684 lines
24 KiB
TypeScript
684 lines
24 KiB
TypeScript
import {HostedByCollectedFrom, Journal, Project, RelationResult} from "../../utils/result-preview/result-preview";
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import {Reference} from "../../utils/entities/resultLandingInfo";
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export class ParsingFunctions {
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public open = 'assets/common-assets/unlock.svg';
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public closed = 'assets/common-assets/lock.svg';
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public unknown = 'assets/common-assets/question.svg';
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constructor() {
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}
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public ngOnDestroy() {
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}
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public parseFundingByProjects(fundedByProjects: Project[], relation: any,
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provenanceActionVocabulary: any): Project[] {
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if (fundedByProjects == undefined) {
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fundedByProjects = [];
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}
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let fundedByProject: Project = {
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"id": "", "acronym": "", "title": "",
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"funderShortname": "", "funderName": "",
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"funding": "", "code": "", "provenanceAction": "", "inline": false
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};
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if (relation.title != 'unidentified') {
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fundedByProject['id'] = relation['to'].content;
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fundedByProject['acronym'] = relation.acronym;
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fundedByProject['title'] = relation.title;
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fundedByProject['code'] = relation.code;
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if (provenanceActionVocabulary != null && relation.provenanceaction in provenanceActionVocabulary) {
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fundedByProject['provenanceAction'] = provenanceActionVocabulary[relation.provenanceaction];
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}
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} else {
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fundedByProject['id'] = "";
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fundedByProject['acronym'] = "";
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fundedByProject['title'] = "";
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fundedByProject['code'] = "";
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fundedByProject['provenanceAction'] = "";
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}
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if (relation.hasOwnProperty("funding")) {
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let funding: { "funderName": string, "funderShortname": string, "stream": string };
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funding = this.parseFundingTrees(relation.funding);
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if (funding.funderName) {
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fundedByProject['funderName'] = funding.funderName;
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}
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if (funding.funderShortname) {
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fundedByProject['funderShortname'] = funding.funderShortname;
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}
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if (funding.stream) {
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fundedByProject['funding'] = funding.stream;
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}
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}
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fundedByProjects.push(fundedByProject);
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return fundedByProjects;
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}
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// publication & research data : for fundedByProjects | project landing : for funding
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public parseFundingTrees(fundingTree: any): { "funderName": string, "funderShortname": string, "stream": string } {
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let funding: { "funderName": string, "funderShortname": string, "stream": string } = {
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"funderName": "",
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"funderShortname": "",
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"stream": ""
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};
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let length = Array.isArray(fundingTree) ? fundingTree.length : 1;
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for (let i = 0; i < length; i++) {
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let fundingData = Array.isArray(fundingTree) ? fundingTree[i] : fundingTree;
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if (fundingData.hasOwnProperty("funder")) {
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funding.funderShortname = fundingData['funder'].shortname;
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funding.funderName = fundingData['funder'].name;
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}
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funding.stream = this.addFundingLevel0(fundingData, funding.stream);
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funding.stream = this.addFundingLevel1(fundingData, funding.stream);
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funding.stream = this.addFundingLevel2(fundingData, funding.stream);
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}
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return funding;
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}
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addFundingLevel0(parent: string, fundingStream: string): string {
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if (parent.hasOwnProperty("funding_level_0")) {
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let level0 = parent['funding_level_0'];
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fundingStream += (fundingStream) ? " ; " : "";
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fundingStream += level0.name;
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}
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return fundingStream;
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}
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addFundingLevel1(parent: string, fundingStream: string): string {
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if (parent.hasOwnProperty("funding_level_1")) {
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let level1 = parent['funding_level_1'];
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// For projects' parsing
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if (level1.hasOwnProperty("parent")) {
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fundingStream = this.addFundingLevel0(level1.parent, fundingStream);
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}
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fundingStream += (fundingStream) ? " | " : "";
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fundingStream += level1.name;
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}
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return fundingStream;
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}
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addFundingLevel2(parent: string, fundingStream: string): string {
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if (parent.hasOwnProperty("funding_level_2")) {
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let level2 = parent['funding_level_2'];
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// For projects' parsing
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if (level2.hasOwnProperty("parent")) {
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fundingStream = this.addFundingLevel1(level2.parent, fundingStream);
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}
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fundingStream += (fundingStream) ? " | " : "";
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fundingStream += level2.name;
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}
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return fundingStream;
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}
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// publication & dataset landing : for collectedFrom
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parseCollectedFrom(collectedFrom: { "name": string, "id": string }[],
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_collectedFrom: any) {
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let length: number = collectedFrom.length;
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collectedFrom[length] = {"name": "", "id": ""};
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collectedFrom[length]['name'] = _collectedFrom.name;
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collectedFrom[length]['id'] = _collectedFrom.id;
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}
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// publication & dataset landing : for downloadFrom
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addPublisherToHostedBy_collectedFrom(hostedBy_collectedFrom: HostedByCollectedFrom[],
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publisher: string, journal: Journal,
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identifiers: Map<string, string[]>/*, title: { "name": string, "url": string, "accessMode": string}*/) {
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if (publisher && identifiers != null && identifiers.has('doi')) {
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if (hostedBy_collectedFrom == null) {
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hostedBy_collectedFrom = [];
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}
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let available: HostedByCollectedFrom = {
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downloadName: "",
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downloadUrl: null,
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collectedName: "",
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collectedId: "",
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accessMode: null,
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bestAccessMode: null,
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type: "",
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year: "",
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icon: ""
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};
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if (journal && journal.journal) {
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available.downloadName = publisher + "/ " + journal['journal'];
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} else {
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available.downloadName = publisher;
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}
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let url = "https://dx.doi.org/" + identifiers.get("doi")[0];
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available.downloadUrl = new Array<string>();
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available.accessMode = new Array<string>();
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available.downloadUrl.push(url);
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available.icon = this.unknown;
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/*
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if(title != undefined && title['url'] == "") {
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title['url'] = url;
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}
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*/
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hostedBy_collectedFrom.push(available);
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}
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return hostedBy_collectedFrom;
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}
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// publication & dataset landing : for downloadFrom
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parseDownloadFrom(downloadFrom: Map<string, { "url": string[], "accessMode": string[], "bestAccessMode": string }>, instance: any, url: string) {
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let key: string = instance['hostedby'].name;
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if (key) {
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this.addUrlAndAccessMode(downloadFrom, instance, key, url);
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}
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}
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// publication & dataset landing : for publishedIn
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parsePublishedIn(publishedIn: Map<string, { "url": string[], "accessMode": string[], "bestAccessMode": string }>, instance: any, result: any, url: string, counter: number): number {
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if (result != null && result.hasOwnProperty("source")) {
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let key: string;
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if (Array.isArray(result.source)) {
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if (counter == result.source.length) {
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counter--;
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}
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key = result['source'][counter];
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} else {
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key = result['source'];
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}
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if (key) {
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this.addUrlAndAccessMode(publishedIn, instance, key, url);
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counter++;
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}
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}
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return counter;
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}
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// publication & dataset landing : for downloadFrom and publishedIn
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addUrlAndAccessMode(mapStructure: Map<string, { "url": string[], "accessMode": string[], "bestAccessMode": string }>, instance: any, key: string, url: string) {
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if (!mapStructure.has(key)) {
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mapStructure.set(key, {"url": null, "accessMode": null, "bestAccessMode": null});
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}
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if (mapStructure.get(key)['url'] == null) {
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mapStructure.get(key)['url'] = new Array<string>();
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}
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if (url) {
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mapStructure.get(key)['url'].push(url);
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}
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if (mapStructure.get(key)['accessMode'] == null) {
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mapStructure.get(key)['accessMode'] = new Array<string>();
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}
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if (instance.hasOwnProperty("accessright")) {
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if (url) {
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mapStructure.get(key)['accessMode'].push(instance['accessright'].classname);
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}
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if (this.changeBestAccessMode(mapStructure.get(key)['bestAccessMode'], instance['accessright'])) {
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mapStructure.get(key)['bestAccessMode'] = instance['accessright'].classname;
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}
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} else if (url) {
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mapStructure.get(key)['accessMode'].push("");
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}
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}
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parseHostedBy_collectedFrom(hostedBy_collectedFrom: HostedByCollectedFrom[],
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instance: any, data: any, url: string, counter: number/*,
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title: { "name": string, "url": string, "accessMode": string}*/, accessMode: string): number {
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let available: HostedByCollectedFrom = {
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"downloadName": "",
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"downloadUrl": null,
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"collectedName": "",
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"collectedId": "",
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"accessMode": null,
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"bestAccessMode": null,
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"type": "",
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"year": "",
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"icon": ""
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};
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if (instance['hostedby'].name && instance['hostedby'].name != "other resources" && instance['hostedby'].name != "Unknown Repository") {
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available.downloadName = instance['hostedby'].name;
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} else {
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// if (data != null && data.hasOwnProperty("source")) {
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// let downloadName: string;
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// if (Array.isArray(data.source)) {
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//
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// if (counter == data.source.length) {
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// counter--;
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// }
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// downloadName = data['source'][counter];
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// } else {
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// downloadName = data['source'];
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// }
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// if (downloadName) {
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// counter++;
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// available.downloadName = downloadName;
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// }
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// }
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//
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// }
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//
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// if(!available.downloadName) {
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available.downloadName = url.substring(0, 30) + '...'; // substring(from, to);
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}
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if (available.downloadName) {
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if (instance.hasOwnProperty("collectedfrom")) {
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available.collectedId = instance['collectedfrom'].id;
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available.collectedName = instance['collectedfrom'].name;
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}
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if (instance.hasOwnProperty("instancetype") && instance['instancetype'].classname) {
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available.type = instance['instancetype'].classname;
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}
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if (instance.hasOwnProperty("dateofacceptance")) {
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var date: string = (instance.dateofacceptance) + ""; // transform to string in case it is an integer
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available.year = (date && (date).indexOf('-') !== -1) ? date.split('-')[0] : date;
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}
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available.accessMode = new Array<string>();
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available.downloadUrl = new Array<string>();
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available['downloadUrl'].push(url);
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if (instance.hasOwnProperty("accessright")) {
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if (url) {
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available['accessMode'].push(instance['accessright'].classname);
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}
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if (this.changeBestAccessMode(available.bestAccessMode, instance['accessright'])) {
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available.bestAccessMode = instance['accessright'].classname;
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/*
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if(title != undefined) {
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if(this.changeBestAccessMode(title['accessMode'], instance['accessright'])) {
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title['accessMode'] = instance['accessright'].classid;
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title['url'] = url;
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}
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}
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*/
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if (this.changeBestAccessMode(accessMode, instance['accessright'])) {
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accessMode = instance['accessright'].classname;
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}
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}
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/*
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if(title != undefined) {
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if(!title['url']) {
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title['url'] = url;
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}
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}
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*/
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} else if (url) {
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available['accessMode'].push("");
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}
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if (available.bestAccessMode) {
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if (available.bestAccessMode.toLowerCase().indexOf('open') !== -1) {
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available.icon = this.open;
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} else if (available.bestAccessMode.toLowerCase().indexOf('not available') !== -1) {
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available.icon = this.unknown;
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} else {
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available.icon = this.closed;
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}
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} else {
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available.icon = this.unknown;
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}
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hostedBy_collectedFrom.push(available);
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}
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return counter;
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}
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// publication & dataset landing : for downloadFrom and publishedIn
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changeBestAccessMode(currentAccessMode: string, accessMode: any): boolean {
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if (!accessMode) {
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return false;
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}
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accessMode = accessMode.classid;
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switch (currentAccessMode) {
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case null:
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if (accessMode != "UNKNOWN") {
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return true;
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}
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return false;
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case "CLOSED":
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if (accessMode == "OPEN" ||
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accessMode == "OPEN SOURCE" ||
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accessMode == "EMBARGO" ||
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accessMode == "RESTRICTED") {
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return true;
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}
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return false;
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case "RESTRICTED":
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if (accessMode == "OPEN" ||
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accessMode == "OPEN SOURCE" ||
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accessMode == "EMBARGO") {
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return true;
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}
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return false;
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case "EMBARGO":
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if (accessMode == "OPEN" ||
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accessMode == "OPEN SOURCE") {
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return true;
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}
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return false;
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case "OPEN SOURCE":
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if (accessMode == "OPEN") {
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return true;
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}
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return false;
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}
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return false;
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}
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// publication & dataset & software & orp landing : for relatedResearchResults
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parseRelatedResearchResults(relatedResearchResults: RelationResult[], relation: any, provenanceAction: string):
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RelationResult[] {
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if (relatedResearchResults == undefined) {
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relatedResearchResults = []
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}
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relatedResearchResults.push(this.parseRelatedOrSimilarResearchResult(relation, "trust", provenanceAction));
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return relatedResearchResults;
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}
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// publication & dataset & software & orp landing : for supplementaryResearchResults
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parseSupplementaryResearchResults(supplementaryResearchResults: RelationResult[], relation: any): RelationResult[] {
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if (supplementaryResearchResults == undefined) {
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supplementaryResearchResults = [];
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}
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supplementaryResearchResults.push(this.parseRelatedOrSimilarResearchResult(relation, "trust"));
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return supplementaryResearchResults;
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}
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// publication & dataset & software & orp landing : for supplementedByResearchResults
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parseSupplementedByResearchResults(supplementedByResearchResults: RelationResult[], relation: any): RelationResult[] {
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if (supplementedByResearchResults == undefined) {
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supplementedByResearchResults = [];
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}
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supplementedByResearchResults.push(this.parseRelatedOrSimilarResearchResult(relation, "trust"));
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return supplementedByResearchResults;
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}
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// publication & dataset & software & orp landing : for similarResearchResults
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parseSimilarResearchResults(similarResearchResults: RelationResult[], relation: any): RelationResult[] {
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if (similarResearchResults == undefined) {
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similarResearchResults = [];
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}
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similarResearchResults.push(this.parseRelatedOrSimilarResearchResult(relation, "similarity"));
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return similarResearchResults;
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}
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// publication & dataset & software & orp landing : for relatedResearchResults and similarResearchResults
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parseRelatedOrSimilarResearchResult(relation: any, percentageName: string, provenanceAction: string = null): RelationResult {
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let researchResult: RelationResult = {
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name: "",
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id: "",
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date: "",
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percentage: null,
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class: "",
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provenanceAction: provenanceAction
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};
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if(relation['resulttype']) {
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if (relation['resulttype'].classname == "publication") {
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researchResult['class'] = "publication";
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} else if (relation['resulttype'].classname == "dataset") {
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researchResult['class'] = "dataset";
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} else if (relation['resulttype'].classname == "software") {
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researchResult['class'] = "software";
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} else if (relation['resulttype'].classname == "other") {
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researchResult['class'] = "other";
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}
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}
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researchResult['id'] = relation['to'].content;
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let titleName = Array.isArray(relation['title']) ? relation['title'][0].content : (relation['title']?relation['title'].content:null);
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researchResult['name'] = titleName;
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if(!researchResult['name']) {
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researchResult['name'] = "[no title available]";
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}
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if (relation.hasOwnProperty("dateofacceptance")) {
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var date: string = ((Array.isArray(relation.dateofacceptance)) ? (relation.dateofacceptance[0]) : (relation.dateofacceptance)) + ""; // transform to string in case it is an integer
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researchResult['date'] = (date && (date).indexOf('-') !== -1) ? date.split('-')[0] : date;
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}
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//researchResult['date'] = relation.dateofacceptance.substring(0,4);;
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researchResult['percentage'] = Math.round(relation[percentageName] * 100);
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return researchResult;
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}
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sortByPercentage(results: RelationResult[]): RelationResult[] {
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if (results) {
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return results.sort(function (a, b) {
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return b["percentage"] - a["percentage"]
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});
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}
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return results;
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}
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// publication & dataset landing : for identifiers
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parseIdentifiers(pid: any): Map<string, string[]> {
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let identifiers = new Map<string, string[]>();
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if (pid.hasOwnProperty("classid") && pid['classid'] != "") {
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if (pid.classid == "doi" || pid.classid == "pmc" || pid.classid == "handle" || pid.classid == "pmid") {
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if (!identifiers.has(pid.classid)) {
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identifiers.set(pid.classid, new Array<string>());
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}
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identifiers.get(pid.classid).push(pid.content);
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}
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} else {
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for (let i = 0; i < pid.length; i++) {
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if (pid[i].classid == "doi" || pid[i].classid == "pmc" || pid[i].classid == "handle" || pid[i].classid == "pmid") {
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if (!identifiers.has(pid[i].classid)) {
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identifiers.set(pid[i].classid, new Array<string>());
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}
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identifiers.get(pid[i].classid).push(pid[i].content);
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}
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}
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}
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return identifiers;
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}
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// publication & dataset landing : for subjects and otherSubjects and classifiedSubjects
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parseAllSubjects(_subjects: any): [string[], Map<string, string[]>, Map<string, string[]>] {
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let subjects: string[];
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let otherSubjects: Map<string, string[]>;
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let classifiedSubjects: Map<string, string[]>;
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let subject;
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let length = Array.isArray(_subjects) ? _subjects.length : 1;
|
|
|
|
for (let i = 0; i < length; i++) {
|
|
subject = Array.isArray(_subjects) ? _subjects[i] : _subjects;
|
|
if (subject.classid != "") {
|
|
if (subject.inferred && subject.inferred == true) {
|
|
if (classifiedSubjects == undefined) {
|
|
classifiedSubjects = new Map<string, string[]>();
|
|
}
|
|
|
|
if (!classifiedSubjects.has(subject.classname)) {
|
|
classifiedSubjects.set(subject.classname, new Array<string>());
|
|
}
|
|
|
|
classifiedSubjects.get(subject.classname).push(subject.content);
|
|
} else {
|
|
if (subject.classid == "keyword") {
|
|
if (subjects == undefined) {
|
|
subjects = new Array<string>();
|
|
}
|
|
|
|
subjects.push(subject.content);
|
|
} else {
|
|
if (otherSubjects == undefined) {
|
|
otherSubjects = new Map<string, string[]>();
|
|
}
|
|
|
|
if (!otherSubjects.has(subject.classname)) {
|
|
otherSubjects.set(subject.classname, new Array<string>());
|
|
}
|
|
otherSubjects.get(subject.classname).push(subject.content);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
return [subjects, otherSubjects, classifiedSubjects];
|
|
}
|
|
|
|
parseContexts(_contexts: any): {
|
|
"labelContext": string, "labelCategory": string,
|
|
"labelConcept": string, inline: boolean
|
|
}[] {
|
|
let contexts = new Array<{
|
|
"labelContext": string, "labelCategory": string,
|
|
"labelConcept": string, inline: boolean
|
|
}>();
|
|
|
|
let position = 0;
|
|
let labels = "";
|
|
let context;
|
|
let length = Array.isArray(_contexts) ? _contexts.length : 1;
|
|
for (let i = 0; i < length; i++) {
|
|
context = Array.isArray(_contexts) ? _contexts[i] : _contexts;
|
|
|
|
if (context.hasOwnProperty("type") && (context['type'] == "community" || context['type'] == "ri")) {
|
|
if (context.hasOwnProperty("category")) {
|
|
let category;
|
|
let length2 = Array.isArray(context['category']) ? context['category'].length : 1;
|
|
for (let z = 0; z < length2; z++) {
|
|
category = Array.isArray(context['category']) ? context['category'][z] : context['category'];
|
|
if (category.hasOwnProperty("concept")) {
|
|
let categoryConcept;
|
|
let length1 = Array.isArray(category['concept']) ? category['concept'].length : 1;
|
|
for (let j = 0; j < length1; j++) {
|
|
categoryConcept = Array.isArray(category['concept']) ? category['concept'][j] : category['concept'];
|
|
|
|
contexts[position] = {"labelContext": "", "labelCategory": "", "labelConcept": "", inline: false};
|
|
contexts[position]['labelContext'] = context.label;
|
|
contexts[position]['labelCategory'] = category.label;
|
|
contexts[position]['labelConcept'] = categoryConcept.label;
|
|
|
|
position++;
|
|
}
|
|
} else {
|
|
contexts[position] = {"labelContext": "", "labelCategory": "", "labelConcept": "", inline: false};
|
|
contexts[position]['labelContext'] = context.label;
|
|
contexts[position]['labelCategory'] = category.label;
|
|
contexts[position]['labelConcept'] = null;
|
|
position++;
|
|
}
|
|
}
|
|
} else {
|
|
contexts[position] = {"labelContext": "", "labelCategory": "", "labelConcept": "", inline: false};
|
|
contexts[position]['labelContext'] = context.label;
|
|
contexts[position]['labelCategory'] = null;
|
|
contexts[position]['labelConcept'] = null;
|
|
contexts[position]['new'] = false;
|
|
position++;
|
|
}
|
|
}
|
|
}
|
|
return contexts;
|
|
}
|
|
|
|
parseTypes(types: string[], uniqueTypes: Set<string>, instance: any) {
|
|
if (instance && instance.hasOwnProperty("instancetype") && instance['instancetype'].classname) {
|
|
if (!uniqueTypes.has(instance['instancetype'].classname)) {
|
|
types.push(instance['instancetype'].classname);
|
|
uniqueTypes.add(instance['instancetype'].classname);
|
|
}
|
|
}
|
|
}
|
|
|
|
parseLanguages(_languages: any) {
|
|
var languages = new Array<string>();
|
|
|
|
if (!Array.isArray(_languages)) {
|
|
if (_languages.classname != "Undetermined" && _languages.classname) {
|
|
languages.push(_languages.classname);
|
|
}
|
|
} else {
|
|
for (let i = 0; i < _languages.length; i++) {
|
|
if (_languages[i].classname != "Undetermined" && _languages[i].classname) {
|
|
languages.push(_languages[i].classname);
|
|
}
|
|
}
|
|
}
|
|
return languages;
|
|
}
|
|
|
|
parseCountries(_countries: any) {
|
|
var countries = new Array<string>();
|
|
|
|
if (!Array.isArray(_countries)) {
|
|
if (_countries.classname != "Undetermined" && _countries.classname) {
|
|
countries.push(_countries.classname);
|
|
}
|
|
} else {
|
|
for (let i = 0; i < countries.length; i++) {
|
|
if (_countries[i].classname != "Undetermined" && _countries[i].classname) {
|
|
countries.push(_countries[i].classname);
|
|
}
|
|
}
|
|
}
|
|
return countries;
|
|
}
|
|
|
|
parseProgrammingLanguages(_pLanguages) {
|
|
var pLanguages = new Array<string>();
|
|
|
|
if (!Array.isArray(_pLanguages)) {
|
|
if (_pLanguages.classname != "Undetermined" && _pLanguages.classname) {
|
|
pLanguages.push(_pLanguages.classname);
|
|
}
|
|
} else {
|
|
for (let i = 0; i < _pLanguages.length; i++) {
|
|
if (_pLanguages[i].classname != "Undetermined" && _pLanguages[i].classname) {
|
|
pLanguages.push(_pLanguages[i].classname);
|
|
}
|
|
}
|
|
}
|
|
return pLanguages;
|
|
}
|
|
|
|
parseReferences(citations: any): Reference[] {
|
|
let references: Reference[] = [];
|
|
citations = Array.isArray(citations) ? citations : [citations];
|
|
citations.forEach(citation => {
|
|
let reference: Reference = {name: null, ids: []};
|
|
if(citation.rawText) {
|
|
reference.name = citation.rawText;
|
|
}
|
|
if(citation.id) {
|
|
let ids: any[] = Array.isArray(citation.id) ? citation.id : [citation.id];
|
|
ids.forEach(id => {
|
|
reference.ids.push({
|
|
type: id.type,
|
|
value: id.value,
|
|
trust: id.confidenceLevel
|
|
});
|
|
});
|
|
}
|
|
references[citation.position - 1] = reference;
|
|
});
|
|
return references;
|
|
}
|
|
}
|