n\t\tline.attr('x1', d.draggedX).attr('y1', 0).attr('x2', d.draggedX).attr('y2', o.plot_size.height)\n\n\t\tconst inverted = +o.xscale.invert(d.draggedX)\n\t\tconst value = self.term.type == 'integer' ? 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