@rcsb/rcsb-saguaro-app 6.3.2 → 6.3.4

package/lib/RcsbRequest/RcsbRequestClient.d.ts

@@ -1,7 +0,0 @@
-import { GraphQLRequest } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/GraphQLRequest";
-import { SearchRequest } from "@rcsb/rcsb-api-tools/build/RcsbSearch/SearchRequest";
-export declare const rcsbRequestClient: {
-    borrego: GraphQLRequest;
-    yosemite: GraphQLRequest;
-    arches: SearchRequest;
-};

package/lib/RcsbRequest/RcsbRequestClient.js

@@ -1,7 +0,0 @@
-import { GraphQLRequest } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/GraphQLRequest";
-import { SearchRequest } from "@rcsb/rcsb-api-tools/build/RcsbSearch/SearchRequest";
-export const rcsbRequestClient = {
-    borrego: new GraphQLRequest("1d-coordinates"),
-    yosemite: new GraphQLRequest("data-api"),
-    arches: new SearchRequest()
-};

package/lib/RcsbRequest/RcsbRequestContextManager.d.ts

@@ -1,62 +0,0 @@
-import { PolymerEntityInstanceTranslate } from "../RcsbUtils/Translators/PolymerEntityInstanceTranslate";
-import { EntryAssemblyTranslate } from "../RcsbUtils/Translators/EntryAssemblyTranslate";
-import { GroupPropertiesProvider } from "../RcsbUtils/Groups/GroupPropertiesProvider";
-import { QueryResult } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchResultInterface";
-import { InterfaceInstanceTranslate } from "../RcsbUtils/Translators/InterfaceInstanceTranslate";
-import { PolymerEntityChromosomeTranslate } from "../RcsbUtils/Translators/PolymerEntityChromosomeTranslate";
-import { QueryPolymer_Entity_GroupArgs } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Yosemite/GqlTypes";
-import { EntryPropertyInterface } from "../RcsbCollectTools/DataCollectors/MultipleEntryPropertyCollector";
-import { FacetType } from "../RcsbSeacrh/FacetStore/FacetMemberInterface";
-import { ReturnType } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
-import { ResultsContentType, SearchQuery } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchQueryInterface";
-import { RequestConfig as GraphqlRequestInit } from "graphql-request/src/types";
-import { PolymerEntityInterface } from "../RcsbCollectTools/DataCollectors/MultiplePolymerEntityCollector";
-import { InstanceSequenceInterface } from "../RcsbCollectTools/DataCollectors/MultipleInstanceSequencesCollector";
-import { SearchQueryType } from "@rcsb/rcsb-search-tools/lib/SearchQueryTools/SearchQueryInterfaces";
-declare class RcsbRequestContextManager {
-    private readonly polymerEntityToInstanceMap;
-    private readonly entryToAssemblyMap;
-    private readonly groupPropertyMap;
-    private readonly searchRequestMap;
-    private readonly interfaceToInstanceMap;
-    private readonly assemblyInterfacesMap;
-    private readonly entryPropertyMap;
-    private readonly entityPropertyMap;
-    private readonly instanceSequenceMap;
-    private readonly instanceCollector;
-    private readonly assemblyCollector;
-    private readonly entityChrCollector;
-    private readonly groupMemberCollector;
-    private readonly multipleEntryPropertyCollector;
-    private readonly interfaceCollector;
-    private readonly assemblyInterfacesCollector;
-    private readonly multipleEntityCollector;
-    private readonly multipleInstanceSequenceCollector;
-    readonly modelKey: string;
-    getEntityProperties(entityIds: string | Array<string>): Promise<Array<PolymerEntityInterface>>;
-    getEntryProperties(entryIds: string | Array<string>): Promise<Array<EntryPropertyInterface>>;
-    getInstanceSequences(instanceIds: string | string[]): Promise<InstanceSequenceInterface[]>;
-    getEntityToInstance(entryId: string): Promise<PolymerEntityInstanceTranslate>;
-    getEntryToAssembly(entryId: string): Promise<EntryAssemblyTranslate>;
-    getEntityToChromosome(entityIds: Array<string>): Promise<PolymerEntityChromosomeTranslate>;
-    getGroupMemberProperties(groupQuery: QueryPolymer_Entity_GroupArgs): Promise<GroupPropertiesProvider>;
-    getSearchQuery(searchQuery: SearchQuery): Promise<QueryResult | null>;
-    getSearchQueryFacets(query: SearchQueryType, facets: FacetType[], returnType: ReturnType, resultsContentType: ResultsContentType): Promise<QueryResult | null>;
-    getInterfaceToInstance(interfaceId: string): Promise<InterfaceInstanceTranslate>;
-    private getAssemblyInterfaces;
-    initializeBorregoClient(config: {
-        api?: string;
-        requestConfig?: GraphqlRequestInit;
-    }): void;
-    initializeYosemiteClient(config: {
-        api?: string;
-        requestConfig?: GraphqlRequestInit;
-    }): void;
-    initializeArchesClient(config: {
-        uri?: string;
-        fetch?: (input: RequestInfo, requestConfig?: RequestInit) => Promise<Response>;
-        requestConfig?: RequestInit;
-    }): void;
-}
-export declare const rcsbRequestCtxManager: RcsbRequestContextManager;
-export {};

package/lib/RcsbRequest/RcsbRequestContextManager.js

@@ -1,153 +0,0 @@
-import { __awaiter } from "tslib";
-import { PolymerEntityInstanceTranslate } from "../RcsbUtils/Translators/PolymerEntityInstanceTranslate";
-import { EntryAssemblyTranslate } from "../RcsbUtils/Translators/EntryAssemblyTranslate";
-import { GroupPropertiesProvider } from "../RcsbUtils/Groups/GroupPropertiesProvider";
-import { InterfaceInstanceTranslate } from "../RcsbUtils/Translators/InterfaceInstanceTranslate";
-import { AssemblyInterfacesTranslate } from "../RcsbUtils/Translators/AssemblyInterfacesTranslate";
-import { PolymerEntityInstancesCollector } from "../RcsbCollectTools/DataCollectors/PolymerEntityInstancesCollector";
-import { EntryAssembliesCollector } from "../RcsbCollectTools/DataCollectors/EntryAssembliesCollector";
-import { PolymerEntityChromosomeTranslate } from "../RcsbUtils/Translators/PolymerEntityChromosomeTranslate";
-import { PolymerEntityChromosomeCollector } from "../RcsbCollectTools/DataCollectors/PolymerEntityChromosomeCollector";
-import { GroupMemberCollector } from "../RcsbCollectTools/DataCollectors/GroupMemberCollector";
-import { MultipleEntryPropertyCollector } from "../RcsbCollectTools/DataCollectors/MultipleEntryPropertyCollector";
-import { Operator } from "../RcsbUtils/Helpers/Operator";
-import { searchRequestProperty } from "../RcsbSeacrh/SearchRequestProperty";
-import { sha1 } from "object-hash";
-import { InterfaceInstanceCollector } from "../RcsbCollectTools/DataCollectors/InterfaceInstanceCollector";
-import { AssemblyInterfacesCollector } from "../RcsbCollectTools/DataCollectors/AssemblyInterfacesCollector";
-import { RcsbRequestTools as RRT } from "./RcsbRequestTools";
-import { rcsbRequestClient } from "./RcsbRequestClient";
-import { GraphQLRequest } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/GraphQLRequest";
-import { SearchRequest } from "@rcsb/rcsb-api-tools/build/RcsbSearch/SearchRequest";
-import { Assertions } from "../RcsbUtils/Helpers/Assertions";
-var assertDefined = Assertions.assertDefined;
-import { MultiplePolymerEntityCollector } from "../RcsbCollectTools/DataCollectors/MultiplePolymerEntityCollector";
-import { MultipleInstanceSequencesCollector } from "../RcsbCollectTools/DataCollectors/MultipleInstanceSequencesCollector";
-import { TagDelimiter } from "@rcsb/rcsb-api-tools/build/RcsbUtils/TagDelimiter";
-class RcsbRequestContextManager {
-    constructor() {
-        this.polymerEntityToInstanceMap = new Map();
-        this.entryToAssemblyMap = new Map();
-        this.groupPropertyMap = new Map();
-        this.searchRequestMap = new Map();
-        this.interfaceToInstanceMap = new Map();
-        this.assemblyInterfacesMap = new Map();
-        this.entryPropertyMap = new Map();
-        this.entityPropertyMap = new Map();
-        this.instanceSequenceMap = new Map();
-        this.instanceCollector = new PolymerEntityInstancesCollector();
-        this.assemblyCollector = new EntryAssembliesCollector();
-        this.entityChrCollector = new PolymerEntityChromosomeCollector();
-        this.groupMemberCollector = new GroupMemberCollector();
-        this.multipleEntryPropertyCollector = new MultipleEntryPropertyCollector();
-        this.interfaceCollector = new InterfaceInstanceCollector();
-        this.assemblyInterfacesCollector = new AssemblyInterfacesCollector();
-        this.multipleEntityCollector = new MultiplePolymerEntityCollector();
-        this.multipleInstanceSequenceCollector = new MultipleInstanceSequencesCollector();
-        this.modelKey = EntryAssembliesCollector.modelKey;
-    }
-    getEntityProperties(entityIds) {
-        return __awaiter(this, void 0, void 0, function* () {
-            return RRT.getMultipleObjectProperties(entityIds, this.entityPropertyMap, this.multipleEntityCollector, "entity_ids", (e) => (e.entryId + TagDelimiter.entity + e.entityId));
-        });
-    }
-    getEntryProperties(entryIds) {
-        return __awaiter(this, void 0, void 0, function* () {
-            return RRT.getMultipleObjectProperties(entryIds, this.entryPropertyMap, this.multipleEntryPropertyCollector, "entry_ids", (e) => (e.entryId));
-        });
-    }
-    getInstanceSequences(instanceIds) {
-        return __awaiter(this, void 0, void 0, function* () {
-            return RRT.getMultipleObjectProperties(instanceIds, this.instanceSequenceMap, this.multipleInstanceSequenceCollector, "instance_ids", (e) => (e.rcsbId));
-        });
-    }
-    getEntityToInstance(entryId) {
-        return __awaiter(this, void 0, void 0, function* () {
-            const key = entryId.toUpperCase();
-            return RRT.getSingleObjectData(key, this.polymerEntityToInstanceMap, () => __awaiter(this, void 0, void 0, function* () { return (new PolymerEntityInstanceTranslate(yield this.instanceCollector.collect({ entry_id: key }))); }));
-        });
-    }
-    getEntryToAssembly(entryId) {
-        return __awaiter(this, void 0, void 0, function* () {
-            return RRT.getSingleObjectData(entryId, this.entryToAssemblyMap, () => __awaiter(this, void 0, void 0, function* () {
-                const result = yield this.assemblyCollector.collect({ entry_id: entryId });
-                const eti = this.polymerEntityToInstanceMap.get(entryId);
-                const etit = result.get(this.modelKey);
-                assertDefined(eti), assertDefined(etit);
-                return new EntryAssemblyTranslate(result);
-            }));
-        });
-    }
-    getEntityToChromosome(entityIds) {
-        return __awaiter(this, void 0, void 0, function* () {
-            const chrMap = yield this.entityChrCollector.collect(entityIds);
-            return new PolymerEntityChromosomeTranslate(chrMap);
-        });
-    }
-    getGroupMemberProperties(groupQuery) {
-        return __awaiter(this, void 0, void 0, function* () {
-            const groupId = groupQuery.group_id.toUpperCase();
-            return RRT.getSingleObjectData(groupId, this.groupPropertyMap, () => __awaiter(this, void 0, void 0, function* () {
-                const result = yield this.groupMemberCollector.collect(groupQuery);
-                const entriesProperties = yield this.multipleEntryPropertyCollector.collect({ entry_ids: Operator.uniqueValues(result.map(r => r.entryId)) });
-                return new GroupPropertiesProvider({ entryProperties: entriesProperties });
-            }));
-        });
-    }
-    getSearchQuery(searchQuery) {
-        return __awaiter(this, void 0, void 0, function* () {
-            const key = sha1(searchQuery);
-            return RRT.getSingleObjectData(key, this.searchRequestMap, () => __awaiter(this, void 0, void 0, function* () { return (yield searchRequestProperty.request(searchQuery)); }));
-        });
-    }
-    getSearchQueryFacets(query, facets, returnType, resultsContentType) {
-        return __awaiter(this, void 0, void 0, function* () {
-            const key = sha1(query) + "." + sha1(facets);
-            return RRT.getSingleObjectData(key, this.searchRequestMap, () => __awaiter(this, void 0, void 0, function* () { return (yield searchRequestProperty.requestFacets(query, facets, returnType, resultsContentType)); }));
-        });
-    }
-    getInterfaceToInstance(interfaceId) {
-        return __awaiter(this, void 0, void 0, function* () {
-            var _a, _b;
-            const key = interfaceId;
-            const assemblyId = interfaceId.split(TagDelimiter.instance)[0];
-            if (this.interfaceToInstanceMap.get(key)) {
-                const d = this.interfaceToInstanceMap.get(key);
-                assertDefined(d);
-                return d;
-            }
-            else {
-                const assemblyInterfaces = yield this.getAssemblyInterfaces(assemblyId);
-                const interfaceIds = assemblyInterfaces.getInterfaces(assemblyId);
-                const result = interfaceIds ? yield this.interfaceCollector.collect({ interface_ids: interfaceIds }) : [];
-                const translator = new InterfaceInstanceTranslate(result);
-                if (((_a = assemblyInterfaces.getInterfaces(assemblyId)) === null || _a === void 0 ? void 0 : _a.length) == 0) {
-                    this.interfaceToInstanceMap.set(key, new Promise(resolve => resolve(translator)));
-                }
-                ((_b = assemblyInterfaces.getInterfaces(assemblyId)) !== null && _b !== void 0 ? _b : []).filter(id => !this.interfaceToInstanceMap.has(id)).forEach(id => {
-                    this.interfaceToInstanceMap.set(id, new Promise(resolve => resolve(translator)));
-                });
-                return translator;
-            }
-        });
-    }
-    getAssemblyInterfaces(assemblyId) {
-        return __awaiter(this, void 0, void 0, function* () {
-            return RRT.getSingleObjectData(assemblyId, this.assemblyInterfacesMap, () => __awaiter(this, void 0, void 0, function* () {
-                return (new AssemblyInterfacesTranslate(yield this.assemblyInterfacesCollector.collect({ assembly_ids: [assemblyId] })));
-            }));
-        });
-    }
-    initializeBorregoClient(config) {
-        var _a;
-        rcsbRequestClient.borrego = new GraphQLRequest((_a = config.api) !== null && _a !== void 0 ? _a : "1d-coordinates", config.requestConfig);
-    }
-    initializeYosemiteClient(config) {
-        var _a;
-        rcsbRequestClient.yosemite = new GraphQLRequest((_a = config.api) !== null && _a !== void 0 ? _a : "data-api", config.requestConfig);
-    }
-    initializeArchesClient(config) {
-        rcsbRequestClient.arches = new SearchRequest(config.uri, config.fetch, config.requestConfig);
-    }
-}
-export const rcsbRequestCtxManager = new RcsbRequestContextManager();

package/lib/RcsbRequest/RcsbRequestTools.d.ts

@@ -1,5 +0,0 @@
-import { MultipleDocumentPropertyCollectorInterface } from "../RcsbCollectTools/DataCollectors/DataCollectorInterface";
-export declare namespace RcsbRequestTools {
-    function getSingleObjectData<T>(id: string, map: Map<string, Promise<T>>, collector: () => Promise<T>): Promise<T>;
-    function getMultipleObjectProperties<K extends string, T>(ids: string | Array<string>, map: Map<string, Promise<T>>, collector: MultipleDocumentPropertyCollectorInterface<K, T>, collectorKey: K, propertyKey: (e: T) => string): Promise<Array<T>>;
-}

package/lib/RcsbRequest/RcsbRequestTools.js

@@ -1,36 +0,0 @@
-import { __awaiter } from "tslib";
-export var RcsbRequestTools;
-(function (RcsbRequestTools) {
-    function getSingleObjectData(id, map, collector) {
-        return __awaiter(this, void 0, void 0, function* () {
-            const promise = map.get(id);
-            if (promise)
-                return promise;
-            const t = collector();
-            map.set(id, t);
-            return t;
-        });
-    }
-    RcsbRequestTools.getSingleObjectData = getSingleObjectData;
-    function getMultipleObjectProperties(ids, map, collector, collectorKey, propertyKey) {
-        return __awaiter(this, void 0, void 0, function* () {
-            if (!Array.isArray(ids))
-                ids = [ids];
-            const missing = ids.filter(id => !map.has(id));
-            const collectorPromise = collector.collect({ [collectorKey]: missing });
-            missing.forEach(id => {
-                map.set(id, new Promise((resolve, reject) => {
-                    collectorPromise.then(t => {
-                        const d = t.find(t => propertyKey(t) == id);
-                        if (d)
-                            resolve(d);
-                        else
-                            reject(`${id} not available`);
-                    });
-                }));
-            });
-            return Promise.all(ids.map(i => map.get(i)).filter((x) => typeof x !== undefined));
-        });
-    }
-    RcsbRequestTools.getMultipleObjectProperties = getMultipleObjectProperties;
-})(RcsbRequestTools || (RcsbRequestTools = {}));

package/lib/RcsbSeacrh/FacetStore/DepositionGroupFacetStore.d.ts

@@ -1,16 +0,0 @@
-import { ReturnType, Service } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
-import { FacetMemberInterface } from "./FacetMemberInterface";
-import { FacetStoreInterface } from "./FacetStoreInterface";
-declare class DepositionGroupFacetStore implements FacetStoreInterface {
-    private readonly entryFacet;
-    private readonly instanceFacet;
-    private readonly entityFacet;
-    private readonly uniprotFacet;
-    private readonly nonPolymerFacet;
-    getServices(): (Service.Text | Service.TextChem)[];
-    getFacetService(service: Service | "all"): FacetMemberInterface[];
-    readonly facetLayoutGrid: string[];
-    readonly returnType: ReturnType;
-}
-export declare const depositionGroupFacetStore: DepositionGroupFacetStore;
-export {};

package/lib/RcsbSeacrh/FacetStore/DepositionGroupFacetStore.js

@@ -1,69 +0,0 @@
-import { ReturnType, Service } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
-import { RcsbSearchMetadata } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchMetadata";
-import { CHEM_COMP_FACET, ENTITY_NAME_FACET, EXPERIMENTAL_METHOD_FACET, LIGAND_FACET, ORGANISM_FACET, PFAM_FACET, RELEASE_DATE_FACET, RESOLUTION_FACET, SCOP_FACET, TAXONOMY_FACET, CATH_FACET, ECOD_FACET, ENZYME_CLASS_FACET, GO_FUNCTION_FACET, GO_PROCESS_FACET, GO_COMPONENT_FACET, LIGAND_OF_INTEREST_FACET, DISEASE_FACET, INTERPRO_FACET, PHENOTYPE_FACET } from "./SingleFacets";
-import { cloneDeep } from "lodash";
-class DepositionGroupFacetStore {
-    constructor() {
-        this.entryFacet = [
-            cloneDeep(EXPERIMENTAL_METHOD_FACET),
-            cloneDeep(RESOLUTION_FACET),
-            cloneDeep(RELEASE_DATE_FACET),
-            cloneDeep(ENZYME_CLASS_FACET)
-        ];
-        this.instanceFacet = [
-            cloneDeep(SCOP_FACET),
-            cloneDeep(CATH_FACET),
-            cloneDeep(ECOD_FACET),
-            cloneDeep(LIGAND_FACET),
-            cloneDeep(LIGAND_OF_INTEREST_FACET)
-        ];
-        this.entityFacet = [
-            cloneDeep(ORGANISM_FACET),
-            cloneDeep(TAXONOMY_FACET),
-            cloneDeep(PFAM_FACET),
-            cloneDeep(ENTITY_NAME_FACET),
-            cloneDeep(GO_FUNCTION_FACET),
-            cloneDeep(GO_PROCESS_FACET),
-            cloneDeep(GO_COMPONENT_FACET)
-        ];
-        this.uniprotFacet = [
-            cloneDeep(DISEASE_FACET),
-            cloneDeep(PHENOTYPE_FACET),
-            cloneDeep(INTERPRO_FACET)
-        ];
-        this.nonPolymerFacet = [
-            cloneDeep(CHEM_COMP_FACET)
-        ];
-        this.facetLayoutGrid = [
-            RcsbSearchMetadata.RcsbAccessionInfo.DepositDate.path,
-            RcsbSearchMetadata.RcsbEntryInfo.ResolutionCombined.path, RcsbSearchMetadata.Exptl.Method.path,
-            RcsbSearchMetadata.ChemComp.Type.path,
-            RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiScientificName.path, RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiParentScientificName.path,
-            RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path, RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path
-        ];
-        this.returnType = ReturnType.PolymerEntity;
-    }
-    getServices() {
-        return [Service.Text];
-    }
-    getFacetService(service) {
-        switch (service) {
-            case Service.Text:
-                return this.entryFacet
-                    .concat(this.instanceFacet)
-                    .concat(this.entityFacet)
-                    .concat(this.uniprotFacet);
-            case Service.TextChem:
-                return this.nonPolymerFacet;
-            case "all":
-                return this.entryFacet
-                    .concat(this.instanceFacet)
-                    .concat(this.entityFacet)
-                    .concat(this.nonPolymerFacet)
-                    .concat(this.uniprotFacet);
-            default:
-                return [];
-        }
-    }
-}
-export const depositionGroupFacetStore = new DepositionGroupFacetStore();

package/lib/RcsbSeacrh/FacetStore/EntityGranularitySearchFacetStore.d.ts

@@ -1,15 +0,0 @@
-import { ReturnType, Service } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
-import { FacetMemberInterface } from "./FacetMemberInterface";
-import { FacetStoreInterface } from "./FacetStoreInterface";
-declare class EntityGranularitySearchFacetStore implements FacetStoreInterface {
-    private readonly entryFacet;
-    private readonly instanceFacet;
-    private readonly entityFacet;
-    private readonly nonPolymerFacet;
-    getServices(): (Service.Text | Service.TextChem)[];
-    getFacetService(service: Service | "all"): FacetMemberInterface[];
-    readonly facetLayoutGrid: string[];
-    readonly returnType: ReturnType;
-}
-export declare const entityGranularityGroupFacetStore: EntityGranularitySearchFacetStore;
-export {};

package/lib/RcsbSeacrh/FacetStore/EntityGranularitySearchFacetStore.js

@@ -1,34 +0,0 @@
-import { ReturnType, Service } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
-import { RcsbSearchMetadata } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchMetadata";
-import { CATH_FACET, CHEM_COMP_FACET, RELEASE_DATE_FACET, ECOD_FACET, ENTITY_NAME_FACET, EXPERIMENTAL_METHOD_FACET, LIGAND_FACET, ORGANISM_FACET, PFAM_FACET, RESOLUTION_FACET, SCOP_FACET, TAXONOMY_FACET } from "./SingleFacets";
-import { cloneDeep } from "lodash";
-class EntityGranularitySearchFacetStore {
-    constructor() {
-        this.entryFacet = [cloneDeep(EXPERIMENTAL_METHOD_FACET), cloneDeep(RESOLUTION_FACET), cloneDeep(RELEASE_DATE_FACET)];
-        this.instanceFacet = [cloneDeep(SCOP_FACET), cloneDeep(CATH_FACET), cloneDeep(ECOD_FACET), cloneDeep(LIGAND_FACET)];
-        this.entityFacet = [cloneDeep(ORGANISM_FACET), cloneDeep(TAXONOMY_FACET), cloneDeep(PFAM_FACET), cloneDeep(ENTITY_NAME_FACET)];
-        this.nonPolymerFacet = [cloneDeep(CHEM_COMP_FACET)];
-        this.facetLayoutGrid = [
-            RcsbSearchMetadata.RcsbEntryInfo.DiffrnResolutionHigh.Value.path,
-            RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiScientificName.path, RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiParentScientificName.path,
-            RcsbSearchMetadata.Exptl.Method.path, RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path
-        ];
-        this.returnType = ReturnType.PolymerEntity;
-    }
-    getServices() {
-        return [Service.Text, Service.TextChem];
-    }
-    getFacetService(service) {
-        switch (service) {
-            case Service.Text:
-                return this.entryFacet.concat(this.instanceFacet).concat(this.entityFacet);
-            case Service.TextChem:
-                return this.nonPolymerFacet;
-            case "all":
-                return this.entryFacet.concat(this.instanceFacet).concat(this.entityFacet).concat(this.nonPolymerFacet);
-            default:
-                return [];
-        }
-    }
-}
-export const entityGranularityGroupFacetStore = new EntityGranularitySearchFacetStore();

package/lib/RcsbSeacrh/FacetStore/FacetMemberInterface.d.ts

@@ -1,23 +0,0 @@
-import { ChartConfigInterface, ChartType } from "@rcsb/rcsb-charts/lib/RcsbChartComponent/ChartConfigInterface";
-import { AttributeFacetType, BucketDataType, FilterFacetType } from "@rcsb/rcsb-search-tools/lib/SearchParseTools/SearchFacetInterface";
-import { RcsbSearchAttributeType } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchMetadata";
-import { SearchQueryType } from "@rcsb/rcsb-search-tools/lib/SearchQueryTools/SearchQueryInterfaces";
-import { ChartDataColumnInterface, ChartDataValueInterface } from "@rcsb/rcsb-charts/lib/RcsbChartDataProvider/ChartDataProviderInterface";
-import React from "react";
-export type FacetType = AttributeFacetType | FilterFacetType;
-export interface FacetMemberInterface {
-    id: string;
-    title?: string;
-    attributeName: string;
-    attribute: RcsbSearchAttributeType;
-    chartType: ChartType;
-    chartConfig?: ChartConfigInterface;
-    facetConfig?: FacetConfigInterface;
-    facet: FacetType;
-    contentType: "date" | "number" | "string";
-}
-export interface FacetConfigInterface {
-    mergeDomainMaxValue?: number;
-    facetTransform?: (d: BucketDataType[]) => BucketDataType[];
-    bucketClickSearchQuery?: (datum: ChartDataValueInterface, data: ChartDataColumnInterface[], e?: React.MouseEvent) => SearchQueryType;
-}

package/lib/RcsbSeacrh/FacetStore/FacetMemberInterface.js

@@ -1 +0,0 @@
-export {};

package/lib/RcsbSeacrh/FacetStore/FacetStoreInterface.d.ts

@@ -1,8 +0,0 @@
-import { FacetMemberInterface } from "./FacetMemberInterface";
-import { ReturnType, Service } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
-export interface FacetStoreInterface {
-    getServices(): (Service.Text | Service.TextChem)[];
-    getFacetService(service: Service | "all"): FacetMemberInterface[];
-    readonly facetLayoutGrid: string[];
-    readonly returnType: ReturnType;
-}

package/lib/RcsbSeacrh/FacetStore/FacetStoreInterface.js

@@ -1 +0,0 @@
-export {};

package/lib/RcsbSeacrh/FacetStore/SequenceGroupFacetStore.d.ts

@@ -1,16 +0,0 @@
-import { ReturnType, Service } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
-import { FacetMemberInterface } from "./FacetMemberInterface";
-import { FacetStoreInterface } from "./FacetStoreInterface";
-declare class SequenceGroupFacetStore implements FacetStoreInterface {
-    private readonly entryFacet;
-    private readonly instanceFacet;
-    private readonly entityFacet;
-    private readonly uniprotFacet;
-    private readonly nonPolymerFacet;
-    getServices(): (Service.Text | Service.TextChem)[];
-    getFacetService(service: Service | "all"): FacetMemberInterface[];
-    readonly facetLayoutGrid: string[];
-    readonly returnType: ReturnType;
-}
-export declare const sequenceGroupFacetStore: SequenceGroupFacetStore;
-export {};

package/lib/RcsbSeacrh/FacetStore/SequenceGroupFacetStore.js

@@ -1,70 +0,0 @@
-import { ReturnType, Service } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchEnums";
-import { RcsbSearchMetadata } from "@rcsb/rcsb-api-tools/build/RcsbSearch/Types/SearchMetadata";
-import { CHEM_COMP_FACET, ENTITY_NAME_FACET, EXPERIMENTAL_METHOD_FACET, LIGAND_FACET, ORGANISM_FACET, PFAM_FACET, RELEASE_DATE_FACET, RESOLUTION_FACET, SCOP_FACET, TAXONOMY_FACET, CATH_FACET, ECOD_FACET, ENZYME_CLASS_FACET, GO_FUNCTION_FACET, GO_PROCESS_FACET, GO_COMPONENT_FACET, METHODOLOGY_FACET, TAXONOMY_COUNT_FACET, DISEASE_FACET, INTERPRO_FACET, PHENOTYPE_FACET } from "./SingleFacets";
-import { cloneDeep } from "lodash";
-class SequenceGroupFacetStore {
-    constructor() {
-        this.entryFacet = [
-            cloneDeep(EXPERIMENTAL_METHOD_FACET),
-            cloneDeep(RESOLUTION_FACET),
-            cloneDeep(METHODOLOGY_FACET),
-            cloneDeep(RELEASE_DATE_FACET),
-            cloneDeep(ENZYME_CLASS_FACET)
-        ];
-        this.instanceFacet = [
-            cloneDeep(SCOP_FACET),
-            cloneDeep(CATH_FACET),
-            cloneDeep(ECOD_FACET),
-            cloneDeep(LIGAND_FACET)
-        ];
-        this.entityFacet = [
-            cloneDeep(ORGANISM_FACET),
-            cloneDeep(TAXONOMY_FACET),
-            cloneDeep(PFAM_FACET),
-            cloneDeep(ENTITY_NAME_FACET),
-            cloneDeep(GO_FUNCTION_FACET),
-            cloneDeep(GO_PROCESS_FACET),
-            cloneDeep(GO_COMPONENT_FACET),
-            cloneDeep(TAXONOMY_COUNT_FACET)
-        ];
-        this.uniprotFacet = [
-            cloneDeep(DISEASE_FACET),
-            cloneDeep(PHENOTYPE_FACET),
-            cloneDeep(INTERPRO_FACET)
-        ];
-        this.nonPolymerFacet = [
-            cloneDeep(CHEM_COMP_FACET)
-        ];
-        this.facetLayoutGrid = [
-            RcsbSearchMetadata.RcsbAccessionInfo.DepositDate.path,
-            RcsbSearchMetadata.RcsbEntryInfo.ResolutionCombined.path, RcsbSearchMetadata.Exptl.Method.path, RcsbSearchMetadata.RcsbEntryInfo.StructureDeterminationMethodology.path,
-            RcsbSearchMetadata.ChemComp.Type.path,
-            RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiScientificName.path, RcsbSearchMetadata.RcsbEntitySourceOrganism.NcbiParentScientificName.path,
-            RcsbSearchMetadata.RcsbPolymerEntityAnnotation.Name.path, RcsbSearchMetadata.RcsbPolymerInstanceAnnotation.AnnotationLineage.Name.path
-        ];
-        this.returnType = ReturnType.PolymerEntity;
-    }
-    getServices() {
-        return [Service.Text];
-    }
-    getFacetService(service) {
-        switch (service) {
-            case Service.Text:
-                return this.entryFacet
-                    .concat(this.instanceFacet)
-                    .concat(this.entityFacet)
-                    .concat(this.uniprotFacet);
-            case Service.TextChem:
-                return this.nonPolymerFacet;
-            case "all":
-                return this.entryFacet
-                    .concat(this.instanceFacet)
-                    .concat(this.entityFacet)
-                    .concat(this.nonPolymerFacet)
-                    .concat(this.uniprotFacet);
-            default:
-                return [];
-        }
-    }
-}
-export const sequenceGroupFacetStore = new SequenceGroupFacetStore();

package/lib/RcsbSeacrh/FacetStore/SingleFacets.d.ts

@@ -1,49 +0,0 @@
-import { FacetMemberInterface } from "./FacetMemberInterface";
-export declare const EXPERIMENTAL_METHOD_FACET: FacetMemberInterface;
-export declare const RESOLUTION_FACET: FacetMemberInterface;
-export declare const METHODOLOGY_FACET: FacetMemberInterface;
-export declare const TAXONOMY_COUNT_FACET: FacetMemberInterface;
-export declare const CHIMERIC_FACET: FacetMemberInterface;
-export declare const RELEASE_DATE_FACET: FacetMemberInterface;
-export declare const SCOP_FACET: FacetMemberInterface;
-export declare const CATH_FACET: FacetMemberInterface;
-export declare const ECOD_FACET: FacetMemberInterface;
-export declare const LIGAND_FACET: FacetMemberInterface;
-export declare const LIGAND_OF_INTEREST_FACET: FacetMemberInterface;
-export declare const ORGANISM_FACET: FacetMemberInterface;
-export declare const TAXONOMY_FACET: FacetMemberInterface;
-export declare const PFAM_FACET: FacetMemberInterface;
-export declare const ENTITY_NAME_FACET: FacetMemberInterface;
-export declare const CHEM_COMP_FACET: FacetMemberInterface;
-export declare const ENZYME_CLASS_FACET: FacetMemberInterface;
-export declare const GO_FUNCTION_FACET: FacetMemberInterface;
-export declare const GO_PROCESS_FACET: FacetMemberInterface;
-export declare const GO_COMPONENT_FACET: FacetMemberInterface;
-export declare const DISEASE_FACET: FacetMemberInterface;
-export declare const INTERPRO_FACET: FacetMemberInterface;
-export declare const PHENOTYPE_FACET: FacetMemberInterface;
-export declare const SearchFacets: {
-    EXPERIMENTAL_METHOD_FACET: FacetMemberInterface;
-    RESOLUTION_FACET: FacetMemberInterface;
-    RELEASE_DATE_FACET: FacetMemberInterface;
-    SCOP_FACET: FacetMemberInterface;
-    LIGAND_FACET: FacetMemberInterface;
-    ORGANISM_FACET: FacetMemberInterface;
-    TAXONOMY_FACET: FacetMemberInterface;
-    PFAM_FACET: FacetMemberInterface;
-    ENTITY_NAME_FACET: FacetMemberInterface;
-    CHEM_COMP_FACET: FacetMemberInterface;
-    ECOD_FACET: FacetMemberInterface;
-    CATH_FACET: FacetMemberInterface;
-    ENZYME_CLASS_FACET: FacetMemberInterface;
-    GO_FUNCTION_FACET: FacetMemberInterface;
-    GO_PROCESS_FACET: FacetMemberInterface;
-    GO_COMPONENT_FACET: FacetMemberInterface;
-    LIGAND_OF_INTEREST_FACET: FacetMemberInterface;
-    METHODOLOGY_FACET: FacetMemberInterface;
-    TAXONOMY_COUNT_FACET: FacetMemberInterface;
-    CHIMERIC_FACET: FacetMemberInterface;
-    DISEASE_FACET: FacetMemberInterface;
-    INTERPRO_FACET: FacetMemberInterface;
-    PHENOTYPE_FACET: FacetMemberInterface;
-};