npm - @milaboratories/graph-maker - Versions diffs - 1.1.192 → 1.1.193 - Mend

@milaboratories/graph-maker 1.1.192 → 1.1.193

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Files changed (51) hide show

package/dist/utils/createChartSettingsForRender/getLayersDataFromForms.js CHANGED Viewed

@@ -1,7 +1,7 @@
 import { isContinuousDataMapping as w } from "../../constantsCommon.js";
-import { AMINOACID_COLOR_MAPPING as L, NUCLEOTIDE_COLOR_MAPPING as A, PALETTE_MAP as b, DEFAULT_BLACK as v, DEFAULT_CONTINUOUS_PALETTE as F, DEFAULT_DOT_SHAPE as I } from "../../constantsAesthetic.js";
-import { DEFAULT_DOT_SIZE as _, DEFAULT_DOT_RANGE as P, isAestheticMappingContinuous as N, createContinuousMappingFromPalette as V } from "../../dataBindAes.js";
-function x(t) {
+import { DEFAULT_CONTINUOUS_PALETTE as A, AMINOACID_COLOR_MAPPING as b, NUCLEOTIDE_COLOR_MAPPING as F, PALETTE_MAP as I, DEFAULT_BLACK as v, DEFAULT_DOT_SHAPE as _ } from "../../constantsAesthetic.js";
+import { DEFAULT_DOT_SIZE as P, DEFAULT_DOT_RANGE as N, isAestheticMappingContinuous as V, createContinuousMappingFromPalette as x } from "../../dataBindAes.js";
+function z(t) {
   const r = [];
   if (t.overall.data.testMethod && t.overall.validity.testMethod && r.push({
     type: "stat",
@@ -30,7 +30,7 @@ function x(t) {
   }
   return r;
 }
-function B(t, r, u, f, d) {
+function R(t, r, u, f, d) {
   const n = [], h = f.components.primaryGrouping.selectorStates.length > 0, s = f.components.secondaryGrouping.selectorStates.length > 0;
   function i(o, l = !1) {
     return o === null ? s ? { type: "secondaryGrouping" } : h && !l ? { type: "primaryGrouping" } : { type: "secondaryGrouping" } : o;
@@ -175,21 +175,21 @@ function B(t, r, u, f, d) {
       });
     }
     if (o === "logo" && s) {
-      const e = r[o], y = ((l = d.getSourceInfo(f.components.secondaryGrouping.selectorStates[0].selectedSource).spec.domain) == null ? void 0 : l["pl7.app/alphabet"]) === "aminoacid";
+      const e = r[o], m = ((l = d.getSourceInfo(f.components.secondaryGrouping.selectorStates[0].selectedSource).spec.domain) == null ? void 0 : l["pl7.app/alphabet"]) === "aminoacid";
       n.push({
         type: "logo",
         normalize: e.normalize,
         aes: {
           opacity: e.opacity,
-          dotFill: y ? L : A
+          dotFill: m ? b : F
         }
       });
     }
-  }), h && !s && n.push(...x(u)), n;
+  }), h && !s && n.push(...z(u)), n;
 }
-function z(t, r, u, f) {
+function U(t, r, u, f) {
   if (t) {
-    const d = w(r) ? r : { column: t.value, range: P }, n = [1 / 0, -1 / 0];
+    const d = w(r) ? r : { column: t.value, range: N }, n = [1 / 0, -1 / 0];
     return u.values[t.value].forEach((h) => {
       const s = Number(h);
       s < n[0] && (n[0] = s), s > n[1] && (n[1] = s);
@@ -202,65 +202,65 @@ function D(t, r, u, f) {
   if (d) {
     const { range: n, palette: h, midPoint: s, log: i } = r;
     let { minValue: o, maxValue: l } = n ?? {}, e = !1;
-    const m = o == null, y = l == null, c = [1 / 0, -1 / 0];
-    (m || y) && f.values[d.value].forEach((p) => {
-      const g = Number(p);
-      g < c[0] && (c[0] = g), g > c[1] && (c[1] = g);
-    }), m && y ? (o = c[0], l = c[1]) : m ? o = l > c[0] ? c[0] : c[1] : y && (l = o < c[1] ? c[1] : c[0]), o != null && l !== null && l !== void 0 && o > l && (e = !0, [o, l] = [l, o]);
+    const y = o == null, m = l == null, c = [1 / 0, -1 / 0];
+    (y || m) && f.values[d.value].forEach((a) => {
+      const p = Number(a);
+      p < c[0] && (c[0] = p), p > c[1] && (c[1] = p);
+    }), y && m ? (o = c[0], l = c[1]) : y ? o = l > c[0] ? c[0] : c[1] : m && (l = o < c[1] ? c[1] : c[0]), o != null && l !== null && l !== void 0 && o > l && (e = !0, [o, l] = [l, o]);
     const C = [o, l];
     if (s != null) {
-      const p = Math.max(Math.abs(s - o), Math.abs(s - l));
-      C[0] = s - p, C[1] = s + p;
+      const a = Math.max(Math.abs(s - o), Math.abs(s - l));
+      C[0] = s - a, C[1] = s + a;
     }
-    const a = [...b[h].colors];
-    return e && a.reverse(), {
+    const g = [...I[h].colors];
+    return e && g.reverse(), {
       columnName: d,
       domain: C,
-      range: a,
+      range: g,
       type: i ? "log" : "linear"
     };
   }
   return v;
 }
-function R(t, r, u, f, d, n, h = [], s = _) {
-  var c, C;
-  const i = [];
-  function o(a, p, g, M = !1) {
+function j(t, r, u, f, d, n, h = [], s = P, i = A) {
+  var C, g;
+  const o = [];
+  function l(a, p, E, M = !1) {
     var G;
     if (p.length) {
-      const O = p.length ? (G = n.getSourceInfo(p[0])) == null ? void 0 : G.type : void 0, E = O === "String" || !M ? { type: "grouping", value: p[0] } : D(p[0], V(F), h, u), T = d[p[0]];
-      return a === null || O === "String" || !M || !N(T) ? E : D(p[0], T, h, u);
+      const O = p.length ? (G = n.getSourceInfo(p[0])) == null ? void 0 : G.type : void 0, L = O === "String" || !M ? { type: "grouping", value: p[0] } : D(p[0], x(i), h, u), T = d[p[0]];
+      return a === null || O === "String" || !M || !V(T) ? L : D(p[0], T, h, u);
     }
-    return typeof a == "object" ? g : a;
+    return typeof a == "object" ? E : a;
   }
-  const l = f.components.grouping.selectorStates.map((a) => a.selectedSource), e = ((c = f.components.shape) == null ? void 0 : c.selectorStates.map((a) => a.selectedSource)) ?? [], m = (C = f.components.size) == null ? void 0 : C.selectorStates.map((a) => a.selectedSource)[0], y = m ? h.find((a) => a.value === m) : void 0;
+  const e = f.components.grouping.selectorStates.map((a) => a.selectedSource), y = ((C = f.components.shape) == null ? void 0 : C.selectorStates.map((a) => a.selectedSource)) ?? [], m = (g = f.components.size) == null ? void 0 : g.selectorStates.map((a) => a.selectedSource)[0], c = m ? h.find((a) => a.value === m) : void 0;
   return t.forEach((a) => {
     if (a === "dots") {
       const p = r[a];
-      i.push({
+      o.push({
         type: "dots",
         aes: {
-          dotFill: o(p.dotFill, l, v, !0),
-          dotShape: o(p.dotShape, e, I),
-          dotSize: z(y, p.dotSize, u, s)
+          dotFill: l(p.dotFill, e, v, !0),
+          dotShape: l(p.dotShape, y, _),
+          dotSize: U(c, p.dotSize, u, s)
         }
       });
     }
     if (a === "curve") {
       const p = r[a];
-      i.push({
+      o.push({
         type: "curve",
         smoothing: p.smoothing,
         aes: {
-          lineColor: o(p.lineColor, l, v, !0)
+          lineColor: l(p.lineColor, e, v, !0)
         }
       });
     }
-  }), i;
+  }), o;
 }
 export {
-  B as getDiscreteLayersSettings,
-  R as getScatterplotLayersSettings,
-  x as getStatLayers
+  R as getDiscreteLayersSettings,
+  j as getScatterplotLayersSettings,
+  z as getStatLayers
 };
 //# sourceMappingURL=getLayersDataFromForms.js.map

package/dist/utils/createChartSettingsForRender/getLayersDataFromForms.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"getLayersDataFromForms.js","sources":["../../../src/utils/createChartSettingsForRender/getLayersDataFromForms.ts"],"sourcesContent":["import type {\n ColorAes,\n getDefaultLayersSettings,\n NumberRange,\n LayersSettings,\n MappingLink,\n DiscreteStatisticsState,\n ColumnNameSchema,\n ContinuousDataMappingSize,\n ContinuousDataMappingForGraph,\n} from '../../constantsCommon';\nimport {\n isContinuousDataMapping,\n} from '../../constantsCommon';\nimport type {\n Layer,\n ReactiveState,\n} from '../../types';\nimport type {\n DiscreteUIState, InputGuide,\n InputState,\n PlotDataAndSettings,\n ScatterplotUIState,\n} from '@milaboratories/pf-plots';\nimport type { DotShape, LineType } from '../../components/AesSettings/types';\nimport {\n AMINOACID_COLOR_MAPPING,\n DEFAULT_BLACK,\n DEFAULT_CONTINUOUS_PALETTE,\n DEFAULT_DOT_SHAPE, NUCLEOTIDE_COLOR_MAPPING,\n PALETTE_MAP,\n} from '../../constantsAesthetic';\nimport type {\n AestheticMappingContinuous } from '../../dataBindAes';\nimport { createContinuousMappingFromPalette,\n DEFAULT_DOT_RANGE,\n DEFAULT_DOT_SIZE,\n} from '../../dataBindAes';\nimport type { ScatterplotSettings } from '@milaboratories/miplots4';\nimport { isAestheticMappingContinuous } from '../../dataBindAes';\n\nexport function getStatLayers(statisticsSettings: DiscreteStatisticsState) {\n const layers: ChartLayerSettings[] = [];\n if (\n statisticsSettings.overall.data.testMethod\n && statisticsSettings.overall.validity.testMethod\n ) {\n layers.push({\n type: 'stat',\n statType: 'overall',\n testMethod: statisticsSettings.overall.data.testMethod,\n });\n }\n if (\n statisticsSettings.referenceGroup.data.testMethod\n && statisticsSettings.referenceGroup.validity.testMethod\n && statisticsSettings.referenceGroup.validity.referenceGroup\n ) {\n const layer: ChartLayerSettings = {\n type: 'stat',\n statType: 'referenceGroup',\n testMethod: statisticsSettings.referenceGroup.data.testMethod,\n referenceGroup: statisticsSettings.referenceGroup.data.referenceGroup,\n format: statisticsSettings.referenceGroup.data.format,\n ns: statisticsSettings.referenceGroup.data.ns,\n };\n if (statisticsSettings.referenceGroup.data.correctionMethod !== 'none') {\n layer.correctionMethod\n = statisticsSettings.referenceGroup.data.correctionMethod;\n }\n layers.push(layer);\n }\n if (\n statisticsSettings.pairwise.data.testMethod\n && statisticsSettings.pairwise.validity.testMethod\n ) {\n const layer: ChartLayerSettings = {\n type: 'stat',\n statType: 'pairwise',\n testMethod: statisticsSettings.pairwise.data.testMethod,\n format: statisticsSettings.pairwise.data.format,\n ns: statisticsSettings.pairwise.data.ns,\n };\n if (statisticsSettings.referenceGroup.data.correctionMethod !== 'none') {\n layer.correctionMethod\n = statisticsSettings.referenceGroup.data.correctionMethod;\n }\n layers.push(layer);\n }\n return layers;\n}\n\nexport function getDiscreteLayersSettings(\n layers: Layer[],\n layerSettings: LayersSettings,\n statisticsSettings: DiscreteStatisticsState,\n optionsState: DiscreteUIState,\n inputGuide: InputGuide<InputState>,\n): ChartLayerSettings[] {\n const result: ChartLayerSettings[] = [];\n const hasPrimaryGrouping\n = optionsState.components.primaryGrouping.selectorStates.length > 0;\n const hasSecondaryGrouping\n = optionsState.components.secondaryGrouping.selectorStates.length > 0;\n // If user didn't touch layers settings, some aes that can be mapped to groupings has 'null' value - we set them to secondary or primary grouping if available\n // for 'line', 'errorbar' layer it isn't possible to set primary grouping as a color aes\n function useDefaultColor(\n value: ColorAes \| null,\n onlySecondaryAvailable = false,\n ) {\n if (value === null) {\n if (hasSecondaryGrouping) {\n return { type: 'secondaryGrouping' };\n }\n if (hasPrimaryGrouping && !onlySecondaryAvailable) {\n return { type: 'primaryGrouping' };\n }\n return { type: 'secondaryGrouping' };\n }\n return value;\n }\n\n layers.forEach((layer) => {\n if (layer === 'box') {\n const settings = layerSettings[layer];\n result.push({\n type: 'box',\n aes: {\n showOutliers: settings.showOutliers,\n dotShape: settings.dotShape,\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n lineShape: settings.lineType,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'binnedDots') {\n const settings = layerSettings[layer];\n result.push({\n type: 'binnedDots',\n aes: {\n showOutliers: settings.showOutliers,\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'jitteredDots') {\n const settings = layerSettings[layer];\n result.push({\n type: 'dot',\n aes: {\n showOutliers: settings.showOutliers,\n dotFill: useDefaultColor(settings.dotFill),\n dotShape: settings.dotShape,\n lineColor: settings.lineColor,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'violin') {\n const settings = layerSettings[layer];\n result.push({\n type: 'violin',\n stat: {\n trim: settings.trim,\n },\n aes: {\n showQuartiles: settings.showQuartiles,\n medianLineStyle: settings.medianLineStyle,\n quartilesLineStyle: settings.quartilesLineStyle,\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n lineShape: settings.lineType,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'bar') {\n const settings = layerSettings[layer];\n result.push({\n type: 'bar',\n height: settings.height,\n aes: {\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'stackedBar') {\n const settings = layerSettings[layer];\n result.push({\n type: 'stackedBar',\n normalize: settings.normalize,\n height: settings.height,\n aes: {\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'stackedArea') {\n const settings = layerSettings[layer];\n result.push({\n type: 'stackedArea',\n normalize: settings.normalize,\n showBars: settings.showBars,\n height: settings.height,\n aes: {\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n barsOpacity: settings.barsOpacity,\n areaOpacity: settings.areaOpacity,\n },\n });\n }\n if (layer === 'line') {\n const settings = layerSettings[layer];\n result.push({\n type: 'line',\n pointsValues: settings.pointsValues,\n emptyGroupValue: settings.emptyGroupValue ?? 0,\n aes: {\n lineColor: useDefaultColor(settings.lineColor, true),\n fillColor: useDefaultColor(settings.dotFill, true),\n lineShape: settings.lineType,\n dotShape: settings.dotShape,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'errorbar') {\n const settings = layerSettings[layer];\n result.push({\n type: 'errorbar',\n pointsValues: settings.pointsValues,\n interval: settings.interval,\n aes: {\n lineColor: useDefaultColor(settings.lineColor, true),\n fillColor: useDefaultColor(settings.dotFill, true),\n dotShape: settings.dotShape,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'sina') {\n const settings = layerSettings[layer];\n result.push({\n type: 'sina',\n aes: {\n showOutliers: settings.showOutliers,\n dotFill: useDefaultColor(settings.dotFill),\n dotShape: settings.dotShape,\n },\n });\n }\n if (layer === 'logo' && hasSecondaryGrouping) {\n const settings = layerSettings[layer];\n const secondaryGroupingInfo = inputGuide.getSourceInfo(optionsState.components.secondaryGrouping.selectorStates[0].selectedSource);\n const isProtein = secondaryGroupingInfo.spec.domain?.['pl7.app/alphabet'] === 'aminoacid';\n result.push({\n type: 'logo',\n normalize: settings.normalize,\n aes: {\n opacity: settings.opacity,\n dotFill: isProtein ? AMINOACID_COLOR_MAPPING : NUCLEOTIDE_COLOR_MAPPING,\n },\n });\n }\n });\n if (hasPrimaryGrouping && !hasSecondaryGrouping) {\n result.push(...getStatLayers(statisticsSettings));\n }\n return result;\n}\n\nfunction getDotSize(\n column: ColumnNameSchema \| undefined,\n dotSize: ContinuousDataMappingSize \| number \| null,\n dataByColumns: PlotDataAndSettings['data']['byColumns'],\n defaultDotSize: number,\n): number \| { columnName: ColumnNameSchema; domain: number[]; range: number[] } {\n if (column) {\n const mapping = isContinuousDataMapping(dotSize) ? dotSize : { column: column.value, range: DEFAULT_DOT_RANGE };\n const domain = [Infinity, -Infinity];\n dataByColumns.values[column.value].forEach((v) => {\n const value = Number(v);\n if (value < domain[0]) {\n domain[0] = value;\n }\n if (value > domain[1]) {\n domain[1] = value;\n }\n });\n return { columnName: column, domain, range: [mapping.range.min, mapping.range.max] };\n }\n return isContinuousDataMapping(dotSize) ? defaultDotSize : dotSize ?? defaultDotSize;\n}\n\nfunction getContinuousColor<T extends string>(\n columnKey: string,\n value: AestheticMappingContinuous,\n groupingColumns: ColumnNameSchema[],\n dataByColumns: PlotDataAndSettings['data']['byColumns'],\n): T \| ContinuousDataMappingForGraph<T> {\n const column = groupingColumns.find((groupingColumn) => groupingColumn.value === columnKey);\n if (column) {\n const { range, palette, midPoint, log } = value;\n let { minValue, maxValue } = range ?? {};\n let inverted = false;\n\n const minValueMissed = minValue === null \|\| minValue === undefined;\n const maxValueMissed = maxValue === null \|\| maxValue === undefined;\n\n const bounds = [Infinity, -Infinity];\n if (minValueMissed \|\| maxValueMissed) {\n dataByColumns.values[column.value].forEach((v) => {\n const value = Number(v);\n if (value < bounds[0]) {\n bounds[0] = value;\n }\n if (value > bounds[1]) {\n bounds[1] = value;\n }\n });\n }\n if (minValueMissed && maxValueMissed) {\n minValue = bounds[0];\n maxValue = bounds[1];\n } else if (minValueMissed) {\n minValue = (maxValue as number) > bounds[0] ? bounds[0] : bounds[1];\n } else if (maxValueMissed) {\n maxValue = (minValue as number) < bounds[1] ? bounds[1] : bounds[0];\n }\n if (minValue !== null && minValue !== undefined && maxValue !== null && maxValue !== undefined && minValue > maxValue) {\n inverted = true;\n [minValue, maxValue] = [maxValue, minValue];\n }\n const domain = [minValue as number, maxValue as number];\n if (midPoint !== null && midPoint !== undefined) {\n const maxDistance = Math.max(Math.abs(midPoint - (minValue as number)), Math.abs(midPoint - (maxValue as number)));\n domain[0] = midPoint - maxDistance;\n domain[1] = midPoint + maxDistance;\n }\n\n const colors = [...PALETTE_MAP[palette].colors];\n if (inverted) {\n colors.reverse();\n }\n return {\n columnName: column,\n domain,\n range: colors,\n type: log ? 'log' : 'linear',\n } as ContinuousDataMappingForGraph<T>;\n }\n return DEFAULT_BLACK as T;\n}\n\nexport function getScatterplotLayersSettings(\n layers: Layer[],\n layerSettings: ReturnType<typeof getDefaultLayersSettings>,\n dataByColumns: PlotDataAndSettings['data']['byColumns'],\n optionsState: ScatterplotUIState,\n dataBindAes: ReactiveState['dataBindAes'],\n inputGuide: InputGuide<InputState>,\n groupingSchema: ColumnNameSchema[] = [],\n defaultDotSize = DEFAULT_DOT_SIZE,\n): ScatterplotSettings['layers'] {\n const result: ScatterplotSettings['layers'] = [];\n\n function useDefault<T extends string>(value: T \| MappingLink \| null, columns: string[], defaultValue: T, continousAvailable = false): T \| {\n type: 'grouping';\n value: string;\n } \| ContinuousDataMappingForGraph<T> {\n if (columns.length) {\n const valueType = columns.length ? inputGuide.getSourceInfo(columns[0])?.type : undefined;\n const defaultByColumn = (valueType === 'String' \|\| !continousAvailable)\n ? { type: 'grouping', value: columns[0] } as { type: 'grouping'; value: string }\n : getContinuousColor<T>(columns[0], createContinuousMappingFromPalette(DEFAULT_CONTINUOUS_PALETTE), groupingSchema, dataByColumns);\n\n const savedMapping = dataBindAes[columns[0]];\n\n if (value === null \|\| (valueType === 'String' \|\| !continousAvailable) \|\| !isAestheticMappingContinuous(savedMapping)) {\n return defaultByColumn;\n }\n return getContinuousColor<T>(columns[0], savedMapping as AestheticMappingContinuous, groupingSchema, dataByColumns);\n }\n\n return typeof value === 'object' ? defaultValue : value as T;\n }\n\n const grouping = optionsState.components.grouping.selectorStates.map((s) => s.selectedSource);\n const shape = optionsState.components.shape?.selectorStates.map((s) => s.selectedSource) ?? [];\n const sizeKey = optionsState.components.size?.selectorStates.map((s) => s.selectedSource)[0];\n const sizeColumn = sizeKey ? groupingSchema.find((column) => column.value === sizeKey) : undefined;\n\n layers.forEach((layer) => {\n if (layer === 'dots') {\n const settings = layerSettings[layer];\n result.push({\n type: 'dots',\n aes: {\n dotFill: useDefault<string>(settings.dotFill, grouping, DEFAULT_BLACK, true) as string \| {\n type: 'grouping';\n value: string;\n } \| ContinuousDataMappingForGraph<string>,\n dotShape: useDefault<DotShape>(settings.dotShape, shape, DEFAULT_DOT_SHAPE) as {\n type: 'grouping';\n value: string;\n } \| DotShape,\n dotSize: getDotSize(sizeColumn, settings.dotSize, dataByColumns, defaultDotSize),\n },\n });\n }\n if (layer === 'curve') {\n const settings = layerSettings[layer];\n result.push({\n type: 'curve',\n smoothing: settings.smoothing,\n aes: {\n lineColor: useDefault<string>(settings.lineColor, grouping, DEFAULT_BLACK, true) as {\n type: 'grouping';\n value: string;\n } \| string,\n },\n });\n }\n });\n return result;\n}\n\nexport type ChartLayerSettings = {\n [key: string]: string \| number \| boolean \| null \| Record<string, string \| DotShape \| NumberRange \| {\n domain: number[];\n range: number[];\n } \| LineType \| boolean \| number \| MappingLink \| Record<string, string>> \| undefined;\n type: string;\n aes?: Record<string, string \| DotShape \| NumberRange \| {\n domain: number[];\n range: number[];\n } \| LineType \| boolean \| number \| MappingLink \| Record<string, 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1	+ {"version":3,"file":"getLayersDataFromForms.js","sources":["../../../src/utils/createChartSettingsForRender/getLayersDataFromForms.ts"],"sourcesContent":["import type {\n ColorAes,\n getDefaultLayersSettings,\n NumberRange,\n LayersSettings,\n MappingLink,\n DiscreteStatisticsState,\n ColumnNameSchema,\n ContinuousDataMappingSize,\n ContinuousDataMappingForGraph,\n} from '../../constantsCommon';\nimport {\n isContinuousDataMapping,\n} from '../../constantsCommon';\nimport type {\n Layer,\n ReactiveState,\n} from '../../types';\nimport type {\n DiscreteUIState, InputGuide,\n InputState,\n PlotDataAndSettings,\n ScatterplotUIState,\n} from '@milaboratories/pf-plots';\nimport type { DotShape, LineType } from '../../components/AesSettings/types';\nimport {\n AMINOACID_COLOR_MAPPING,\n DEFAULT_BLACK,\n DEFAULT_CONTINUOUS_PALETTE,\n DEFAULT_DOT_SHAPE, NUCLEOTIDE_COLOR_MAPPING,\n PALETTE_MAP,\n} from '../../constantsAesthetic';\nimport type {\n AestheticMappingContinuous } from '../../dataBindAes';\nimport { createContinuousMappingFromPalette,\n DEFAULT_DOT_RANGE,\n DEFAULT_DOT_SIZE,\n} from '../../dataBindAes';\nimport type { ScatterplotSettings } from '@milaboratories/miplots4';\nimport { isAestheticMappingContinuous } from '../../dataBindAes';\n\nexport function getStatLayers(statisticsSettings: DiscreteStatisticsState) {\n const layers: ChartLayerSettings[] = [];\n if (\n statisticsSettings.overall.data.testMethod\n && statisticsSettings.overall.validity.testMethod\n ) {\n layers.push({\n type: 'stat',\n statType: 'overall',\n testMethod: statisticsSettings.overall.data.testMethod,\n });\n }\n if (\n statisticsSettings.referenceGroup.data.testMethod\n && statisticsSettings.referenceGroup.validity.testMethod\n && statisticsSettings.referenceGroup.validity.referenceGroup\n ) {\n const layer: ChartLayerSettings = {\n type: 'stat',\n statType: 'referenceGroup',\n testMethod: statisticsSettings.referenceGroup.data.testMethod,\n referenceGroup: statisticsSettings.referenceGroup.data.referenceGroup,\n format: statisticsSettings.referenceGroup.data.format,\n ns: statisticsSettings.referenceGroup.data.ns,\n };\n if (statisticsSettings.referenceGroup.data.correctionMethod !== 'none') {\n layer.correctionMethod\n = statisticsSettings.referenceGroup.data.correctionMethod;\n }\n layers.push(layer);\n }\n if (\n statisticsSettings.pairwise.data.testMethod\n && statisticsSettings.pairwise.validity.testMethod\n ) {\n const layer: ChartLayerSettings = {\n type: 'stat',\n statType: 'pairwise',\n testMethod: statisticsSettings.pairwise.data.testMethod,\n format: statisticsSettings.pairwise.data.format,\n ns: statisticsSettings.pairwise.data.ns,\n };\n if (statisticsSettings.referenceGroup.data.correctionMethod !== 'none') {\n layer.correctionMethod\n = statisticsSettings.referenceGroup.data.correctionMethod;\n }\n layers.push(layer);\n }\n return layers;\n}\n\nexport function getDiscreteLayersSettings(\n layers: Layer[],\n layerSettings: LayersSettings,\n statisticsSettings: DiscreteStatisticsState,\n optionsState: DiscreteUIState,\n inputGuide: InputGuide<InputState>,\n): ChartLayerSettings[] {\n const result: ChartLayerSettings[] = [];\n const hasPrimaryGrouping\n = optionsState.components.primaryGrouping.selectorStates.length > 0;\n const hasSecondaryGrouping\n = optionsState.components.secondaryGrouping.selectorStates.length > 0;\n // If user didn't touch layers settings, some aes that can be mapped to groupings has 'null' value - we set them to secondary or primary grouping if available\n // for 'line', 'errorbar' layer it isn't possible to set primary grouping as a color aes\n function useDefaultColor(\n value: ColorAes \| null,\n onlySecondaryAvailable = false,\n ) {\n if (value === null) {\n if (hasSecondaryGrouping) {\n return { type: 'secondaryGrouping' };\n }\n if (hasPrimaryGrouping && !onlySecondaryAvailable) {\n return { type: 'primaryGrouping' };\n }\n return { type: 'secondaryGrouping' };\n }\n return value;\n }\n\n layers.forEach((layer) => {\n if (layer === 'box') {\n const settings = layerSettings[layer];\n result.push({\n type: 'box',\n aes: {\n showOutliers: settings.showOutliers,\n dotShape: settings.dotShape,\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n lineShape: settings.lineType,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'binnedDots') {\n const settings = layerSettings[layer];\n result.push({\n type: 'binnedDots',\n aes: {\n showOutliers: settings.showOutliers,\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'jitteredDots') {\n const settings = layerSettings[layer];\n result.push({\n type: 'dot',\n aes: {\n showOutliers: settings.showOutliers,\n dotFill: useDefaultColor(settings.dotFill),\n dotShape: settings.dotShape,\n lineColor: settings.lineColor,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'violin') {\n const settings = layerSettings[layer];\n result.push({\n type: 'violin',\n stat: {\n trim: settings.trim,\n },\n aes: {\n showQuartiles: settings.showQuartiles,\n medianLineStyle: settings.medianLineStyle,\n quartilesLineStyle: settings.quartilesLineStyle,\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n lineShape: settings.lineType,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'bar') {\n const settings = layerSettings[layer];\n result.push({\n type: 'bar',\n height: settings.height,\n aes: {\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'stackedBar') {\n const settings = layerSettings[layer];\n result.push({\n type: 'stackedBar',\n normalize: settings.normalize,\n height: settings.height,\n aes: {\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'stackedArea') {\n const settings = layerSettings[layer];\n result.push({\n type: 'stackedArea',\n normalize: settings.normalize,\n showBars: settings.showBars,\n height: settings.height,\n aes: {\n fillColor: useDefaultColor(settings.fillColor),\n lineColor: useDefaultColor(settings.lineColor),\n barsOpacity: settings.barsOpacity,\n areaOpacity: settings.areaOpacity,\n },\n });\n }\n if (layer === 'line') {\n const settings = layerSettings[layer];\n result.push({\n type: 'line',\n pointsValues: settings.pointsValues,\n emptyGroupValue: settings.emptyGroupValue ?? 0,\n aes: {\n lineColor: useDefaultColor(settings.lineColor, true),\n fillColor: useDefaultColor(settings.dotFill, true),\n lineShape: settings.lineType,\n dotShape: settings.dotShape,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'errorbar') {\n const settings = layerSettings[layer];\n result.push({\n type: 'errorbar',\n pointsValues: settings.pointsValues,\n interval: settings.interval,\n aes: {\n lineColor: useDefaultColor(settings.lineColor, true),\n fillColor: useDefaultColor(settings.dotFill, true),\n dotShape: settings.dotShape,\n opacity: settings.opacity,\n },\n });\n }\n if (layer === 'sina') {\n const settings = layerSettings[layer];\n result.push({\n type: 'sina',\n aes: {\n showOutliers: settings.showOutliers,\n dotFill: useDefaultColor(settings.dotFill),\n dotShape: settings.dotShape,\n },\n });\n }\n if (layer === 'logo' && hasSecondaryGrouping) {\n const settings = layerSettings[layer];\n const secondaryGroupingInfo = inputGuide.getSourceInfo(optionsState.components.secondaryGrouping.selectorStates[0].selectedSource);\n const isProtein = secondaryGroupingInfo.spec.domain?.['pl7.app/alphabet'] === 'aminoacid';\n result.push({\n type: 'logo',\n normalize: settings.normalize,\n aes: {\n opacity: settings.opacity,\n dotFill: isProtein ? AMINOACID_COLOR_MAPPING : NUCLEOTIDE_COLOR_MAPPING,\n },\n });\n }\n });\n if (hasPrimaryGrouping && !hasSecondaryGrouping) {\n result.push(...getStatLayers(statisticsSettings));\n }\n return result;\n}\n\nfunction getDotSize(\n column: ColumnNameSchema \| undefined,\n dotSize: ContinuousDataMappingSize \| number \| null,\n dataByColumns: PlotDataAndSettings['data']['byColumns'],\n defaultDotSize: number,\n): number \| { columnName: ColumnNameSchema; domain: number[]; range: number[] } {\n if (column) {\n const mapping = isContinuousDataMapping(dotSize) ? dotSize : { column: column.value, range: DEFAULT_DOT_RANGE };\n const domain = [Infinity, -Infinity];\n dataByColumns.values[column.value].forEach((v) => {\n const value = Number(v);\n if (value < domain[0]) {\n domain[0] = value;\n }\n if (value > domain[1]) {\n domain[1] = value;\n }\n });\n return { columnName: column, domain, range: [mapping.range.min, mapping.range.max] };\n }\n return isContinuousDataMapping(dotSize) ? defaultDotSize : dotSize ?? defaultDotSize;\n}\n\nfunction getContinuousColor<T extends string>(\n columnKey: string,\n value: AestheticMappingContinuous,\n groupingColumns: ColumnNameSchema[],\n dataByColumns: PlotDataAndSettings['data']['byColumns'],\n): T \| ContinuousDataMappingForGraph<T> {\n const column = groupingColumns.find((groupingColumn) => groupingColumn.value === columnKey);\n if (column) {\n const { range, palette, midPoint, log } = value;\n let { minValue, maxValue } = range ?? {};\n let inverted = false;\n\n const minValueMissed = minValue === null \|\| minValue === undefined;\n const maxValueMissed = maxValue === null \|\| maxValue === undefined;\n\n const bounds = [Infinity, -Infinity];\n if (minValueMissed \|\| maxValueMissed) {\n dataByColumns.values[column.value].forEach((v) => {\n const value = Number(v);\n if (value < bounds[0]) {\n bounds[0] = value;\n }\n if (value > bounds[1]) {\n bounds[1] = value;\n }\n });\n }\n if (minValueMissed && maxValueMissed) {\n minValue = bounds[0];\n maxValue = bounds[1];\n } else if (minValueMissed) {\n minValue = (maxValue as number) > bounds[0] ? bounds[0] : bounds[1];\n } else if (maxValueMissed) {\n maxValue = (minValue as number) < bounds[1] ? bounds[1] : bounds[0];\n }\n if (minValue !== null && minValue !== undefined && maxValue !== null && maxValue !== undefined && minValue > maxValue) {\n inverted = true;\n [minValue, maxValue] = [maxValue, minValue];\n }\n const domain = [minValue as number, maxValue as number];\n if (midPoint !== null && midPoint !== undefined) {\n const maxDistance = Math.max(Math.abs(midPoint - (minValue as number)), Math.abs(midPoint - (maxValue as number)));\n domain[0] = midPoint - maxDistance;\n domain[1] = midPoint + maxDistance;\n }\n\n const colors = [...PALETTE_MAP[palette].colors];\n if (inverted) {\n colors.reverse();\n }\n return {\n columnName: column,\n domain,\n range: colors,\n type: log ? 'log' : 'linear',\n } as ContinuousDataMappingForGraph<T>;\n }\n return DEFAULT_BLACK as T;\n}\n\nexport function getScatterplotLayersSettings(\n layers: Layer[],\n layerSettings: ReturnType<typeof getDefaultLayersSettings>,\n dataByColumns: PlotDataAndSettings['data']['byColumns'],\n optionsState: ScatterplotUIState,\n dataBindAes: ReactiveState['dataBindAes'],\n inputGuide: InputGuide<InputState>,\n groupingSchema: ColumnNameSchema[] = [],\n defaultDotSize = DEFAULT_DOT_SIZE,\n defaultPalette = DEFAULT_CONTINUOUS_PALETTE,\n): ScatterplotSettings['layers'] {\n const result: ScatterplotSettings['layers'] = [];\n\n function useDefault<T extends string>(value: T \| MappingLink \| null, columns: string[], defaultValue: T, continousAvailable = false): T \| {\n type: 'grouping';\n value: string;\n } \| ContinuousDataMappingForGraph<T> {\n if (columns.length) {\n const valueType = columns.length ? inputGuide.getSourceInfo(columns[0])?.type : undefined;\n const defaultByColumn = (valueType === 'String' \|\| !continousAvailable)\n ? { type: 'grouping', value: columns[0] } as { type: 'grouping'; value: string }\n : getContinuousColor<T>(columns[0], createContinuousMappingFromPalette(defaultPalette), groupingSchema, dataByColumns);\n\n const savedMapping = dataBindAes[columns[0]];\n\n if (value === null \|\| (valueType === 'String' \|\| !continousAvailable) \|\| !isAestheticMappingContinuous(savedMapping)) {\n return defaultByColumn;\n }\n return getContinuousColor<T>(columns[0], savedMapping as AestheticMappingContinuous, groupingSchema, dataByColumns);\n }\n\n return typeof value === 'object' ? defaultValue : value as T;\n }\n\n const grouping = optionsState.components.grouping.selectorStates.map((s) => s.selectedSource);\n const shape = optionsState.components.shape?.selectorStates.map((s) => s.selectedSource) ?? 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package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@milaboratories/graph-maker",
-  "version": "1.1.192",
+  "version": "1.1.193",
   "type": "module",
   "main": "dist/index.js",
   "types": "dist/index.d.ts",