@sjcrh/proteinpaint-client 2.200.0 → 2.202.0

package/dist/chunk-MPSLUEI4.js.map

@@ -1,7 +0,0 @@
-{
-  "version": 3,
-  "sources": ["../../shared/utils/src/boxplot.ts", "../../shared/utils/src/termdb.bins.ts"],
-  "sourcesContent": ["export type BoxplotValue = { value: number }\n\nexport type BoxplotResult<T extends number | BoxplotValue> = {\n\tw1?: number\n\tw2?: number\n\tp05?: number\n\tp25?: number\n\tp50?: number\n\tp75?: number\n\tp95?: number\n\tiqr?: number\n\tout: T[]\n}\n\n/**\n * Calculates boxplot values from an ascending array. Object inputs are retained\n * in `out`; numeric inputs return numeric outliers.\n */\nexport function boxplot_getvalue<T extends number | BoxplotValue>(lst: T[], removeOutliers = false): BoxplotResult<T> {\n\tconst l = lst.length\n\tif (l < 5) return { out: lst }\n\n\tconst isN = typeof lst[0] === 'number'\n\n\tconst valueOf: (item: T) => number = isN ? item => item as number : item => (item as BoxplotValue).value\n\n\tconst p50 = valueOf(lst[Math.floor(l / 2)])\n\tconst p25 = valueOf(lst[Math.floor(l / 4)])\n\tconst p75 = valueOf(lst[Math.floor((l * 3) / 4)])\n\tconst p05 = valueOf(lst[Math.floor(l * 0.05)])\n\tconst p95 = valueOf(lst[Math.floor(l * 0.95)])\n\tconst iqr = p75 - p25\n\n\tlet w1: number, w2: number\n\tif (iqr === 0) {\n\t\tw1 = p25\n\t\tw2 = p25\n\t} else {\n\t\tconst i = lst.findIndex(item => valueOf(item) > p25 - iqr * 1.5)\n\t\tw1 = valueOf(lst[i === -1 ? 0 : i])\n\t\tconst j = lst.findIndex(item => valueOf(item) > p75 + iqr * 1.5)\n\t\tw2 = valueOf(lst[j === -1 ? l - 1 : j - 1])\n\t}\n\tconst out = removeOutliers\n\t\t? []\n\t\t: lst.filter(item => valueOf(item) < p25 - iqr * 1.5 || valueOf(item) > p75 + iqr * 1.5)\n\treturn { w1, w2, p05, p25, p50, p75, p95, iqr, out }\n}\n", "import { format } from 'd3-format'\nimport { getColors } from './common.js'\nimport { isNumeric, isStrictNumeric, convertUnits } from './helpers.js'\n\nexport default function validate_bins(binconfig) {\n\t// Number.isFinite('1') returns false, which is desired\n\n\tconst bc = binconfig\n\tif (!bc || typeof bc !== 'object') throw 'bin schema must be an object'\n\t// assign default type\n\tif (!('type' in bc)) bc.type = 'regular-bin'\n\n\tif (bc.type == 'custom-bin') {\n\t\tif (!Array.isArray(bc.lst)) throw 'binconfig.lst must be an array'\n\t\tif (!bc.lst.length) throw 'binconfig.lst must have entries'\n\t\tconst first_bin = bc.lst[0]\n\t\tconst last_bin = bc.lst[bc.lst.length - 1]\n\n\t\tfor (const bin of bc.lst) {\n\t\t\tif (!('startinclusive' in bin) && !('stopinclusive' in bin)) {\n\t\t\t\tthrow 'custom bin.startinclusive and/or bin.stopinclusive must be defined'\n\t\t\t}\n\n\t\t\tif (bin == first_bin) {\n\t\t\t\tif ('startunbounded' in bin && !bin.startunbounded) {\n\t\t\t\t\tthrow `a custom first bin must not set bin.startunbounded to false`\n\t\t\t\t}\n\t\t\t\tbin.startunbounded = true\n\t\t\t\tif ('start' in bin) {\n\t\t\t\t\tthrow 'a custom first bin must not set a bin.start value'\n\t\t\t\t}\n\t\t\t\tif ('start_percentile' in bin) {\n\t\t\t\t\tthrow 'the first bin must not set a bin.start_percentile value'\n\t\t\t\t}\n\t\t\t\tif (!('stop' in bin)) {\n\t\t\t\t\tthrow `a custom first bin must define a bin.stop value`\n\t\t\t\t}\n\t\t\t\tif (!isStrictNumeric(bin.stop)) {\n\t\t\t\t\tthrow `a custom first bin.stop value should be numeric`\n\t\t\t\t}\n\t\t\t} else if (bin == last_bin) {\n\t\t\t\tif (!('start' in bin)) {\n\t\t\t\t\tthrow `a custom last bin must define a bin.start value`\n\t\t\t\t}\n\t\t\t\tif (!isStrictNumeric(bin.start)) {\n\t\t\t\t\tthrow `a custom last bin.start must be numeric`\n\t\t\t\t}\n\t\t\t\tif ('stopunbounded' in bin && !bin.stopunbounded) {\n\t\t\t\t\tthrow 'a custom last bin must not set bin.stopunbounded to false'\n\t\t\t\t}\n\t\t\t\tbin.stopunbounded = true\n\t\t\t\tif ('stop' in bin) {\n\t\t\t\t\tthrow 'a custom last bin must not set a bin.stop value'\n\t\t\t\t}\n\t\t\t} else {\n\t\t\t\tif (bin.startunbounded || bin.stopunbounded) {\n\t\t\t\t\tthrow 'bin.startunbounded and bin.stopunbounded must not be set for non-first/non-last bins'\n\t\t\t\t}\n\t\t\t\tif (!isStrictNumeric(bin.start)) throw 'bin.start must be numeric for a non-first bin'\n\t\t\t\tif (!isStrictNumeric(bin.stop)) throw 'bin.stop must be numeric for a non-last bin'\n\t\t\t}\n\t\t}\n\t} else if (bc.type == 'regular-bin') {\n\t\t// required custom_bin parameter\n\t\tif (!Number.isFinite(bc.bin_size)) throw 'non-numeric bin_size'\n\t\tif (bc.bin_size <= 0) throw 'bin_size must be greater than 0'\n\n\t\tif (!bc.startinclusive && !bc.stopinclusive) {\n\t\t\tbc.startinclusive = 1\n\t\t\tbc.stopinclusive = 0\n\t\t}\n\n\t\tif (!bc.first_bin) throw 'first_bin{} missing'\n\t\tif (typeof bc.first_bin != 'object') throw 'first_bin{} is not an object'\n\t\tif (!Object.keys(bc.first_bin).length) throw 'first_bin is an empty object'\n\n\t\t{\n\t\t\tconst b = bc.first_bin\n\t\t\tb.startunbounded = true\n\t\t\t// requires stop_percentile, or stop\n\t\t\tif (b.stop_percentile) {\n\t\t\t\tif (!Number.isInteger(b.stop_percentile)) throw 'first_bin.stop_percentile should be integer'\n\t\t\t\tif (b.stop_percentile <= 0 || b.stop_percentile >= 100) throw 'first_bin.stop_percentile out of bound (0-100)'\n\t\t\t} else if (!Number.isFinite(b.stop)) {\n\t\t\t\tthrow 'first_bin.stop not a number when stop_percentile is not set'\n\t\t\t}\n\t\t}\n\n\t\tif (bc.last_bin) {\n\t\t\tconst b = bc.last_bin\n\t\t\t// requires start_percentile or start\n\t\t\tif (b.start_percentile) {\n\t\t\t\tif (!Number.isInteger(b.start_percentile)) throw 'last_bin.start_percentile should be integer'\n\t\t\t\tif (b.start_percentile <= 0 || b.start_percentile >= 100) throw 'last_bin.start_percentile out of bound (0-100)'\n\t\t\t} else if (!Number.isFinite(b.start)) {\n\t\t\t\tthrow 'last_bin.start not a number when start_percentile is not set'\n\t\t\t}\n\n\t\t\tb.stopunbounded = true\n\t\t\tif ('stop' in b) {\n\t\t\t\tthrow 'a regular last bin must not set a bin.stop value'\n\t\t\t}\n\t\t}\n\t} else {\n\t\tthrow `invalid binconfig.type=\"${bc.type}\"`\n\t}\n}\n\nconst maxNumBins = 100 // hardcoded limit for now to not stress sqlite\n\nexport function compute_bins(binconfig, summaryfxn, valueConversion) {\n\t/*\n\t  Bins generator\n\t  \n\tbinconfig   \n\t  configuration of bins per the Numerical Binning Scheme\n\n\tsummaryfxn (percentiles)=> return {min, max, pX, pY, ...}\n\t  - required function\n\n\t  - must accept an array of desired percentile values\n\t  and returns an object of computed properties\n\t  {\n\t    min: minimum value\n\t    max: maximum value\n\t    pX: percentile at X value, so p10 will be 10th percentile value\n\t    pY: .. corresponding to the desired percentile values \n\t  }\n\t*/\n\tconst bc = binconfig\n\n\tvalidate_bins(bc)\n\tif (bc.lst) {\n\t\tif (!Array.isArray(bc.lst)) throw `bc.lst is not an array`\n\t\tif (bc.lst.length > maxNumBins) throw `bc.lst exceed the maximum of ${maxNumBins} allowed entries`\n\t\tconst k2c = getColors(bc.lst.length) //to color bins\n\t\tfor (const bin of bc.lst) bin.color = k2c(bin.label)\n\t}\n\tif (bc.type == 'custom-bin') return JSON.parse(JSON.stringify(bc.lst))\n\tif (typeof summaryfxn != 'function') throw 'summaryfxn required for modules/termdb.bins.js compute_bins()'\n\tconst percentiles = target_percentiles(bc)\n\tconst summary = summaryfxn(percentiles)\n\tif (!summary || typeof summary !== 'object') throw 'invalid returned value by summaryfxn'\n\tbc.results = { summary }\n\tif (!bc.binLabelFormatter) bc.binLabelFormatter = getNumDecimalsFormatter(bc)\n\n\t// round the min and max values for use as bin start and stop\n\t// in the first and last bins, respectively\n\tconst minFloor = Math.floor(summary.min * 100) / 100\n\tconst maxCeil = Math.ceil(summary.max * 100) / 100\n\tconst min = bc.first_bin.startunbounded\n\t\t? minFloor\n\t\t: bc.first_bin.start_percentile\n\t\t? summary['p' + bc.first_bin.start_percentile]\n\t\t: bc.first_bin.start\n\tlet max = maxCeil, // in order to include the max value in the last bin\n\t\tlast_start,\n\t\tlast_stop\n\n\tif (bc.last_bin) {\n\t\tmax = bc.last_bin.stopunbounded\n\t\t\t? maxCeil // in order to include the max value in the last bin\n\t\t\t: bc.last_bin.stop_percentile\n\t\t\t? summary['p' + bc.last_bin.stop_percentile]\n\t\t\t: isNumeric(bc.last_bin.stop) && bc.last_bin.stop <= summary.max // '0.0088' < 0.0088\n\t\t\t? bc.last_bin.stop\n\t\t\t: maxCeil // in order to include the max value in the last bin\n\t\tlast_start = isStrictNumeric(bc.last_bin.start_percentile)\n\t\t\t? summary['p' + bc.last_bin.start_percentile]\n\t\t\t: isStrictNumeric(bc.last_bin.start)\n\t\t\t? bc.last_bin.start\n\t\t\t: undefined\n\t\tlast_stop = bc.last_bin.stopunbounded\n\t\t\t? null\n\t\t\t: bc.last_bin.stop_percentile\n\t\t\t? summary['p' + bc.last_bin.stop_percentile]\n\t\t\t: isStrictNumeric(bc.last_bin.stop)\n\t\t\t? bc.last_bin.stop\n\t\t\t: null\n\t} else if (bc.lst) {\n\t\tconst last_bin = bc.lst[bc.lst.length - 1]\n\t\tlast_start = last_bin.start\n\t\tlast_stop = 'stop' in last_bin && !last_bin.stopunbounded ? last_bin.stop : maxCeil\n\t\tmax = last_stop\n\t} else {\n\t\tlast_start = maxCeil\n\t\tlast_stop = maxCeil\n\t}\n\n\tconst numericMax = isStrictNumeric(max)\n\tconst numericLastStart = isStrictNumeric(last_start)\n\tconst numericLastStop = isStrictNumeric(last_stop)\n\n\tif (!numericMax && !numericLastStart) return [] //throw 'unable to compute the last bin start or stop'\n\n\tconst bins: any[] = []\n\tlet currBin: Record<string, any> = {\n\t\tstartunbounded: bc.first_bin.startunbounded,\n\t\tstart: bc.first_bin.startunbounded ? undefined : min,\n\t\tstop: isStrictNumeric(bc.first_bin.stop_percentile)\n\t\t\t? +summary['p' + bc.first_bin.stop_percentile]\n\t\t\t: isStrictNumeric(bc.first_bin.stop)\n\t\t\t? +bc.first_bin.stop\n\t\t\t: min + bc.bin_size,\n\t\tstartinclusive: bc.startinclusive,\n\t\tstopinclusive: bc.stopinclusive\n\t}\n\n\tif (!isStrictNumeric(currBin.stop)) throw 'the computed first_bin.stop is non-numeric' + currBin.stop\n\n\twhile ((numericMax && currBin.stop <= max) || (currBin.startunbounded && !bins.length) || currBin.stopunbounded) {\n\t\tbins.push(currBin)\n\t\t// force a computed last bin to have stopunbounded true\n\t\tif (currBin.stop >= max) {\n\t\t\tcurrBin.stopunbounded = true\n\t\t\tif (bins.length > 1) {\n\t\t\t\tdelete currBin.stop\n\t\t\t}\n\t\t}\n\t\tcurrBin.label = get_bin_label(currBin, bc, valueConversion)\n\t\tif (currBin.stopunbounded) break\n\n\t\tconst upper = currBin.stop + bc.bin_size\n\t\tconst previousStop = currBin.stop\n\t\tcurrBin = {\n\t\t\tstartinclusive: bc.startinclusive,\n\t\t\tstopinclusive: bc.stopinclusive,\n\t\t\tstart: previousStop,\n\t\t\tstop:\n\t\t\t\tnumericLastStop && (previousStop == last_start || upper > last_stop)\n\t\t\t\t\t? last_stop\n\t\t\t\t\t: numericLastStart && upper > last_start && previousStop != last_start\n\t\t\t\t\t? last_start\n\t\t\t\t\t: upper\n\t\t}\n\n\t\tif (currBin.stop >= max) {\n\t\t\tcurrBin.stop = max\n\t\t\tif (bc.last_bin && bc.last_bin.stopunbounded) currBin.stopunbounded = 1\n\t\t\tif (bc.last_bin && bc.last_bin.stopinclusive) currBin.stopinclusive = 1\n\t\t}\n\t\tif (numericLastStart && currBin.start == last_start) {\n\t\t\tif (bc.last_bin && bc.last_bin.stopunbounded) currBin.stopunbounded = 1\n\t\t}\n\t\tif (currBin.start > currBin.stop) {\n\t\t\tif (numericLastStart && currBin.stop == last_start && bc.last_bin && bc.last_bin.stopunbounded)\n\t\t\t\tcurrBin.stopunbounded = true\n\t\t\telse break\n\t\t}\n\t\tif (bins.length + 1 >= maxNumBins) {\n\t\t\t// this limit is computed before processing actual numeric values, since\n\t\t\t// the computation with actual values may be problematic when there are lots of bins\n\t\t\tdelete currBin.stop\n\t\t\tcurrBin.stopunbounded = true\n\t\t\tcurrBin.label = get_bin_label(currBin, bc, valueConversion)\n\t\t\tif (!bins.includes(currBin)) bins.push(currBin)\n\t\t\tconst hint = 'Please increase the bin_size or first bin stop, or have a lower last bin start.'\n\t\t\t// throw instead of making the error handling dependent on client code,\n\t\t\t// to make the error behavior consistent across different chart types;\n\t\t\t// previously, the error message was not thrown but assigned as bc.error\n\t\t\tthrow new Error(hint + ' (max_num_bins_reached)')\n\t\t}\n\t}\n\tdelete bc.binLabelFormatter\n\tif (bins.length > 1) {\n\t\tdelete bins[bins.length - 1].stop\n\t}\n\tconst k2c = getColors(bins.length) //to color bins\n\tfor (const bin of bins) bin.color = k2c(bin.label)\n\treturn bins\n}\n\nfunction getNumDecimalsFormatter(bc) {\n\t//return format('rounding' in bc ? bc.rounding : '')\n\treturn 'rounding' in bc ? format(bc.rounding) : d => d // default to labeling using the start/stop value as-is\n}\n\nexport function get_bin_label(bin, binconfig, valueConversion?: any) {\n\t/*\n\t  Generate a numeric bin label given a bin configuration and an optional term valueConversion object\n\t*/\n\tif (!bin) return 'missing bin.label'\n\tif (bin.label) return bin.label\n\n\tconst bc = binconfig\n\tif (!bc.binLabelFormatter) bc.binLabelFormatter = getNumDecimalsFormatter(bc)\n\tif (!bin.startunbounded && !bin.stopunbounded && !('startinclusive' in bin) && !('stopinclusive' in bin)) {\n\t\tif (bc.startinclusive) bin.startinclusive = true\n\t\telse if (bc.stopinclusive) bin.stopinclusive = true\n\t}\n\n\tconst start = bc.use_as == 'bins' || bin.start\n\tconst stop = bc.use_as == 'bins' || bin.stop\n\n\tlet label_offset = 0\n\tif ('label_offset' in bc) {\n\t\tbc.label_offset_ignored = 'bin_size' in bc && bc.bin_size < bc.label_offset\n\t\tif (!bc.label_offset_ignored) label_offset = bc.label_offset\n\t} else if (bc.bin_size === 1 && bc.termtype == 'integer') {\n\t\tlabel_offset = 1\n\t}\n\n\t// one side-unbounded bins\n\t// label will be \">v\" or \"<v\"\n\tif (bin.startunbounded) {\n\t\tconst oper = bin.stopinclusive ? '\u2264' : '<' // \\u2264\n\t\tconst v1 = valueConversion\n\t\t\t? convertUnits(stop, valueConversion.fromUnit, valueConversion.toUnit, valueConversion.scaleFactor, true)\n\t\t\t: bc.binLabelFormatter(stop) //bin.startinclusive && label_offset ? stop - label_offset : stop)\n\t\treturn oper + v1\n\t}\n\t// a data value may coincide with the last bin's start\n\tif (bin.stopunbounded || start === stop) {\n\t\tconst oper = bin.startinclusive /*|| label_offset*/ ? '\u2265' : '>' // \\u2265\n\t\tconst v0 = valueConversion\n\t\t\t? convertUnits(start, valueConversion.fromUnit, valueConversion.toUnit, valueConversion.scaleFactor, true)\n\t\t\t: bc.binLabelFormatter(start) //bin.startinclusive || start == min ? start : start + label_offset)\n\t\treturn oper + v0\n\t}\n\n\t// two-sided bins\n\tif (label_offset && bin.startinclusive && !bin.stopinclusive) {\n\t\tif (Number.isInteger(bc.bin_size) && Math.abs(start - stop) === label_offset) {\n\t\t\t// make a simpler label when the range simply spans the bin_size\n\t\t\treturn (\n\t\t\t\t'' +\n\t\t\t\t(valueConversion\n\t\t\t\t\t? convertUnits(start, valueConversion.fromUnit, valueConversion.toUnit, valueConversion.scaleFactor, true)\n\t\t\t\t\t: bc.binLabelFormatter(start))\n\t\t\t)\n\t\t} else {\n\t\t\tconst v0 = valueConversion\n\t\t\t\t? convertUnits(start, valueConversion.fromUnit, valueConversion.toUnit, valueConversion.scaleFactor, true)\n\t\t\t\t: bc.binLabelFormatter(start)\n\t\t\tconst v1 = valueConversion\n\t\t\t\t? convertUnits(\n\t\t\t\t\t\tstop - label_offset,\n\t\t\t\t\t\tvalueConversion.fromUnit,\n\t\t\t\t\t\tvalueConversion.toUnit,\n\t\t\t\t\t\tvalueConversion.scaleFactor,\n\t\t\t\t\t\ttrue\n\t\t\t\t  )\n\t\t\t\t: bc.binLabelFormatter(stop - label_offset)\n\t\t\t// ensure that last two bin labels make sense (the last is stopunbounded)\n\t\t\treturn +v0 >= +v1 ? v0.toString() : v0 + ' to ' + v1\n\t\t}\n\t} else {\n\t\t// stop_inclusive || label_offset == 0\n\t\tconst oper0 = bin.startinclusive ? '' : '>'\n\t\tconst oper1 = bin.stopinclusive ? '' : '<'\n\t\tconst v0 = valueConversion\n\t\t\t? convertUnits(start, valueConversion.fromUnit, valueConversion.toUnit, valueConversion.scaleFactor, true)\n\t\t\t: Number.isInteger(start)\n\t\t\t? start\n\t\t\t: bc.binLabelFormatter(start)\n\t\tconst v1 = valueConversion\n\t\t\t? convertUnits(stop, valueConversion.fromUnit, valueConversion.toUnit, valueConversion.scaleFactor, true)\n\t\t\t: Number.isInteger(stop)\n\t\t\t? stop\n\t\t\t: bc.binLabelFormatter(stop)\n\t\t// after rounding the bin labels, the bin start may equal the last bin stop as derived from actual data\n\t\tif (+v0 >= +v1) {\n\t\t\tconst oper = bin.startinclusive ? '\u2265' : '>' // \\u2265\n\t\t\treturn oper + v0\n\t\t} else {\n\t\t\treturn oper0 + v0 + ' to ' + oper1 + v1\n\t\t}\n\t}\n}\n\n// get bin range equation from bin label and bin properties\nexport function get_bin_range_equation(bin, binconfig) {\n\tconst x = '<span style=\"font-family:Times;font-style:italic;\">x</span>'\n\tlet range_eq\n\t// should always use computed (not user-customized) bin label to determine bin range text\n\tconst copy = structuredClone(bin)\n\tcopy.label = '' // mutate only the copy, and not the original bin argument\n\tconst bin_label = get_bin_label(copy, binconfig, undefined)\n\tif (bin.startunbounded || bin.stopunbounded) {\n\t\t// first or last bins, e.g. x \u2264 14 and x > 16\n\t\trange_eq = x + ' ' + bin_label\n\t} else if (bin.startinclusive) {\n\t\t// bins with startinclusive, e.g. 14 \u2264 x < 16\n\t\trange_eq = bin_label.replace('to <', '\u2264 ' + x + ' <')\n\t} else if (bin.stopinclusive) {\n\t\t// bins with stopinclusive, e.g. 14 < x \u2264 16\n\t\trange_eq = bin_label.replace('>', '').replace('to', '< ' + x + ' \u2264')\n\t}\n\treturn range_eq\n}\n\nexport function target_percentiles(binconfig) {\n\tconst percentiles: any[] = []\n\tconst f = binconfig.first_bin\n\tif (f && isStrictNumeric(f.start_percentile)) percentiles.push(f.start_percentile)\n\tif (f && isStrictNumeric(f.stop_percentile)) percentiles.push(f.stop_percentile)\n\tconst l = binconfig.last_bin\n\tif (l && isStrictNumeric(l.start_percentile)) percentiles.push(l.start_percentile)\n\tif (l && isStrictNumeric(l.stop_percentile)) percentiles.push(l.stop_percentile)\n\treturn percentiles\n}\n"],
-  "mappings": 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-  "names": ["k2c"]
-}

package/dist/chunk-NIXFCC7X.js

@@ -1,368 +0,0 @@
-import {
-  fillTermWrapper,
-  termsettingInit
-} from "./chunk-TKW5TW4Z.js";
-import {
-  isNumericTerm
-} from "./chunk-7JRDJNLR.js";
-import {
-  select_default
-} from "./chunk-I6Y4O3RR.js";
-
-// plots/matrix/matrix.renderers.js
-function setRenderers(self) {
-  self.render = function() {
-    const s = self.settings.matrix;
-    const l = self.layout;
-    const d = self.dimensions;
-    const duration = self.dom.svg.attr("width") ? s.duration : 0;
-    self.dom.clipRect.attr("x", d.xOffset - 1).attr("y", 0).attr("width", d.mainw + 3).attr("height", d.mainh + 500);
-    self.renderSerieses(s, l, d, duration);
-    self.renderLabels(s, l, d, duration);
-    self.renderDivideByLabel(s, l, d, duration);
-    self.dom.colBeam.attr("width", d.dx).attr("height", d.mainh).style("stroke", s.beamStroke);
-    self.dom.rowBeam.attr("width", d.zoomedMainW).attr("height", s.rowh).style("stroke", s.beamStroke);
-  };
-  self.renderSerieses = function(s, l, d, duration) {
-    if (self.prevUseCanvas != s.useCanvas) {
-      self.dom.seriesesG.selectAll("g").remove();
-    }
-    if (s.useCanvas) {
-      const _g = self.dom.seriesesG.selectAll("g");
-      const g = (
-        /*(_g.size() && _g) ||*/
-        self.dom.seriesesG.append("g").datum(this.serieses)
-      );
-      self.renderCanvas(this.serieses, g, d, s, _g, duration);
-    } else {
-      self.dom.seriesesG.attr("transform", `translate(${d.xOffset + d.seriesXoffset},${d.yOffset})`);
-      const sg = self.dom.seriesesG.selectAll(".sjpp-mass-series-g").data(this.serieses, (series) => series.tw.$id);
-      sg.exit().remove();
-      sg.each(self.renderSeries);
-      sg.enter().append("g").attr("class", "sjpp-mass-series-g").style("opacity", 1e-3).each(self.renderSeries);
-      self.mouseout();
-    }
-    self.prevUseCanvas = s.useCanvas;
-  };
-  self.renderSeries = async function(series) {
-    const s = self.settings.matrix;
-    const d = self.dimensions;
-    const g = select_default(this);
-    const duration = g.attr("transform") ? s.duration : 0;
-    g.attr("transform", `translate(${series.x},${series.y})`).style("opacity", 1);
-    const last = series.cells[series.cells.length - 1];
-    const height = series.y + last?.y + s.rowh;
-    const rects = g.selectAll("rect").data(series.cells, (cell) => cell.sample + ";;" + cell.tw.$id + ";;" + cell.valueIndex);
-    rects.exit().remove();
-    rects.each(self.renderCell);
-    rects.enter().append("rect").each(self.renderCell);
-  };
-  self.renderCanvas = async function(serieses, g, d, s, _g, duration) {
-    const pxr = window.devicePixelRatio <= 1 ? 1 : window.devicePixelRatio;
-    g.selectAll("*").remove();
-    const width = d.imgW;
-    const height = self.dimensions.mainh;
-    const canvas = window.OffscreenCanvas ? new OffscreenCanvas(width * pxr, height * pxr) : (
-      // TODO: no need to support older browser versions???
-      self.dom.holder.append("canvas").attr("width", pxr * width).attr("height", pxr * height).style("opacity", 0).node()
-    );
-    const ctx = canvas.getContext("2d");
-    ctx.imageSmoothingEnabled = false;
-    ctx.imageSmoothingQuality = "high";
-    ctx.scale(pxr, pxr);
-    for (const series of serieses) {
-      for (const cell of series.cells) {
-        self.renderCellWithCanvas(ctx, cell, series, s, d, series.y);
-      }
-    }
-    if (window.OffscreenCanvas) {
-      const reader = new FileReader();
-      reader.addEventListener(
-        "load",
-        () => {
-          _g?.remove();
-          self.dom.seriesesG.attr("transform", `translate(${d.xOffset + d.seriesXoffset},${d.yOffset})`);
-          g.selectAll("image").remove();
-          g.append("image").attr("xlink:href", reader.result).attr("x", d.xMin).attr("width", width).attr("height", height);
-        },
-        false
-      );
-      const blob = await canvas.convertToBlob({ quality: 1 });
-      const dataURL = reader.readAsDataURL(blob);
-    } else {
-      _g?.remove();
-      self.dom.seriesesG.attr("transform", `translate(${d.xOffset + d.seriesXoffset},${d.yOffset})`);
-      const dataURL = canvas.toDataURL();
-      const ratio = window.devicePixelRatio * window.devicePixelRatio;
-      g.append("image").attr("width", width).attr("height", height).attr("xlink:href", dataURL);
-      if (!window.OffscreenCanvas) canvas.remove();
-    }
-    self.mouseout();
-  };
-  self.renderCellWithCanvas = function(ctx, cell, series, s, d, _y) {
-    if (!cell.fill)
-      cell.fill = cell.$id in self.colorScaleByTermId ? self.colorScaleByTermId[cell.$id](cell.key) : getRectFill(cell);
-    const x = cell.x ? cell.x - d.xMin : 0;
-    const y = _y ? _y + cell.y : cell.y || 0;
-    const width = s.useMinPixelWidth ? Math.max(cell.width || d.colw, d.pxw) : cell.width || d.colw;
-    const height = "height" in cell ? cell.height : s.rowh;
-    ctx.fillStyle = cell.fill;
-    ctx.fillRect(x, y, width, height);
-    const borderWidth = Math.min(width, height) * 0.1;
-    if (cell.border) {
-      ctx.lineWidth = borderWidth;
-      ctx.strokeStyle = "white";
-      ctx.strokeRect(x, y, width, height);
-    }
-  };
-  self.renderCell = function(cell) {
-    if (!cell.fill)
-      cell.fill = cell.$id in self.colorScaleByTermId ? self.colorScaleByTermId[cell.$id](cell.key) : getRectFill(cell);
-    const s = self.settings.matrix;
-    const rect = select_default(this).attr("x", cell.x || 0).attr("y", cell.y || 0).attr("width", cell.width || self.dimensions.colw).attr("height", "height" in cell ? Math.max(0, cell.height) : s.rowh).attr("shape-rendering", "crispEdges").attr("fill", cell.fill);
-    if (cell.border) {
-      rect.attr("stroke", "white").attr("stroke-width", 0.8);
-    }
-  };
-  self.renderLabels = function(s, l, d, duration) {
-    for (const direction of ["top", "btm", "left", "right"]) {
-      let renderLabel2 = function(lab) {
-        const g = select_default(this);
-        g.attr("transform", side.attr.labelGTransform);
-        if (!g.select(":scope>text").size()) g.append("text");
-        const showContAxis = !side.isGroup && lab.grp?.type !== "hierCluster" && lab.tw?.q?.mode == "continuous";
-        const labelText = side.label(lab);
-        const text = g.select(":scope>text").attr("fill", "#000");
-        let continuousBarHAdjust;
-        const twSpecificSettings = self.config.settings.matrix.twSpecificSettings;
-        const twSettingsBarH = twSpecificSettings[lab.tw?.$id]?.contBarH;
-        if (twSettingsBarH && s.barh) continuousBarHAdjust = (twSettingsBarH - s.barh) * 0.5;
-        text.attr(
-          "display",
-          lab.grp?.type === "hierCluster" && s.clusterRowh < 6 ? "none" : side.attr.fontSize < 6 || labelText === "configure" ? "none" : ""
-        ).attr("font-size", lab.grp?.type === "hierCluster" ? Math.max(4, s.clusterRowh - 4) : side.attr.fontSize).attr("text-anchor", side.attr.labelAnchor).attr(
-          "transform",
-          side.attr.labelTransform + (continuousBarHAdjust ? ` translate(0,${continuousBarHAdjust})` : "")
-        ).attr("cursor", "pointer").attr(side.attr.textpos.coord, side.attr.textpos.factor * (showContAxis ? 30 : 0));
-        if (!Array.isArray(labelText)) {
-          text.text(labelText);
-          text.attr(
-            "y",
-            lab.grp?.type !== "hierCluster" && lab.tw?.q?.mode == "continuous" ? 10 : lab.grp?.type === "hierCluster" ? 0.1 * s.clusterRowh : 0
-          );
-          if (lab.grp?.type !== "hierCluster" && lab.tw?.q?.mode == "continuous") text.attr("x", -20);
-        } else {
-          text.text("");
-          const tspan = text.selectAll("tspan").data(labelText);
-          tspan.enter().append("tspan").attr("class", getTspanCls2).attr("dx", getTspanDx2).attr("font-size", getTspanFontSize2).text(getTspanText2);
-        }
-        text.on("mouseover", labelText === "configure" ? () => text.attr("opacity", 0.5) : null).on("mouseout", labelText === "configure" ? () => text.attr("opacity", 0) : null);
-        const hasAxis = g.select(".sjpp-matrix-cell-axis").size() && true;
-        if (showContAxis && labelText) {
-          if (!hasAxis) {
-            g.append("g").attr("class", "sjpp-matrix-cell-axis").attr("shape-rendering", "crispEdges");
-          }
-          const axisg = g.select(".sjpp-matrix-cell-axis");
-          axisg.selectAll("*").remove();
-          const domain = [lab.counts.maxval, lab.counts.minval];
-          if (s.transpose) domain.reverse();
-          const twSpecificSettings2 = self.config.settings.matrix.twSpecificSettings;
-          const twSettings = twSpecificSettings2[lab.tw.$id];
-          const x = !s.transpose ? 0 : twSettings.contBarGap - 1 - lab.labelOffset;
-          const y = !s.transpose ? twSettings.contBarGap - 1 - lab.labelOffset : 0;
-          axisg.attr("shape-rendering", "crispEdges").attr("transform", `translate(${x},${y})`).call(side.attr.axisFxn(lab.scales.full.domain(lab.scales.tickValues)).tickValues(lab.scales.tickValues));
-        } else if (hasAxis) {
-          g.select(".sjpp-matrix-cell-axis").remove();
-        }
-      }, getTspanCls2 = function(d2) {
-        return d2.cls;
-      }, getTspanDx2 = function(d2) {
-        return d2.dx;
-      }, getTspanFontSize2 = function(d2) {
-        return d2.fontSize || side.attr.fontSize;
-      }, getTspanText2 = function(d2) {
-        return d2.text;
-      };
-      var renderLabel = renderLabel2, getTspanCls = getTspanCls2, getTspanDx = getTspanDx2, getTspanFontSize = getTspanFontSize2, getTspanText = getTspanText2;
-      const side = l[direction];
-      side.box.style("display", side.display || "").attr("transform", side.attr.boxTransform);
-      const labels = side.box.selectAll(".sjpp-matrix-label").data(side.data, side.key);
-      labels.exit().remove();
-      labels.each(renderLabel2);
-      labels.enter().append("g").attr("class", "sjpp-matrix-label").each(renderLabel2);
-    }
-  };
-  self.colLabelGTransform = (lab, grpIndex) => {
-    const s = self.settings.matrix;
-    const d = self.dimensions;
-    lab.labelOffset = 0.8 * d.colw;
-    const x = lab.grpIndex * s.colgspace + lab.totalIndex * d.dx + lab.labelOffset + lab.totalHtAdjustments;
-    const y = 0;
-    return `translate(${x + d.seriesXoffset},${y})`;
-  };
-  self.colGrpLabelGTransform = (lab, grpIndex) => {
-    const s = self.settings.matrix;
-    const d = self.dimensions;
-    const len = (lab.processedLst || lab.grp.lst).length;
-    const x = lab.grpIndex * s.colgspace + lab.prevGrpTotalIndex * d.dx + len * d.dx / 2 + s.grpLabelFontSize / 2 + lab.totalHtAdjustments;
-    return `translate(${x + d.seriesXoffset},0)`;
-  };
-  self.rowLabelGTransform = (lab, grpIndex) => {
-    const s = self.settings.matrix;
-    const d = self.dimensions;
-    const x = 0;
-    lab.labelOffset = 0.7 * (lab.grp.type == "hierCluster" ? s.clusterRowh : s.rowh);
-    const y = lab.grpIndex * s.rowgspace + lab.totalIndex * d.dy + lab.labelOffset + lab.totalHtAdjustments;
-    return `translate(${x},${y})`;
-  };
-  self.rowGrpLabelGTransform = (lab, grpIndex) => {
-    const s = self.settings.matrix;
-    const d = self.dimensions;
-    const len = (lab.processedLst || lab.grp.lst).length;
-    const x = lab.tw?.q?.mode == "continuous" ? 20 : 0;
-    const y = lab.grpIndex * s.rowgspace + lab.prevGrpTotalIndex * d.dy + len * d.dy / 2 + s.grpLabelFontSize / 2 + lab.totalHtAdjustments;
-    return `translate(${x},${y})`;
-  };
-  self.rowAxisGTransform = (lab, grpIndex) => {
-    const s = self.settings.matrix;
-    const d = self.dimensions;
-    const x = 0;
-    const y = lab.grpIndex * s.rowgspace + lab.totalIndex * d.dy + 0.7 * s.rowh + lab.totalHtAdjustments;
-    return `translate(${x},${y})`;
-  };
-  self.renderDivideByLabel = async (s, l, d) => {
-    self.dom.mainG.selectAll(".sjpp-matrix-divide-by-label").remove();
-    if (!self.config.divideBy) return;
-    const name = self.config.divideBy?.term.name || "";
-    const text = name.length <= s.rowlabelmaxchars ? name : name.slice(0, s.rowlabelmaxchars) + "\u2026";
-    const sides = !s.transpose ? [l.left, l.right] : [l.top, l.bottom];
-    const box = sides.find((d2) => !d2.isGroup)?.box;
-    const y = (s.collabelpos == "top" ? d.mainh + s.collabelmaxchars : -s.collabelmaxchars) + 8;
-    const anchor = s.rowlabelpos == "left" ? "end" : "start";
-    const cl = s.controlLabels;
-    const gNote = box.append("g").attr("class", "sjpp-matrix-divide-by-label").attr("transform", `translate(0, ${y})`);
-    gNote.append("text").attr("text-anchor", anchor).attr("font-style", "italic").attr("y", -20).text(`${cl.Samples} grouped by`);
-    const g = box.datum({ tw: self.config.divideBy }).append("g").attr("class", "sjpp-matrix-divide-by-label").attr("transform", `translate(0, ${y})`).on("click", (event, d2) => {
-      pill.showMenu(event, textElem.node());
-    });
-    const textElem = g.append("text").attr("text-anchor", anchor).attr("font-weight", 600).text(text);
-    g.append("title").text(`${cl.Samples} are grouped by this gene or variable. Click to edit.`);
-    const customMenuOptions = [];
-    const tvsKey = isNumericTerm(self.config.divideBy.term) ? "ranges" : "values";
-    if (self.config.legendValueFilter.lst?.find(
-      (l2) => l2.legendGrpName == self.config.divideBy.term.id || l2.legendGrpName == self.config.divideBy.term.name
-    )?.tvs[tvsKey]?.length) {
-      customMenuOptions.push({ label: `Show filtered ${cl.samples}`, callback: self.showDeletedSampleGroups });
-    }
-    const pill = await termsettingInit({
-      menuOptions: "{edit,replace,remove}",
-      //numericEditMenuVersion: opts.numericEditMenuVersion,
-      customMenuOptions,
-      //custom menu options other than menuOptions
-      vocabApi: self.app.vocabApi,
-      vocab: self.state.vocab,
-      //activeCohort: opts.state?.activeCohort,
-      holder: g,
-      debug: self.opts.debug,
-      usecase: { target: "matrix" },
-      getBodyParams: () => {
-        const currentGeneNames = self.termOrder.filter((t) => t.tw.term.type === "geneVariant").map(
-          (t) => t.tw.term.chr ? `${t.tw.term.chr}:${t.tw.term.start}-${t.tw.term.stop}` : t.tw.term.gene || t.tw.term.name
-        );
-        if (currentGeneNames.length) return { currentGeneNames };
-        return {};
-      },
-      callback: async (tw) => {
-        if (self.dom.loadingDiv && self.dom.svg) {
-          self.dom.loadingDiv.selectAll("*").remove();
-          self.dom.loadingDiv.html("").style("display", "").style("position", "relative").style("left", "45%");
-          self.dom.loadingDiv.html("Processing data ...");
-          self.dom.svg.style("opacity", 0.1).style("pointer-events", "none");
-        }
-        if (tw && !tw.q) throw "data.q{} missing from pill callback";
-        if (tw?.term && isNumericTerm(tw.term)) {
-          tw.q = { ...tw.q, mode: "discrete" };
-        }
-        if (tw) await fillTermWrapper(tw, self.app.vocabApi);
-        await pill.main(tw ? tw : { term: null, q: null });
-        box.datum({ tw });
-        self.app.dispatch({
-          type: "plot_edit",
-          id: self.id,
-          config: {
-            divideBy: tw,
-            legendValueFilter: self.mayRemoveTvsEntry(self.config.divideBy)
-          }
-        });
-      }
-    });
-    const arg = {
-      term: self.config.divideBy.term,
-      q: self.config.divideBy.q
-    };
-    if (self.config.divideBy.$id) arg.$id = self.config.divideBy.$id;
-    pill.main(arg);
-  };
-  self.adjustSvgDimensions = async function(prevTranspose) {
-    const s = self.settings.matrix;
-    const hc = self.settings.hierCluster || {};
-    const l = self.layout;
-    const hcHeight = !hc.yDendrogramHeight ? 0 : hc.yDendrogramHeight + (l.top.display === "none" ? 0 : 10);
-    const hcWidth = hc.xDendrogramHeight || 0;
-    const d = self.dimensions;
-    const duration = self.dom.svg.attr("width") ? s.duration : 0;
-    await sleep(prevTranspose == s.transpose ? duration : s.duration);
-    const topBox = l.top.box.node().getBBox();
-    const btmBox = l.btm.box.node().getBBox();
-    const leftBox = l.left.box.node().getBBox();
-    const rtBox = l.right.box.node().getBBox();
-    const legendBox = self.dom.legendG.node().getBBox();
-    const seriesBox = self.dom.seriesesG.node().getBBox();
-    d.extraWidth = leftBox.width + rtBox.width + s.margin.left + s.margin.right + s.rowlabelgap * 2;
-    d.extraHeight = topBox.height + btmBox.height + s.margin.top + s.margin.bottom + s.collabelgap * 2;
-    d.svgw = d.mainw + d.extraWidth + hcWidth;
-    d.svgh = d.mainh + d.extraHeight + legendBox.height + 20 + s.scrollHeight + hcHeight;
-    self.dom.svg.attr("width", d.svgw).attr("height", d.svgh);
-    let maxLabelWidth = self.type == "hierCluster" ? 0 : leftBox.width, maxLabelNumChars = 0;
-    if (hc.xDendrogramHeight) {
-      self.dom.termLabelG.selectAll(".sjpp-matrix-label").each(function(d2) {
-        if (d2.grp.type !== "hierCluster") return;
-        const box = this.getBBox();
-        if (box.width > maxLabelWidth) {
-          maxLabelWidth = box.width;
-          maxLabelNumChars = d2.label.length;
-        }
-      });
-    }
-    const x = -l.left.offset + hcWidth + maxLabelWidth;
-    const xAdjust = !hc.xDendrogramHeight ? 0 : Math.max(leftBox.width - (hc.xDendrogramHeight + maxLabelWidth), 0);
-    const y = (l.top.display == "none" ? 0 : topBox.height) - l.top.offset + hcHeight;
-    self.dom.mainG.attr("transform", `translate(${x + xAdjust},${y})`);
-    self.dom.clipRect.attr("y", -y).attr("height", d.mainh + 500 + y);
-    const legendX = d.xOffset + (s.transpose ? 20 : 0);
-    const legendY = d.yOffset + d.mainh + s.collabelgap + (l.btm.display == "none" ? 0 : btmBox.height) + 20;
-    self.dom.legendG.attr("transform", `translate(${legendX},${legendY})`);
-    if (hc.xDendrogramHeight) {
-      const dendroX = maxLabelWidth + xAdjust - l.left.offset + d.xOffset - d.dx / 2;
-      self.dom.hcClipRect.attr("x", dendroX + hcWidth + d.dx / 2).attr("y", 0).attr("width", d.mainw + 3).attr("height", d.mainh + hc.yDendrogramHeight + 500);
-      self.topDendroX = dendroX + d.seriesXoffset;
-      self.dom.topDendrogram.attr("transform", `translate(${self.topDendroX}, 0)`);
-      const y2 = l.top.display == "none" ? 0 : topBox.height + s.collabelgap;
-      self.dom.leftDendrogram.attr("transform", `translate(${dendroX - maxLabelWidth - 10}, ${y2})`);
-    }
-  };
-}
-function getRectFill(d) {
-  if (d.fill) return d.fill;
-  const cls = d.class || Array.isArray(d.values) && d.values[0].class;
-  if (!cls) console.log;
-  return cls ? mclass[cls].color : "#555";
-}
-function sleep(ms) {
-  return new Promise((resolve) => setTimeout(resolve, ms));
-}
-
-export {
-  setRenderers
-};
-//# sourceMappingURL=chunk-NIXFCC7X.js.map