@gen-epix/ui-client-casedb 4.0.0

package/dist/utils/CaseDbTableUtil/CaseDbTableUtil.d.ts

@@ -0,0 +1,6 @@
+import { CaseDbCase, CaseDbCol, CaseDbCompleteCaseType } from '@gen-epix/api-casedb';
+import { GetTableCellRowComparatorProps, GetTableCellValueProps, TableColumnText } from '@gen-epix/ui/models/table';
+export declare class CaseDbTableUtil {
+    static createCaseTypeCellRowComperator({ column, dataContext, direction }: GetTableCellRowComparatorProps<TableColumnText<CaseDbCase, CaseDbCompleteCaseType, CaseDbCol>, CaseDbCompleteCaseType>): (a: CaseDbCase, b: CaseDbCase) => number;
+    static getTableCaseTypeCellValue<TRowData>({ column, dataContext, row, rowIndex }: GetTableCellValueProps<TRowData, TableColumnText<TRowData, CaseDbCompleteCaseType, CaseDbCol>, CaseDbCompleteCaseType>): string;
+}

package/dist/utils/CaseDbTableUtil/index.d.ts

@@ -0,0 +1 @@
+export * from './CaseDbTableUtil';

package/dist/utils/CaseDbTableUtil/index.js

@@ -0,0 +1,41 @@
+import { DataService as e } from "../../classes/services/DataService/index.js";
+import { CaseUtil as t } from "../CaseUtil/index.js";
+import { CaseDbColType as n } from "@gen-epix/api-casedb";
+//#region src/utils/CaseDbTableUtil/CaseDbTableUtil.ts
+var r = class {
+	static createCaseTypeCellRowComperator({ column: r, dataContext: i, direction: a }) {
+		return (o, s) => {
+			let c = t.getRowValue(o.content, r.columnContext, i), l = t.getRowValue(s.content, r.columnContext, i), u = r.columnContext, d = i.ref_cols[u.ref_col_id], f = a === "asc" ? 1 : -1;
+			if (c.raw === l.raw) return 0;
+			if (c.isMissing) return 1;
+			if (l.isMissing) return -1;
+			if (d.col_type === n.ORDINAL) {
+				let t = e.getInstance().data.conceptsIdsBySetId[d.concept_set_id];
+				return (t.indexOf(c.raw) - t.indexOf(l.raw)) * f;
+			}
+			return [
+				n.DECIMAL_0,
+				n.DECIMAL_1,
+				n.DECIMAL_2,
+				n.DECIMAL_3,
+				n.DECIMAL_4,
+				n.DECIMAL_4,
+				n.DECIMAL_5,
+				n.DECIMAL_6
+			].includes(d.col_type) ? (c.raw - +l.raw) * f : c.short.localeCompare(l.short) * f;
+		};
+	}
+	static getTableCaseTypeCellValue({ column: e, dataContext: n, row: r, rowIndex: i }) {
+		return e.valueGetter ? e.valueGetter({
+			column: e,
+			dataContext: n,
+			id: e.id,
+			row: r,
+			rowIndex: i
+		}) : t.getRowValue(r.content, e.columnContext, n).raw;
+	}
+};
+//#endregion
+export { r as CaseDbTableUtil };
+
+//# sourceMappingURL=index.js.map

package/dist/utils/CaseDbTableUtil/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","names":[],"sources":["../../../src/utils/CaseDbTableUtil/CaseDbTableUtil.ts"],"sourcesContent":["import type {\n  CaseDbCase,\n  CaseDbCol,\n  CaseDbCompleteCaseType,\n} from '@gen-epix/api-casedb';\nimport { CaseDbColType } from '@gen-epix/api-casedb';\nimport type {\n  GetTableCellRowComparatorProps,\n  GetTableCellValueProps,\n  TableColumn,\n  TableColumnText,\n} from '@gen-epix/ui/models/table';\n\nimport { DataService } from '../../classes/services/DataService';\nimport { CaseUtil } from '../CaseUtil';\n\nexport class CaseDbTableUtil {\n  // Cell value getters\n  public static createCaseTypeCellRowComperator({ column, dataContext, direction }: GetTableCellRowComparatorProps<TableColumnText<CaseDbCase, CaseDbCompleteCaseType, CaseDbCol>, CaseDbCompleteCaseType>): (a: CaseDbCase, b: CaseDbCase) => number {\n    return (a: CaseDbCase, b: CaseDbCase) => {\n      const aValue = CaseUtil.getRowValue(a.content, column.columnContext, dataContext);\n      const bValue = CaseUtil.getRowValue(b.content, column.columnContext, dataContext);\n      const col = column.columnContext;\n      const refCol = dataContext.ref_cols[col.ref_col_id];\n\n      const directionMultiplier = direction === 'asc' ? 1 : -1;\n\n      if (aValue.raw === bValue.raw) {\n        return 0;\n      }\n      if (aValue.isMissing) {\n        return 1;\n      }\n      if (bValue.isMissing) {\n        return -1;\n      }\n\n      if (refCol.col_type === CaseDbColType.ORDINAL) {\n        const conceptSetConceptIds = DataService.getInstance().data.conceptsIdsBySetId[refCol.concept_set_id];\n        return (conceptSetConceptIds.indexOf(aValue.raw) - conceptSetConceptIds.indexOf(bValue.raw)) * directionMultiplier;\n      }\n\n      if (([CaseDbColType.DECIMAL_0, CaseDbColType.DECIMAL_1, CaseDbColType.DECIMAL_2, CaseDbColType.DECIMAL_3, CaseDbColType.DECIMAL_4, CaseDbColType.DECIMAL_4, CaseDbColType.DECIMAL_5, CaseDbColType.DECIMAL_6] as CaseDbColType[]).includes(refCol.col_type)) {\n        return (+aValue.raw - +bValue.raw) * directionMultiplier;\n      }\n\n      return aValue.short.localeCompare(bValue.short) * directionMultiplier;\n    };\n  }\n\n  public static getTableCaseTypeCellValue<TRowData>({ column, dataContext, row, rowIndex }: GetTableCellValueProps<TRowData, TableColumnText<TRowData, CaseDbCompleteCaseType, CaseDbCol>, CaseDbCompleteCaseType>): string {\n    if (column.valueGetter) {\n      return column.valueGetter({ column: column as TableColumn<TRowData, CaseDbCompleteCaseType>, dataContext, id: column.id, row, rowIndex });\n    }\n    return CaseUtil.getRowValue((row as CaseDbCase).content, column.columnContext, dataContext).raw;\n  }\n}\n"],"mappings":";;;;AAgBA,IAAa,IAAb,MAA6B;CAE3B,OAAc,gCAAgC,EAAE,WAAQ,gBAAa,gBAA+K;EAClP,QAAQ,GAAe,MAAkB;GACvC,IAAM,IAAS,EAAS,YAAY,EAAE,SAAS,EAAO,eAAe,CAAW,GAC1E,IAAS,EAAS,YAAY,EAAE,SAAS,EAAO,eAAe,CAAW,GAC1E,IAAM,EAAO,eACb,IAAS,EAAY,SAAS,EAAI,aAElC,IAAsB,MAAc,QAAQ,IAAI;GAEtD,IAAI,EAAO,QAAQ,EAAO,KACxB,OAAO;GAET,IAAI,EAAO,WACT,OAAO;GAET,IAAI,EAAO,WACT,OAAO;GAGT,IAAI,EAAO,aAAa,EAAc,SAAS;IAC7C,IAAM,IAAuB,EAAY,YAAY,CAAC,CAAC,KAAK,mBAAmB,EAAO;IACtF,QAAQ,EAAqB,QAAQ,EAAO,GAAG,IAAI,EAAqB,QAAQ,EAAO,GAAG,KAAK;GACjG;GAMA,OAJK;IAAC,EAAc;IAAW,EAAc;IAAW,EAAc;IAAW,EAAc;IAAW,EAAc;IAAW,EAAc;IAAW,EAAc;IAAW,EAAc;GAAS,CAAC,CAAqB,SAAS,EAAO,QAAQ,KAC/O,EAAO,MAAM,CAAC,EAAO,OAAO,IAGhC,EAAO,MAAM,cAAc,EAAO,KAAK,IAAI;EACpD;CACF;CAEA,OAAc,0BAAoC,EAAE,WAAQ,gBAAa,QAAK,eAA4I;EAIxN,OAHI,EAAO,cACF,EAAO,YAAY;GAAU;GAAyD;GAAa,IAAI,EAAO;GAAI;GAAK;EAAS,CAAC,IAEnI,EAAS,YAAa,EAAmB,SAAS,EAAO,eAAe,CAAW,CAAC,CAAC;CAC9F;AACF"}

package/dist/utils/CaseSelectionUtil/CaseSelectionUtil.d.ts

@@ -0,0 +1,8 @@
+export declare class CaseSelectionUtil {
+    static addComponentCaseIdsToSelection(componentCaseIds: string[], selectedIds: string[]): string[];
+    static canAddToSelection(componentCaseIds: string[], selectedIds: string[]): boolean;
+    static canRefineSelection(componentCaseIds: string[], selectedIds: string[]): boolean;
+    static canRemoveFromSelection(componentCaseIds: string[], selectedIds: string[]): boolean;
+    static refineSelectionWithComponentCaseIds(componentCaseIds: string[], selectedIds: string[]): string[];
+    static removeComponentCaseIdsFromSelection(componentCaseIds: string[], selectedIds: string[]): string[];
+}

package/dist/utils/CaseSelectionUtil/index.d.ts

@@ -0,0 +1 @@
+export * from './CaseSelectionUtil';

package/dist/utils/CaseSelectionUtil/index.js

@@ -0,0 +1,29 @@
+import { h as e } from "../../_chunks/_MapCache.js";
+import { t } from "../../_chunks/intersection.js";
+//#region src/utils/CaseSelectionUtil/CaseSelectionUtil.ts
+var n = /* @__PURE__ */ e(t(), 1), r = class {
+	static addComponentCaseIdsToSelection(e, t) {
+		let n = [...t, ...e];
+		return Array.from(new Set(n));
+	}
+	static canAddToSelection(e, t) {
+		return (0, n.default)(e, t).length !== e.length;
+	}
+	static canRefineSelection(e, t) {
+		let r = (0, n.default)(e, t);
+		return !(r.length === 0 || r.length === e.length && r.length === t.length);
+	}
+	static canRemoveFromSelection(e, t) {
+		return (0, n.default)(e, t).length > 0;
+	}
+	static refineSelectionWithComponentCaseIds(e, t) {
+		return e.filter((e) => t.includes(e));
+	}
+	static removeComponentCaseIdsFromSelection(e, t) {
+		return t.filter((t) => !e.includes(t));
+	}
+};
+//#endregion
+export { r as CaseSelectionUtil };
+
+//# sourceMappingURL=index.js.map

package/dist/utils/CaseSelectionUtil/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","names":[],"sources":["../../../src/utils/CaseSelectionUtil/CaseSelectionUtil.ts"],"sourcesContent":["import intersection from 'lodash/intersection';\n\nexport class CaseSelectionUtil {\n  public static addComponentCaseIdsToSelection(componentCaseIds: string[], selectedIds: string[]): string[] {\n    const caseIds = [...selectedIds, ...componentCaseIds];\n    return Array.from(new Set(caseIds));\n  }\n\n  public static canAddToSelection(componentCaseIds: string[], selectedIds: string[]): boolean {\n    const intersectedCaseIds = intersection(componentCaseIds, selectedIds);\n    return intersectedCaseIds.length !== componentCaseIds.length;\n  }\n\n  public static canRefineSelection(componentCaseIds: string[], selectedIds: string[]): boolean {\n    const intersectedCaseIds = intersection(componentCaseIds, selectedIds);\n    const negationResult = intersectedCaseIds.length === 0 || (intersectedCaseIds.length === componentCaseIds.length && intersectedCaseIds.length === selectedIds.length);\n    return !negationResult;\n  }\n\n  public static canRemoveFromSelection(componentCaseIds: string[], selectedIds: string[]): boolean {\n    const intersectedCaseIds = intersection(componentCaseIds, selectedIds);\n    return intersectedCaseIds.length > 0;\n  }\n\n  public static refineSelectionWithComponentCaseIds(componentCaseIds: string[], selectedIds: string[]): string[] {\n    return componentCaseIds.filter(caseId => selectedIds.includes(caseId));\n  }\n\n  public static removeComponentCaseIdsFromSelection(componentCaseIds: string[], selectedIds: string[]): string[] {\n    return selectedIds.filter(caseId => !componentCaseIds.includes(caseId));\n  }\n}\n"],"mappings":";;;mCAEa,IAAb,MAA+B;CAC7B,OAAc,+BAA+B,GAA4B,GAAiC;EACxG,IAAM,IAAU,CAAC,GAAG,GAAa,GAAG,CAAgB;EACpD,OAAO,MAAM,KAAK,IAAI,IAAI,CAAO,CAAC;CACpC;CAEA,OAAc,kBAAkB,GAA4B,GAAgC;EAE1F,QAAA,GAAA,EAAA,QAAA,CADwC,GAAkB,CACnD,CAAA,CAAmB,WAAW,EAAiB;CACxD;CAEA,OAAc,mBAAmB,GAA4B,GAAgC;EAC3F,IAAM,KAAA,GAAA,EAAA,QAAA,CAAkC,GAAkB,CAAW;EAErE,OAAO,EADgB,EAAmB,WAAW,KAAM,EAAmB,WAAW,EAAiB,UAAU,EAAmB,WAAW,EAAY;CAEhK;CAEA,OAAc,uBAAuB,GAA4B,GAAgC;EAE/F,QAAA,GAAA,EAAA,QAAA,CADwC,GAAkB,CACnD,CAAA,CAAmB,SAAS;CACrC;CAEA,OAAc,oCAAoC,GAA4B,GAAiC;EAC7G,OAAO,EAAiB,QAAO,MAAU,EAAY,SAAS,CAAM,CAAC;CACvE;CAEA,OAAc,oCAAoC,GAA4B,GAAiC;EAC7G,OAAO,EAAY,QAAO,MAAU,CAAC,EAAiB,SAAS,CAAM,CAAC;CACxE;AACF"}

package/dist/utils/CaseSetUtil/CaseSetUtil.d.ts

@@ -0,0 +1,4 @@
+import { CaseDbCaseSet } from '@gen-epix/api-casedb';
+export declare class CaseSetUtil {
+    static createCaseSetLink(caseSet: CaseDbCaseSet, full?: boolean): string;
+}

package/dist/utils/CaseSetUtil/index.d.ts

@@ -0,0 +1 @@
+export * from './CaseSetUtil';

package/dist/utils/CaseSetUtil/index.js

@@ -0,0 +1,13 @@
+import { StringUtil as e } from "@gen-epix/ui-core/utils/StringUtil";
+import { WindowService as t } from "@gen-epix/ui-core/classes/services/WindowService";
+//#region src/utils/CaseSetUtil/CaseSetUtil.ts
+var n = class {
+	static createCaseSetLink(n, r) {
+		let i = `/events/${e.createSlug(n.name)}/${n.id}`;
+		return r ? `${t.getInstance().window.location.origin}${i}` : i;
+	}
+};
+//#endregion
+export { n as CaseSetUtil };
+
+//# sourceMappingURL=index.js.map

package/dist/utils/CaseSetUtil/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","names":[],"sources":["../../../src/utils/CaseSetUtil/CaseSetUtil.ts"],"sourcesContent":["import type { CaseDbCaseSet } from '@gen-epix/api-casedb';\nimport { WindowService } from '@gen-epix/ui-core/classes/services/WindowService';\nimport { StringUtil } from '@gen-epix/ui-core/utils/StringUtil';\n\n\nexport class CaseSetUtil {\n  public static createCaseSetLink(caseSet: CaseDbCaseSet, full?: boolean): string {\n    const path = `/events/${StringUtil.createSlug(caseSet.name)}/${caseSet.id}`;\n    if (full) {\n      return `${WindowService.getInstance().window.location.origin}${path}`;\n    }\n    return path;\n  }\n}\n"],"mappings":";;;AAKA,IAAa,IAAb,MAAyB;CACvB,OAAc,kBAAkB,GAAwB,GAAwB;EAC9E,IAAM,IAAO,WAAW,EAAW,WAAW,EAAQ,IAAI,EAAE,GAAG,EAAQ;EAIvE,OAHI,IACK,GAAG,EAAc,YAAY,CAAC,CAAC,OAAO,SAAS,SAAS,MAE1D;CACT;AACF"}

package/dist/utils/CaseTypeFormUtil/CaseTypeFormUtil.d.ts

@@ -0,0 +1,20 @@
+import { CaseDbCase, CaseDbCompleteCaseType } from '@gen-epix/api-casedb';
+import { ObjectSchema } from 'yup';
+import { FormFieldDefinition, FormGroupDefinition } from '@gen-epix/ui-form/models/form';
+export declare class CaseTypeFormUtil {
+    static createFormDefinitions(kwArgs: {
+        completeCaseType: CaseDbCompleteCaseType;
+        enabledColIds?: string[];
+        includedColIds?: string[];
+        onClearGroupFields?: (fieldNames: string[]) => void;
+    }): {
+        fieldDefinitions: FormFieldDefinition<CaseDbCase['content']>[];
+        groupDefinitions: FormGroupDefinition[];
+    };
+    static createYupSchema(kwArgs: {
+        completeCaseType: CaseDbCompleteCaseType;
+        includedColIds?: string[];
+    }): ObjectSchema<{
+        [key: string]: string;
+    }>;
+}

package/dist/utils/CaseTypeFormUtil/index.d.ts

@@ -0,0 +1 @@
+export * from './CaseTypeFormUtil';

package/dist/utils/CaseTypeFormUtil/index.js

@@ -0,0 +1,199 @@
+import { t as e } from "../../_chunks/isValid.js";
+import { CaseTypeUtil as t } from "../CaseTypeUtil/index.js";
+import { DataService as n } from "../../classes/services/DataService/index.js";
+import { AbacUtil as r } from "../AbacUtil/index.js";
+import { object as i, string as a } from "yup";
+import { t as o } from "i18next";
+import { CaseDbColType as s, CaseDbDimType as c } from "@gen-epix/api-casedb";
+import { StringUtil as l } from "@gen-epix/ui-core/utils/StringUtil";
+import { FORM_FIELD_DEFINITION_TYPE as u } from "@gen-epix/ui-form/models/form";
+//#region src/utils/CaseTypeFormUtil/CaseTypeFormUtil.ts
+var d = class {
+	static createFormDefinitions(e) {
+		let { completeCaseType: i, enabledColIds: a, includedColIds: d, onClearGroupFields: f } = e, p = t.getCols(i), m = t.getDims(i), h = r.createEffectieveColumnAccessRights(Object.values(i.case_type_access_abacs)), g = p.reduce((e, t) => {
+			if (!h.get(t.id)?.write || d && !d.includes(t.id)) return e;
+			let r = a ? !a.includes(t.id) : !1, c = i.ref_cols[t.ref_col_id];
+			switch (c.col_type) {
+				case s.DECIMAL_0:
+				case s.DECIMAL_1:
+				case s.DECIMAL_2:
+				case s.DECIMAL_3:
+				case s.DECIMAL_4:
+				case s.DECIMAL_5:
+				case s.DECIMAL_6:
+				case s.ID_CASE:
+				case s.ID_EVENT:
+				case s.ID_GENETIC_SEQUENCE:
+				case s.ID_PERSON:
+				case s.ID_SAMPLE:
+				case s.TEXT:
+				case s.TIME_MONTH:
+				case s.TIME_QUARTER:
+				case s.TIME_WEEK:
+				case s.TIME_YEAR:
+					e.push({
+						definition: u.TEXTFIELD,
+						disabled: r,
+						label: t.label,
+						name: t.id
+					});
+					break;
+				case s.GEO_REGION:
+					n.getInstance().data.regionsByRegionSetId[c.region_set_id] && e.push({
+						definition: u.AUTOCOMPLETE,
+						disabled: r,
+						label: t.label,
+						name: t.id,
+						options: n.getInstance().data.regionsByRegionSetId[c.region_set_id].map((e) => ({
+							label: n.getInstance().data.regionSets[c.region_set_id].region_code_as_label ? e.code : e.name,
+							value: e.id
+						}))
+					});
+					break;
+				case s.INTERVAL:
+				case s.NOMINAL:
+				case s.ORDINAL:
+					n.getInstance().data.conceptsBySetId[c.concept_set_id] && e.push({
+						definition: u.AUTOCOMPLETE,
+						disabled: r,
+						label: t.label,
+						name: t.id,
+						options: n.getInstance().data.conceptsBySetId[c.concept_set_id].map((e) => ({
+							label: e.name,
+							value: e.id
+						}))
+					});
+					break;
+				case s.ORGANIZATION:
+					e.push({
+						definition: u.AUTOCOMPLETE,
+						disabled: r,
+						label: t.label,
+						name: t.id,
+						options: (n.getInstance().data.organizations ?? []).map((e) => ({
+							label: e.name,
+							value: e.id
+						})).sort((e, t) => l.advancedSortComperator(e.label, t.label))
+					});
+					break;
+				case s.REGULAR_LANGUAGE:
+					try {
+						new RegExp(t.pattern), e.push({
+							definition: u.TEXTFIELD,
+							disabled: r,
+							label: t.label,
+							name: t.id
+						});
+					} catch {
+						e.push({
+							definition: u.TEXTFIELD,
+							disabled: r,
+							label: t.label,
+							name: t.id,
+							warningMessage: o`Unable to parse regular expression. You may enter text, but it's not guaranteed to be valid.`
+						});
+					}
+					break;
+				case s.TIME_DAY:
+					e.push({
+						definition: u.DATE,
+						disabled: r,
+						label: t.label,
+						name: t.id
+					});
+					break;
+				default: break;
+			}
+			return e;
+		}, []);
+		m.forEach((e) => {
+			let n = t.getCols(i, e.id).map((e) => e.id);
+			g.forEach((t) => {
+				n.includes(t.name) && (t.groupKey = e.id);
+			});
+		});
+		let _ = [];
+		return m.forEach((e) => {
+			let n = t.getCols(i, e.id), r = i.ref_dims[e.ref_dim_id], a = [];
+			r.dim_type === c.GEO && a.push({
+				message: o`This dimension contains geographical regions. When making updates, first clear all values and only fill in the highest known resolution(s) of the geographical regions.`,
+				severity: "info"
+			}), r.dim_type === c.TIME && a.push({
+				message: o`This dimension contains time-related data. When making updates, first clear all values and only fill in the highest known resolution(s) of the time-related data.`,
+				severity: "info"
+			});
+			let l = [
+				s.DECIMAL_0,
+				s.DECIMAL_1,
+				s.DECIMAL_2,
+				s.DECIMAL_3,
+				s.DECIMAL_4,
+				s.DECIMAL_5,
+				s.DECIMAL_6
+			];
+			(n.some((e) => i.ref_cols[e.ref_col_id].col_type === s.ORDINAL) || n.some((e) => i.ref_cols[e.ref_col_id].col_type === s.INTERVAL)) && n.some((e) => l.includes(i.ref_cols[e.ref_col_id].col_type)) && a.push({
+				message: o`This dimension contains a mix of ordinal/interval and decimal columns. When making updates, first clear all values and only fill in the highest known resolution(s) of the data (typically the decimal data).`,
+				severity: "info"
+			});
+			let u = g.filter((t) => t.groupKey === e.id).map((e) => e.name);
+			_.push({
+				groupKey: e.id,
+				label: e.label,
+				messages: f ? a.map((t) => ({
+					...t,
+					buttonLabel: o("Clear all {{dimension}} fields", { dimension: e.label }),
+					onButtonClick: () => f(u)
+				})) : a
+			});
+		}), {
+			fieldDefinitions: g,
+			groupDefinitions: _
+		};
+	}
+	static createYupSchema(n) {
+		let { completeCaseType: c, includedColIds: l } = n, u = r.createEffectieveColumnAccessRights(Object.values(c.case_type_access_abacs));
+		return t.getCols(c).reduce((t, n) => {
+			if (!u.get(n.id)?.write || l && !l.includes(n.id)) return t;
+			let r = c.ref_cols[n.ref_col_id];
+			switch (r.col_type) {
+				case s.DECIMAL_0: return t.concat(i().shape({ [n.id]: a().nullable().decimal0().transform((e, t) => t || null) }));
+				case s.DECIMAL_1: return t.concat(i().shape({ [n.id]: a().nullable().decimal1().transform((e, t) => t ?? null) }));
+				case s.DECIMAL_2: return t.concat(i().shape({ [n.id]: a().nullable().decimal2().transform((e, t) => t ?? null) }));
+				case s.DECIMAL_3: return t.concat(i().shape({ [n.id]: a().nullable().decimal3().transform((e, t) => t ?? null) }));
+				case s.DECIMAL_4: return t.concat(i().shape({ [n.id]: a().nullable().decimal4().transform((e, t) => t ?? null) }));
+				case s.DECIMAL_5: return t.concat(i().shape({ [n.id]: a().nullable().decimal5().transform((e, t) => t ?? null) }));
+				case s.DECIMAL_6: return t.concat(i().shape({ [n.id]: a().nullable().decimal6().transform((e, t) => t ?? null) }));
+				case s.GENETIC_DISTANCE:
+				case s.GENETIC_READS:
+				case s.GENETIC_SEQUENCE: return t;
+				case s.GEO_LATLON: return t.concat(i().shape({ [n.id]: a().nullable().latLong().transform((e, t) => t || null) }));
+				case s.GEO_REGION:
+				case s.INTERVAL:
+				case s.NOMINAL:
+				case s.ORDINAL:
+				case s.ORGANIZATION: return t.concat(i().shape({ [n.id]: a().nullable().uuid4().transform((e, t) => t || null) }));
+				case s.ID_CASE:
+				case s.ID_EVENT:
+				case s.ID_GENETIC_SEQUENCE:
+				case s.ID_PERSON:
+				case s.ID_SAMPLE: return t.concat(i().shape({ [n.id]: a().nullable().extendedAlphaNumeric().max(255).transform((e, t) => t || null) }));
+				case s.REGULAR_LANGUAGE: try {
+					return t.concat(i().shape({ [n.id]: a().nullable().matches(new RegExp(n.pattern), o("Invalid value for pattern \"{{pattern}}\"", { pattern: n.pattern })) })).transform((e, t) => t || null);
+				} catch {
+					return t.concat(i().shape({ [n.id]: a().nullable().max(n.max_length ?? 65535) })).transform((e, t) => t || null);
+				}
+				case s.TEXT: return t.concat(i().shape({ [n.id]: a().nullable().extendedAlphaNumeric().max(65535).transform((e, t) => t || null) }));
+				case s.TIME_DAY: return t.concat(i().shape({ [n.id]: a().nullable().transform((t, n) => e(n) ? n.toISOString() : null) }));
+				case s.TIME_MONTH: return t.concat(i().shape({ [n.id]: a().nullable().timeMonth().transform((e, t) => t || null) }));
+				case s.TIME_QUARTER: return t.concat(i().shape({ [n.id]: a().nullable().timeQuarter().transform((e, t) => t || null) }));
+				case s.TIME_WEEK: return t.concat(i().shape({ [n.id]: a().nullable().timeWeek().transform((e, t) => t || null) }));
+				case s.TIME_YEAR: return t.concat(i().shape({ [n.id]: a().nullable().timeYear().transform((e, t) => t || null) }));
+				default: return console.warn(`Unknown column type: ${r.col_type}`), t;
+			}
+		}, i({}));
+	}
+};
+//#endregion
+export { d as CaseTypeFormUtil };
+
+//# sourceMappingURL=index.js.map

package/dist/utils/CaseTypeFormUtil/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","names":[],"sources":["../../../src/utils/CaseTypeFormUtil/CaseTypeFormUtil.ts"],"sourcesContent":["import type {\n  CaseDbCase,\n  CaseDbCompleteCaseType,\n} from '@gen-epix/api-casedb';\nimport {\n  CaseDbColType,\n  CaseDbDimType,\n} from '@gen-epix/api-casedb';\nimport { isValid } from 'date-fns';\nimport { t } from 'i18next';\nimport type { ObjectSchema } from 'yup';\nimport {\n  object,\n  string,\n} from 'yup';\nimport { StringUtil } from '@gen-epix/ui-core/utils/StringUtil';\nimport type {\n  FormFieldDefinition,\n  FormGroupDefinition,\n  FormGroupMessage,\n} from '@gen-epix/ui-form/models/form';\nimport { FORM_FIELD_DEFINITION_TYPE } from '@gen-epix/ui-form/models/form';\n\nimport { DataService } from '../../classes/services/DataService';\nimport { AbacUtil } from '../AbacUtil';\nimport { CaseTypeUtil } from '../CaseTypeUtil';\n\nexport class CaseTypeFormUtil {\n\n  public static createFormDefinitions(kwArgs: { completeCaseType: CaseDbCompleteCaseType; enabledColIds?: string[]; includedColIds?: string[]; onClearGroupFields?: (fieldNames: string[]) => void }): { fieldDefinitions: FormFieldDefinition<CaseDbCase['content']>[]; groupDefinitions: FormGroupDefinition[] } {\n    const { completeCaseType, enabledColIds, includedColIds, onClearGroupFields } = kwArgs;\n    const cols = CaseTypeUtil.getCols(completeCaseType);\n    const dimensions = CaseTypeUtil.getDims(completeCaseType);\n    const effectiveColumnAccessRights = AbacUtil.createEffectieveColumnAccessRights(Object.values(completeCaseType.case_type_access_abacs));\n    const fieldDefinitions: FormFieldDefinition<CaseDbCase['content']>[] = cols.reduce((acc, col) => {\n      const hasAccess = effectiveColumnAccessRights.get(col.id)?.write;\n      if (!hasAccess) {\n        return acc;\n      }\n      if (includedColIds && !includedColIds.includes(col.id)) {\n        return acc;\n      }\n      const disabled = enabledColIds ? !enabledColIds.includes(col.id) : false;\n\n      const refCol = completeCaseType.ref_cols[col.ref_col_id];\n      switch (refCol.col_type) {\n        case CaseDbColType.DECIMAL_0:\n        case CaseDbColType.DECIMAL_1:\n        case CaseDbColType.DECIMAL_2:\n        case CaseDbColType.DECIMAL_3:\n        case CaseDbColType.DECIMAL_4:\n        case CaseDbColType.DECIMAL_5:\n        case CaseDbColType.DECIMAL_6:\n        case CaseDbColType.ID_CASE:\n        case CaseDbColType.ID_EVENT:\n        case CaseDbColType.ID_GENETIC_SEQUENCE:\n        case CaseDbColType.ID_PERSON:\n        case CaseDbColType.ID_SAMPLE:\n        case CaseDbColType.TEXT:\n        case CaseDbColType.TIME_MONTH:\n        case CaseDbColType.TIME_QUARTER:\n        case CaseDbColType.TIME_WEEK:\n        case CaseDbColType.TIME_YEAR:\n          acc.push({\n            definition: FORM_FIELD_DEFINITION_TYPE.TEXTFIELD,\n            disabled,\n            label: col.label,\n            name: col.id,\n          } as const satisfies FormFieldDefinition<CaseDbCase['content']>);\n          break;\n        case CaseDbColType.GEO_REGION:\n          if (DataService.getInstance().data.regionsByRegionSetId[refCol.region_set_id]) {\n            acc.push({\n              definition: FORM_FIELD_DEFINITION_TYPE.AUTOCOMPLETE,\n              disabled,\n              label: col.label,\n              name: col.id,\n              options: DataService.getInstance().data.regionsByRegionSetId[refCol.region_set_id].map(region => ({\n                label: DataService.getInstance().data.regionSets[refCol.region_set_id].region_code_as_label ? region.code : region.name,\n                value: region.id,\n              })),\n            } as const satisfies FormFieldDefinition<CaseDbCase['content']>);\n          }\n          break;\n        case CaseDbColType.INTERVAL:\n        case CaseDbColType.NOMINAL:\n        case CaseDbColType.ORDINAL:\n          if (DataService.getInstance().data.conceptsBySetId[refCol.concept_set_id]) {\n            acc.push({\n              definition: FORM_FIELD_DEFINITION_TYPE.AUTOCOMPLETE,\n              disabled,\n              label: col.label,\n              name: col.id,\n              options: DataService.getInstance().data.conceptsBySetId[refCol.concept_set_id].map(concept => ({\n                label: concept.name,\n                value: concept.id,\n              })),\n            } as const satisfies FormFieldDefinition<CaseDbCase['content']>);\n          }\n          break;\n        case CaseDbColType.ORGANIZATION:\n          acc.push({\n            definition: FORM_FIELD_DEFINITION_TYPE.AUTOCOMPLETE,\n            disabled,\n            label: col.label,\n            name: col.id,\n            options: (DataService.getInstance().data.organizations ?? []).map(organization => ({\n              label: organization.name,\n              value: organization.id,\n            })).sort((a, b) => StringUtil.advancedSortComperator(a.label, b.label)),\n          } as const satisfies FormFieldDefinition<CaseDbCase['content']>);\n          break;\n        case CaseDbColType.REGULAR_LANGUAGE:\n          try {\n            new RegExp(col.pattern);\n            acc.push({\n              definition: FORM_FIELD_DEFINITION_TYPE.TEXTFIELD,\n              disabled,\n              label: col.label,\n              name: col.id,\n            } as const satisfies FormFieldDefinition<CaseDbCase['content']>);\n          } catch (_error) {\n            acc.push({\n              definition: FORM_FIELD_DEFINITION_TYPE.TEXTFIELD,\n              disabled,\n              label: col.label,\n              name: col.id,\n              warningMessage: t`Unable to parse regular expression. You may enter text, but it's not guaranteed to be valid.`,\n            } as const satisfies FormFieldDefinition<CaseDbCase['content']>);\n          }\n          break;\n        case CaseDbColType.TIME_DAY:\n          acc.push({\n            definition: FORM_FIELD_DEFINITION_TYPE.DATE,\n            disabled,\n            label: col.label,\n            name: col.id,\n          } as const satisfies FormFieldDefinition<CaseDbCase['content']>);\n          break;\n        default:\n          break;\n      }\n\n      return acc;\n    }, [] as FormFieldDefinition<CaseDbCase['content']>[]);\n\n    dimensions.forEach(dim => {\n      const colIds = CaseTypeUtil.getCols(completeCaseType, dim.id).map(col => col.id);\n      fieldDefinitions.forEach(definition => {\n        if (colIds.includes(definition.name)) {\n          definition.groupKey = dim.id;\n        }\n      });\n    });\n\n    const groupDefinitions: FormGroupDefinition[] = [];\n\n    dimensions.forEach(dim => {\n      const colsInDim = CaseTypeUtil.getCols(completeCaseType, dim.id);\n      const refDim = completeCaseType.ref_dims[dim.ref_dim_id];\n      const messages: FormGroupMessage[] = [];\n\n      if (refDim.dim_type === CaseDbDimType.GEO) {\n        messages.push({ message: t`This dimension contains geographical regions. When making updates, first clear all values and only fill in the highest known resolution(s) of the geographical regions.`, severity: 'info' });\n      }\n      if (refDim.dim_type === CaseDbDimType.TIME) {\n        messages.push({ message: t`This dimension contains time-related data. When making updates, first clear all values and only fill in the highest known resolution(s) of the time-related data.`, severity: 'info' });\n      }\n      const DECIMAL_COL_TYPES = [CaseDbColType.DECIMAL_0, CaseDbColType.DECIMAL_1, CaseDbColType.DECIMAL_2, CaseDbColType.DECIMAL_3, CaseDbColType.DECIMAL_4, CaseDbColType.DECIMAL_5, CaseDbColType.DECIMAL_6] as const;\n      if (\n        (colsInDim.some(col => completeCaseType.ref_cols[col.ref_col_id].col_type === CaseDbColType.ORDINAL) || colsInDim.some(col => completeCaseType.ref_cols[col.ref_col_id].col_type === CaseDbColType.INTERVAL)) &&\n        colsInDim.some(col => (DECIMAL_COL_TYPES as readonly string[]).includes(completeCaseType.ref_cols[col.ref_col_id].col_type))\n      ) {\n        messages.push({ message: t`This dimension contains a mix of ordinal/interval and decimal columns. When making updates, first clear all values and only fill in the highest known resolution(s) of the data (typically the decimal data).`, severity: 'info' });\n      }\n\n      const groupFieldNames = fieldDefinitions.filter(f => f.groupKey === dim.id).map(f => f.name);\n      groupDefinitions.push({\n        groupKey: dim.id,\n        label: dim.label,\n        messages: onClearGroupFields\n          ? messages.map(msg => ({\n            ...msg,\n            buttonLabel: t('Clear all {{dimension}} fields', { dimension: dim.label }),\n            onButtonClick: () => onClearGroupFields(groupFieldNames),\n          }))\n          : messages,\n      });\n    });\n\n    return { fieldDefinitions, groupDefinitions };\n  }\n\n  public static createYupSchema(kwArgs: { completeCaseType: CaseDbCompleteCaseType; includedColIds?: string[] }): ObjectSchema<{ [key: string]: string }> {\n    const { completeCaseType, includedColIds } = kwArgs;\n    const effectiveColumnAccessRights = AbacUtil.createEffectieveColumnAccessRights(Object.values(completeCaseType.case_type_access_abacs));\n\n    return CaseTypeUtil.getCols(completeCaseType).reduce((s, col) => {\n      const hasAccess = effectiveColumnAccessRights.get(col.id)?.write;\n      if (!hasAccess) {\n        return s;\n      }\n      if (includedColIds && !includedColIds.includes(col.id)) {\n        return s;\n      }\n\n      const refCol = completeCaseType.ref_cols[col.ref_col_id];\n      switch (refCol.col_type) {\n        case CaseDbColType.DECIMAL_0:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().decimal0().transform((_val: unknown, orig: string) => orig || null),\n          }));\n        case CaseDbColType.DECIMAL_1:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().decimal1().transform((_val: unknown, orig: string) => orig ?? null),\n          }));\n        case CaseDbColType.DECIMAL_2:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().decimal2().transform((_val: unknown, orig: string) => orig ?? null),\n          }));\n        case CaseDbColType.DECIMAL_3:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().decimal3().transform((_val: unknown, orig: string) => orig ?? null),\n          }));\n        case CaseDbColType.DECIMAL_4:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().decimal4().transform((_val: unknown, orig: string) => orig ?? null),\n          }));\n        case CaseDbColType.DECIMAL_5:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().decimal5().transform((_val: unknown, orig: string) => orig ?? null),\n          }));\n        case CaseDbColType.DECIMAL_6:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().decimal6().transform((_val: unknown, orig: string) => orig ?? null),\n          }));\n        case CaseDbColType.GENETIC_DISTANCE:\n        case CaseDbColType.GENETIC_READS:\n        case CaseDbColType.GENETIC_SEQUENCE:\n          return s;\n        case CaseDbColType.GEO_LATLON:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().latLong().transform((_val: unknown, orig: string) => orig || null),\n          }));\n        case CaseDbColType.GEO_REGION:\n        case CaseDbColType.INTERVAL:\n        case CaseDbColType.NOMINAL:\n        case CaseDbColType.ORDINAL:\n        case CaseDbColType.ORGANIZATION:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().uuid4().transform((_val: unknown, orig: string) => orig || null),\n          }));\n        case CaseDbColType.ID_CASE:\n        case CaseDbColType.ID_EVENT:\n        case CaseDbColType.ID_GENETIC_SEQUENCE:\n        case CaseDbColType.ID_PERSON:\n        case CaseDbColType.ID_SAMPLE:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().extendedAlphaNumeric().max(255).transform((_val: unknown, orig: string) => orig || null),\n          }));\n        case CaseDbColType.REGULAR_LANGUAGE:\n          try {\n            return s.concat(object().shape({\n              [col.id]: string().nullable().matches(new RegExp(col.pattern), t('Invalid value for pattern \"{{pattern}}\"', { pattern: col.pattern })),\n            })).transform((_val: unknown, orig: string) => orig || null);\n          } catch (_error) {\n            return s.concat(object().shape({\n              [col.id]: string().nullable().max(col.max_length ?? 65535),\n            })).transform((_val: unknown, orig: string) => orig || null);\n          }\n        case CaseDbColType.TEXT:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().extendedAlphaNumeric().max(65535).transform((_val: unknown, orig: string) => orig || null),\n          }));\n        case CaseDbColType.TIME_DAY:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().transform((_val: unknown, orig: Date) => isValid(orig) ? orig.toISOString() : null),\n          }));\n        case CaseDbColType.TIME_MONTH:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().timeMonth().transform((_val: unknown, orig: string) => orig || null),\n          }));\n        case CaseDbColType.TIME_QUARTER:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().timeQuarter().transform((_val: unknown, orig: string) => orig || null),\n          }));\n        case CaseDbColType.TIME_WEEK:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().timeWeek().transform((_val: unknown, orig: string) => orig || null),\n          }));\n        case CaseDbColType.TIME_YEAR:\n          return s.concat(object().shape({\n            [col.id]: string().nullable().timeYear().transform((_val: unknown, orig: string) => orig || null),\n          }));\n        default:\n          console.warn(`Unknown column type: ${refCol.col_type}`);\n          return s;\n      }\n    }, object({}));\n  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package/dist/utils/CaseTypeUtil/CaseTypeUtil.d.ts

@@ -0,0 +1,39 @@
+import { CaseDbCaseType, CaseDbCol, CaseDbCompleteCaseType, CaseDbDim, CaseDbRefCol, CaseDbRefDim, CaseDbColType, CaseDbDimType } from '@gen-epix/api-casedb';
+export declare const SELECTION_FILTER_GROUP = "selection";
+export declare const TREE_FILTER_GROUP = "tree";
+export declare class CaseTypeUtil {
+    static createCaseTypeLink(caseType: CaseDbCaseType | CaseDbCompleteCaseType, full?: boolean): string;
+    /**
+     * Find paired FWD/REV columns in the same dimension.
+     * @param completeCaseType The complete case type object.
+     * @returns An array of paired FWD/REV columns.
+     */
+    static findPairedReadsCols(completeCaseType: CaseDbCompleteCaseType): {
+        fwd: CaseDbCol;
+        rev: CaseDbCol;
+    }[];
+    /**
+     * Find a unique column by its column ID or column ID.
+     * @param completeCaseType The complete case type object.
+     * @param id The ID of the column or column.
+     * @returns The unique column if found, otherwise null.
+     */
+    static findUniqueColByColIdRefOrColId(completeCaseType: CaseDbCompleteCaseType, id: string): CaseDbCol;
+    static getCols(completeCaseType: CaseDbCompleteCaseType, dimId?: string): CaseDbCol[];
+    /**
+     * Get columns by their column type.
+     * @param completeCaseType The complete case type object.
+     * @param colType The column type to filter by.
+     * @returns An array of columns matching the specified column type.
+     */
+    static getColsByType(completeCaseType: CaseDbCompleteCaseType, colType: CaseDbColType[]): CaseDbCol[];
+    static getDimLabel(completeCaseType: CaseDbCompleteCaseType, dimId: string): string;
+    static getDims(completeCaseType: CaseDbCompleteCaseType, dimTypes?: CaseDbDimType[]): CaseDbDim[];
+    static getInitialVisibleColIds(completeCaseType: CaseDbCompleteCaseType): string[];
+    static getPreferredColInDimHavingHighestRank(cols: CaseDbCol[], completeCaseType: CaseDbCompleteCaseType): CaseDbCol;
+    static getPreferredGEOCol(cols: CaseDbCol[]): CaseDbCol;
+    static getRegionSetIds(completeCaseType: CaseDbCompleteCaseType): string[];
+    static getWritableColIds(completeCaseType: CaseDbCompleteCaseType): string[];
+    static getWritableImportExportColIds(completeCaseType: CaseDbCompleteCaseType): string[];
+    static isGeneticDistanceDim(refDim: CaseDbRefDim, refCols: CaseDbRefCol[]): boolean;
+}

package/dist/utils/CaseTypeUtil/index.d.ts

@@ -0,0 +1 @@
+export * from './CaseTypeUtil';

package/dist/utils/CaseTypeUtil/index.js

@@ -0,0 +1,135 @@
+import { h as e, p as t } from "../../_chunks/_MapCache.js";
+import { n, t as r } from "../../_chunks/_cacheHas.js";
+import { n as i, t as a } from "../../_chunks/_arrayIncludesWith.js";
+import { t as o } from "../../_chunks/_Set.js";
+import { t as s } from "../../_chunks/noop.js";
+import { t as c } from "../../_chunks/_setToArray.js";
+import { CaseDbColType as l, CaseDbDimType as u } from "@gen-epix/api-casedb";
+import { StringUtil as d } from "@gen-epix/ui-core/utils/StringUtil";
+import { WindowService as f } from "@gen-epix/ui-core/classes/services/WindowService";
+//#region ../../node_modules/.pnpm/lodash@4.18.1/node_modules/lodash/_createSet.js
+var p = /* @__PURE__ */ t(((e, t) => {
+	var n = o(), r = s(), i = c();
+	t.exports = n && 1 / i(new n([, -0]))[1] == Infinity ? function(e) {
+		return new n(e);
+	} : r;
+})), m = /* @__PURE__ */ t(((e, t) => {
+	var o = n(), s = i(), l = a(), u = r(), d = p(), f = c(), m = 200;
+	function h(e, t, n) {
+		var r = -1, i = s, a = e.length, c = !0, p = [], h = p;
+		if (n) c = !1, i = l;
+		else if (a >= m) {
+			var g = t ? null : d(e);
+			if (g) return f(g);
+			c = !1, i = u, h = new o();
+		} else h = t ? [] : p;
+		outer: for (; ++r < a;) {
+			var _ = e[r], v = t ? t(_) : _;
+			if (_ = n || _ !== 0 ? _ : 0, c && v === v) {
+				for (var y = h.length; y--;) if (h[y] === v) continue outer;
+				t && h.push(v), p.push(_);
+			} else i(h, v, n) || (h !== p && h.push(v), p.push(_));
+		}
+		return p;
+	}
+	t.exports = h;
+})), h = /* @__PURE__ */ t(((e, t) => {
+	var n = m();
+	function r(e) {
+		return e && e.length ? n(e) : [];
+	}
+	t.exports = r;
+})), g = /* @__PURE__ */ e(h(), 1), _ = "selection", v = "tree", y = class e {
+	static createCaseTypeLink(e, t) {
+		let n = `/cases/${d.createSlug(e.name)}/${e.id}`;
+		return t ? `${f.getInstance().window.location.origin}${n}` : n;
+	}
+	static findPairedReadsCols(e) {
+		let t = [];
+		return e.ordered_dim_ids.forEach((n) => {
+			let r = e.ordered_col_ids_by_dim[n].map((t) => e.cols[t]);
+			if (!r) return;
+			let i = r.filter((t) => e.ref_cols[t.ref_col_id]?.col_type === l.GENETIC_READS);
+			i.length === 2 && t.push({
+				fwd: i[0],
+				rev: i[1]
+			});
+		}), t;
+	}
+	static findUniqueColByColIdRefOrColId(e, t) {
+		let n = Object.values(e.cols).find((e) => e.ref_col_id === t);
+		if (n) return n;
+		let r = Object.values(e.ref_cols).filter((e) => e.id === t);
+		if (r.length !== 1) return null;
+		let i = Object.values(e.cols).filter((e) => e.ref_col_id === r[0].id);
+		return i.length === 1 ? i[0] : null;
+	}
+	static getCols(e, t) {
+		return t ? e.ordered_col_ids_by_dim[t].map((t) => e.cols[t]) : Object.values(e.ordered_col_ids).map((t) => e.cols[t]);
+	}
+	static getColsByType(e, t) {
+		return Object.values(e.cols).filter((n) => {
+			let r = e.ref_cols[n.ref_col_id];
+			return t.includes(r?.col_type);
+		});
+	}
+	static getDimLabel(e, t) {
+		return e.dims[t].code;
+	}
+	static getDims(e, t) {
+		let n = Object.values(e.ordered_dim_ids).map((t) => e.dims[t]);
+		return t?.length ? n.filter((n) => {
+			let r = e.ref_dims[n.ref_dim_id];
+			return t.includes(r.dim_type);
+		}) : n;
+	}
+	static getInitialVisibleColIds(t) {
+		let n = [];
+		return t.ordered_dim_ids.map((e) => t.dims[e]).forEach((r) => {
+			let i = t.ref_dims[r.ref_dim_id], a = t.ordered_col_ids_by_dim[r.id].map((e) => t.cols[e]), o = a.map((e) => t.ref_cols[e.ref_col_id]);
+			i.dim_type === u.GEO ? n.push(e.getPreferredGEOCol(a).id) : i.dim_type === u.TIME || i.dim_type === u.NUMBER || e.isGeneticDistanceDim(i, o) ? n.push(e.getPreferredColInDimHavingHighestRank(a, t).id) : n.push(...a.filter((e) => {
+				let n = t.ref_cols[e.ref_col_id];
+				return ![l.GENETIC_READS, l.GENETIC_SEQUENCE].includes(n.col_type);
+			}).map((e) => e.id));
+		}), n;
+	}
+	static getPreferredColInDimHavingHighestRank(e, t) {
+		return e.find((e) => t.ref_cols[e.ref_col_id].rank === 1) ?? e?.[0];
+	}
+	static getPreferredGEOCol(e) {
+		return e[Math.min(e.length - 1, Math.floor((e.length - 1) / 2))];
+	}
+	static getRegionSetIds(t) {
+		let n = [];
+		return e.getCols(t).forEach((e) => {
+			let r = t.ref_cols[e.ref_col_id];
+			r.region_set_id && !n.includes(r.region_set_id) && n.push(r.region_set_id);
+		}), n;
+	}
+	static getWritableColIds(e) {
+		let t = [];
+		return Object.values(e.case_type_access_abacs).forEach((e) => {
+			t.push(...e.write_col_ids);
+		}), (0, g.default)(t);
+	}
+	static getWritableImportExportColIds(t) {
+		let n = e.getWritableColIds(t);
+		return Object.keys(t.cols).filter((e) => {
+			if (!n.includes(e)) return !1;
+			let r = t.cols[e], i = t.ref_cols[r.ref_col_id];
+			return ![
+				l.GENETIC_DISTANCE,
+				l.GENETIC_PROFILE,
+				l.GENETIC_READS,
+				l.GENETIC_SEQUENCE
+			].includes(i.col_type);
+		});
+	}
+	static isGeneticDistanceDim(e, t) {
+		return e.dim_type === u.OTHER && t.find((e) => e.col_type === l.GENETIC_DISTANCE) !== void 0;
+	}
+};
+//#endregion
+export { y as CaseTypeUtil, _ as SELECTION_FILTER_GROUP, v as TREE_FILTER_GROUP, m as n, h as t };
+
+//# sourceMappingURL=index.js.map

package/dist/utils/CaseTypeUtil/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","names":[],"sources":["../../../../../node_modules/.pnpm/lodash@4.18.1/node_modules/lodash/_createSet.js","../../../../../node_modules/.pnpm/lodash@4.18.1/node_modules/lodash/_baseUniq.js","../../../../../node_modules/.pnpm/lodash@4.18.1/node_modules/lodash/uniq.js","../../../src/utils/CaseTypeUtil/CaseTypeUtil.ts"],"sourcesContent":["var Set = require('./_Set'),\n    noop = require('./noop'),\n    setToArray = require('./_setToArray');\n\n/** Used as references for various `Number` constants. */\nvar INFINITY = 1 / 0;\n\n/**\n * Creates a set object of `values`.\n *\n * @private\n * @param {Array} values The values to add to the set.\n * @returns {Object} Returns the new set.\n */\nvar createSet = !(Set && (1 / setToArray(new Set([,-0]))[1]) == INFINITY) ? noop : function(values) {\n  return new Set(values);\n};\n\nmodule.exports = createSet;\n","var SetCache = require('./_SetCache'),\n    arrayIncludes = require('./_arrayIncludes'),\n    arrayIncludesWith = require('./_arrayIncludesWith'),\n    cacheHas = require('./_cacheHas'),\n    createSet = require('./_createSet'),\n    setToArray = require('./_setToArray');\n\n/** Used as the size to enable large array optimizations. */\nvar LARGE_ARRAY_SIZE = 200;\n\n/**\n * The base implementation of `_.uniqBy` without support for iteratee shorthands.\n *\n * @private\n * @param {Array} array The array to inspect.\n * @param {Function} [iteratee] The iteratee invoked per element.\n * @param {Function} [comparator] The comparator invoked per element.\n * @returns {Array} Returns the new duplicate free array.\n */\nfunction baseUniq(array, iteratee, comparator) {\n  var index = -1,\n      includes = arrayIncludes,\n      length = array.length,\n      isCommon = true,\n      result = [],\n      seen = result;\n\n  if (comparator) {\n    isCommon = false;\n    includes = arrayIncludesWith;\n  }\n  else if (length >= LARGE_ARRAY_SIZE) {\n    var set = iteratee ? null : createSet(array);\n    if (set) {\n      return setToArray(set);\n    }\n    isCommon = false;\n    includes = cacheHas;\n    seen = new SetCache;\n  }\n  else {\n    seen = iteratee ? [] : result;\n  }\n  outer:\n  while (++index < length) {\n    var value = array[index],\n        computed = iteratee ? iteratee(value) : value;\n\n    value = (comparator || value !== 0) ? value : 0;\n    if (isCommon && computed === computed) {\n      var seenIndex = seen.length;\n      while (seenIndex--) {\n        if (seen[seenIndex] === computed) {\n          continue outer;\n        }\n      }\n      if (iteratee) {\n        seen.push(computed);\n      }\n      result.push(value);\n    }\n    else if (!includes(seen, computed, comparator)) {\n      if (seen !== result) {\n        seen.push(computed);\n      }\n      result.push(value);\n    }\n  }\n  return result;\n}\n\nmodule.exports = baseUniq;\n","var baseUniq = require('./_baseUniq');\n\n/**\n * Creates a duplicate-free version of an array, using\n * [`SameValueZero`](http://ecma-international.org/ecma-262/7.0/#sec-samevaluezero)\n * for equality comparisons, in which only the first occurrence of each element\n * is kept. The order of result values is determined by the order they occur\n * in the array.\n *\n * @static\n * @memberOf _\n * @since 0.1.0\n * @category Array\n * @param {Array} array The array to inspect.\n * @returns {Array} Returns the new duplicate free array.\n * @example\n *\n * _.uniq([2, 1, 2]);\n * // => [2, 1]\n */\nfunction uniq(array) {\n  return (array && array.length) ? baseUniq(array) : [];\n}\n\nmodule.exports = uniq;\n","import uniq from 'lodash/uniq';\nimport type {\n  CaseDbCaseType,\n  CaseDbCol,\n  CaseDbCompleteCaseType,\n  CaseDbDim,\n  CaseDbRefCol,\n  CaseDbRefDim,\n} from '@gen-epix/api-casedb';\nimport {\n  CaseDbColType,\n  CaseDbDimType,\n} from '@gen-epix/api-casedb';\nimport { WindowService } from '@gen-epix/ui-core/classes/services/WindowService';\nimport { StringUtil } from '@gen-epix/ui-core/utils/StringUtil';\n\n\nexport const SELECTION_FILTER_GROUP = 'selection';\nexport const TREE_FILTER_GROUP = 'tree';\n\nexport class CaseTypeUtil {\n  public static createCaseTypeLink(caseType: CaseDbCaseType | CaseDbCompleteCaseType, full?: boolean): string {\n    const path = `/cases/${StringUtil.createSlug(caseType.name)}/${caseType.id}`;\n    if (full) {\n      return `${WindowService.getInstance().window.location.origin}${path}`;\n    }\n    return path;\n  }\n\n  /**\n   * Find paired FWD/REV columns in the same dimension.\n   * @param completeCaseType The complete case type object.\n   * @returns An array of paired FWD/REV columns.\n   */\n  public static findPairedReadsCols(completeCaseType: CaseDbCompleteCaseType): { fwd: CaseDbCol; rev: CaseDbCol }[] {\n    const pairs: { fwd: CaseDbCol; rev: CaseDbCol }[] = [];\n\n    completeCaseType.ordered_dim_ids.forEach(dimId => {\n      const cols = completeCaseType.ordered_col_ids_by_dim[dimId].map(x => completeCaseType.cols[x]);\n      if (!cols) {\n        return;\n      }\n      const readsColumns = cols.filter(col => {\n        const refCol = completeCaseType.ref_cols[col.ref_col_id];\n        return refCol?.col_type === CaseDbColType.GENETIC_READS;\n      });\n\n      if (readsColumns.length === 2) {\n        pairs.push({ fwd: readsColumns[0], rev: readsColumns[1] });\n      }\n\n    });\n\n    return pairs;\n  }\n\n  /**\n   * Find a unique column by its column ID or column ID.\n   * @param completeCaseType The complete case type object.\n   * @param id The ID of the column or column.\n   * @returns The unique column if found, otherwise null.\n   */\n  public static findUniqueColByColIdRefOrColId(completeCaseType: CaseDbCompleteCaseType, id: string): CaseDbCol {\n    const colId = Object.values(completeCaseType.cols).find(col => col.ref_col_id === id);\n    if (colId) {\n      return colId;\n    }\n    const colIds = Object.values(completeCaseType.ref_cols).filter(ref_col => ref_col.id === id);\n    if (colIds.length !== 1) {\n      return null;\n    }\n    const cols = Object.values(completeCaseType.cols).filter(col => col.ref_col_id === colIds[0].id);\n    if (cols.length !== 1) {\n      return null;\n    }\n    return cols[0];\n  }\n\n  public static getCols(completeCaseType: CaseDbCompleteCaseType, dimId?: string): CaseDbCol[] {\n    if (!dimId) {\n      return Object.values(completeCaseType.ordered_col_ids).map(id => completeCaseType.cols[id]);\n    }\n    return completeCaseType.ordered_col_ids_by_dim[dimId].map(id => completeCaseType.cols[id]);\n  }\n\n  /**\n   * Get columns by their column type.\n   * @param completeCaseType The complete case type object.\n   * @param colType The column type to filter by.\n   * @returns An array of columns matching the specified column type.\n   */\n  public static getColsByType(completeCaseType: CaseDbCompleteCaseType, colType: CaseDbColType[]): CaseDbCol[] {\n    return Object.values(completeCaseType.cols).filter(col => {\n      const refCol = completeCaseType.ref_cols[col.ref_col_id];\n      return colType.includes(refCol?.col_type);\n    });\n  }\n\n  public static getDimLabel(completeCaseType: CaseDbCompleteCaseType, dimId: string): string {\n    const dim = completeCaseType.dims[dimId];\n    return dim.code;\n  }\n\n  public static getDims(completeCaseType: CaseDbCompleteCaseType, dimTypes?: CaseDbDimType[]): CaseDbDim[] {\n    const dims = Object.values(completeCaseType.ordered_dim_ids).map(x => completeCaseType.dims[x]);\n    if (!dimTypes?.length) {\n      return dims;\n    }\n    return dims.filter(dim => {\n      const refDim = completeCaseType.ref_dims[dim.ref_dim_id];\n      return dimTypes.includes(refDim.dim_type);\n    });\n  }\n\n  public static getInitialVisibleColIds(completeCaseType: CaseDbCompleteCaseType): string[] {\n    const visibleColumnIds: string[] = [];\n\n    completeCaseType.ordered_dim_ids.map(x => completeCaseType.dims[x]).forEach((dim) => {\n      const refDims = completeCaseType.ref_dims[dim.ref_dim_id];\n\n      const cols = completeCaseType.ordered_col_ids_by_dim[dim.id].map(id => completeCaseType.cols[id]);\n      const refCols = cols.map(col => completeCaseType.ref_cols[col.ref_col_id]);\n\n      if (refDims.dim_type === CaseDbDimType.GEO) {\n        visibleColumnIds.push(CaseTypeUtil.getPreferredGEOCol(cols).id);\n      } else if (refDims.dim_type === CaseDbDimType.TIME || refDims.dim_type === CaseDbDimType.NUMBER || CaseTypeUtil.isGeneticDistanceDim(refDims, refCols)) {\n        visibleColumnIds.push(CaseTypeUtil.getPreferredColInDimHavingHighestRank(cols, completeCaseType).id);\n      } else {\n        visibleColumnIds.push(...cols.filter(cc => {\n          const refCol = completeCaseType.ref_cols[cc.ref_col_id];\n          const hiddenColTypes: CaseDbColType[] = [CaseDbColType.GENETIC_READS, CaseDbColType.GENETIC_SEQUENCE];\n          return !hiddenColTypes.includes(refCol.col_type);\n        }).map(c => c.id));\n      }\n    });\n\n    return visibleColumnIds;\n  }\n\n  public static getPreferredColInDimHavingHighestRank(cols: CaseDbCol[], completeCaseType: CaseDbCompleteCaseType): CaseDbCol {\n    return cols.find(col => completeCaseType.ref_cols[col.ref_col_id].rank === 1) ?? cols?.[0];\n  }\n\n  public static getPreferredGEOCol(cols: CaseDbCol[]): CaseDbCol {\n    return cols[Math.min(cols.length - 1, Math.floor((cols.length - 1) / 2))];\n  }\n\n\n  public static getRegionSetIds(completeCaseType: CaseDbCompleteCaseType): string[] {\n    const regionSetIds: string[] = [];\n    const cols = CaseTypeUtil.getCols(completeCaseType);\n    cols.forEach(col => {\n      const refCol = completeCaseType.ref_cols[col.ref_col_id];\n      if (refCol.region_set_id && !regionSetIds.includes(refCol.region_set_id)) {\n        regionSetIds.push(refCol.region_set_id);\n      }\n    });\n    return regionSetIds;\n  }\n\n\n  public static getWritableColIds(completeCaseType: CaseDbCompleteCaseType): string[] {\n    const writableColIds: string[] = [];\n    Object.values(completeCaseType.case_type_access_abacs).forEach((abac) => {\n      writableColIds.push(...abac.write_col_ids);\n    });\n    return uniq(writableColIds);\n  }\n\n\n  public static getWritableImportExportColIds(completeCaseType: CaseDbCompleteCaseType): string[] {\n    const writableColIds = CaseTypeUtil.getWritableColIds(completeCaseType);\n    return Object.keys(completeCaseType.cols).filter(colId => {\n      if (!writableColIds.includes(colId)) {\n        return false;\n      }\n      const col = completeCaseType.cols[colId];\n      const refCol = completeCaseType.ref_cols[col.ref_col_id];\n      if (([CaseDbColType.GENETIC_DISTANCE, CaseDbColType.GENETIC_PROFILE, CaseDbColType.GENETIC_READS, CaseDbColType.GENETIC_SEQUENCE] as CaseDbColType[]).includes(refCol.col_type)) {\n        return false;\n      }\n      return true;\n    });\n  }\n\n  public static isGeneticDistanceDim(refDim: CaseDbRefDim, refCols: CaseDbRefCol[]): boolean {\n    return refDim.dim_type === CaseDbDimType.OTHER && refCols.find(refCol => refCol.col_type === CaseDbColType.GENETIC_DISTANCE) !== undefined;\n  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