diff --git a/src/app/components/analysis-panel/analysis-panel.component.ts b/src/app/components/analysis-panel/analysis-panel.component.ts
index be1a6a759bc1070a05241028a6b3e19d5cc1f877..e74a5f044539e671eb331d72ca280f664d3ee628 100644
--- a/src/app/components/analysis-panel/analysis-panel.component.ts
+++ b/src/app/components/analysis-panel/analysis-panel.component.ts
@@ -357,7 +357,7 @@ export class AnalysisPanelComponent implements OnInit, OnChanges, AfterViewInit
}
private async getTask(token: string): Promise<any> {
- return await this.http.get(`${environment.backend}task/?token=${token}`).toPromise();
+ return await this.http.get(`${this.netex.getBackend()}task/?token=${token}`).toPromise();
}
close() {
@@ -410,7 +410,7 @@ export class AnalysisPanelComponent implements OnInit, OnChanges, AfterViewInit
}
public downloadLink(view: string): string {
- return `${environment.backend}task_result/?token=${this.token}&view=${view}&fmt=csv`;
+ return `${this.netex.getBackend()}task_result/?token=${this.token}&view=${view}&fmt=csv`;
}
/**
diff --git a/src/app/components/network/network.component.ts b/src/app/components/network/network.component.ts
index 5487e3792dee68f51e054bb0c001d50e0fcbbc28..d2cde1f3d4de7e0e49efeb1ebed74a3a353df374 100644
--- a/src/app/components/network/network.component.ts
+++ b/src/app/components/network/network.component.ts
@@ -532,7 +532,6 @@ export class NetworkComponent implements OnInit {
if (!node) {
continue;
}
- console.log(node);
const pos = this.networkHandler.activeNetwork.networkInternal.getPositions([node.id]);
node.x = pos[node.id].x;
node.y = pos[node.id].y;
diff --git a/src/app/components/privacy-banner/privacy-banner.component.ts b/src/app/components/privacy-banner/privacy-banner.component.ts
index 575343967a80fe0b17e19117a3991d1d6d716657..9fd49fea129e5e9cd50e2a680add40eddf943c55 100644
--- a/src/app/components/privacy-banner/privacy-banner.component.ts
+++ b/src/app/components/privacy-banner/privacy-banner.component.ts
@@ -10,7 +10,6 @@ export class PrivacyBannerComponent implements OnInit {
constructor() { }
ngOnInit(): void {
- console.log(localStorage.getItem(this.privacyBannerCookieKey) )
if (localStorage.getItem(this.privacyBannerCookieKey) === 'true') {
this.disable();
};
diff --git a/src/app/config.ts b/src/app/config.ts
index 9fd9175a97f3cb5b36a212e131cf157f6d6026a1..6ec2ddea20f8c1db2e61da7712754dc00b154f12 100644
--- a/src/app/config.ts
+++ b/src/app/config.ts
@@ -40,6 +40,7 @@ export type InteractionDatabase = 'omnipath';
export interface IConfig {
title: string;
+ backendUrl: string;
legendUrl: string;
legendClass: string;
legendPos: 'left' | 'right';
@@ -135,6 +136,7 @@ connectorNodeGroup.groupName = 'Connector Nodes';
*/
export const defaultConfig: IConfig = {
title: 'Drugst.One',
+ backendUrl: '',
legendUrl: '',
legendClass: 'legend',
legendPos: 'left',
diff --git a/src/app/dialogs/add-expressed-proteins/add-expressed-proteins.component.ts b/src/app/dialogs/add-expressed-proteins/add-expressed-proteins.component.ts
index e5f74c2e2bd10e0fab31cf4da841788eea252313..730bb1a9643056f96912a2e4a826d661e38a682e 100644
--- a/src/app/dialogs/add-expressed-proteins/add-expressed-proteins.component.ts
+++ b/src/app/dialogs/add-expressed-proteins/add-expressed-proteins.component.ts
@@ -3,6 +3,7 @@ import {AnalysisService} from '../../services/analysis/analysis.service';
import {getWrapperFromNode, Node, Tissue, NodeAttributeMap} from '../../interfaces';
import {environment} from '../../../environments/environment';
import {HttpClient} from '@angular/common/http';
+import { NetexControllerService } from 'src/app/services/netex-controller/netex-controller.service';
@Component({
selector: 'app-add-expressed-proteins',
@@ -29,7 +30,7 @@ export class AddExpressedProteinsComponent implements OnChanges {
public addedCount: number | null = null;
public loading = false;
- constructor(private http: HttpClient, private analysis: AnalysisService) {
+ constructor(private http: HttpClient, private analysis: AnalysisService, private netex: NetexControllerService) {
}
ngOnChanges(changes: SimpleChanges): void {
@@ -38,7 +39,7 @@ export class AddExpressedProteinsComponent implements OnChanges {
public async addProteins() {
this.loading = true;
- const result = await this.http.post<any>(`${environment.backend}query_tissue_proteins/`,
+ const result = await this.http.post<any>(`${this.netex.getBackend()}query_tissue_proteins/`,
{tissueId: this.selectedTissue.drugstoneId, threshold: this.threshold}).toPromise();
const items = [];
for (const detail of result) {
diff --git a/src/app/services/analysis/analysis.service.ts b/src/app/services/analysis/analysis.service.ts
index 9304b0381fb998aee9e37bd5c4b72e4213627600..38ff9a9053258d0fc7e6d358e9bcdd85d4a0be17 100644
--- a/src/app/services/analysis/analysis.service.ts
+++ b/src/app/services/analysis/analysis.service.ts
@@ -282,7 +282,7 @@ export class AnalysisService {
};
- const resp = await this.http.post<any>(`${environment.backend}task/`, {
+ const resp = await this.http.post<any>(`${this.netex.getBackend()}task/`, {
algorithm: algorithm,
target: target,
parameters: parameters,
@@ -307,7 +307,7 @@ export class AnalysisService {
});
return '';
}
- const resp = await this.http.post<any>(`${environment.backend}task/`, {
+ const resp = await this.http.post<any>(`${this.netex.getBackend()}task/`, {
algorithm,
target,
parameters,
diff --git a/src/app/services/netex-controller/netex-controller.service.ts b/src/app/services/netex-controller/netex-controller.service.ts
index 2701e463a98a780214442fa780efa7186d2c917e..e48c865c89a9e597b92037a68ce420d489f2ddc3 100644
--- a/src/app/services/netex-controller/netex-controller.service.ts
+++ b/src/app/services/netex-controller/netex-controller.service.ts
@@ -4,27 +4,35 @@ import {HttpClient, HttpParams} from '@angular/common/http';
import {Observable} from 'rxjs';
import {Tissue, Node, EdgeType, QuickAlgorithmType, AlgorithmType} from 'src/app/interfaces';
import {InteractionDrugProteinDB, InteractionProteinProteinDB} from 'src/app/config';
+import { DrugstoneConfigService } from '../drugstone-config/drugstone-config.service';
@Injectable({
providedIn: 'root'
})
export class NetexControllerService {
- constructor(private http: HttpClient) {
+
+ constructor(private http: HttpClient, private drugstoneConfig: DrugstoneConfigService) {
+ }
+
+ public getBackend() {
+ return this.drugstoneConfig.config.backendUrl || environment.backend;
}
public async getTasks(tokens): Promise<any> {
+ console.log(this.drugstoneConfig.config.backendUrl)
+ console.log(this.getBackend())
/**
* returns promise of tasks status
*/
- return this.http.post<any>(`${environment.backend}tasks/`, {tokens: JSON.stringify(tokens)}).toPromise();
+ return this.http.post<any>(`${this.getBackend()}tasks/`, {tokens: JSON.stringify(tokens)}).toPromise();
}
public getTaskResult(token) {
/**
* returns promise of task result of COMPLETED task
*/
- return this.http.get<any>(`${environment.backend}task_result/?token=${token}`).toPromise();
+ return this.http.get<any>(`${this.getBackend()}task_result/?token=${token}`).toPromise();
}
public async mapNodes(nodes, identifier): Promise<any> {
@@ -33,14 +41,14 @@ export class NetexControllerService {
* Returns list of mapped nodes if node was found, otherwise original node to not lose information
*/
const payload = {nodes: nodes, identifier: identifier};
- return this.http.post(`${environment.backend}map_nodes/`, payload).toPromise();
+ return this.http.post(`${this.getBackend()}map_nodes/`, payload).toPromise();
}
public tissues(): Observable<any> {
/**
* Lists all available tissues with id and name
*/
- return this.http.get<Tissue[]>(`${environment.backend}tissues/`);
+ return this.http.get<Tissue[]>(`${this.getBackend()}tissues/`);
}
public digest_request(payload): Promise<any> {
@@ -50,7 +58,7 @@ export class NetexControllerService {
public maxTissueExpression(tissue: Tissue): Promise<any> {
const params = new HttpParams()
.set('tissue', tissue.drugstoneId);
- return this.http.get(environment.backend + 'tissue_max_expression/', {params}).toPromise();
+ return this.http.get(this.getBackend() + 'tissue_max_expression/', {params}).toPromise();
}
@@ -64,7 +72,7 @@ export class NetexControllerService {
tissue: tissue.drugstoneId,
proteins: JSON.stringify(genesBackendIds)
}
- return this.http.post(`${environment.backend}tissue_expression/`, payload);
+ return this.http.post(`${this.getBackend()}tissue_expression/`, payload);
}
public adjacentDisorders(nodes: Node[], nodeType: string, dataset: string, licenced: boolean): Observable<any> {
@@ -74,7 +82,7 @@ export class NetexControllerService {
} else if (nodeType === 'drugs') {
params['drugs'] = nodes.map((node: Node) => node.drugId && node.drugstoneType === 'drug' ? node.drugstoneId.slice(2) : undefined).filter(id => id != null);
}
- return this.http.post<any>(`${environment.backend}adjacent_disorders/`, params);
+ return this.http.post<any>(`${this.getBackend()}adjacent_disorders/`, params);
}
public adjacentDrugs(pdiDataset: InteractionDrugProteinDB, licenced: boolean, nodes: Node[]): Observable<any> {
@@ -88,7 +96,7 @@ export class NetexControllerService {
proteins: genesBackendIds,
licenced: licenced
};
- return this.http.post<any>(`${environment.backend}adjacent_drugs/`, params);
+ return this.http.post<any>(`${this.getBackend()}adjacent_drugs/`, params);
}
public graphExport(graph_data: { edges: EdgeType[], nodes: Node[] }) {
@@ -96,7 +104,7 @@ export class NetexControllerService {
* Sends complete graph data to backend where it is written to graphml or json File.
* The file is returned as download for the user.
*/
- return this.http.post(`${environment.backend}graph_export/`, graph_data, {responseType: 'text'});
+ return this.http.post(`${this.getBackend()}graph_export/`, graph_data, {responseType: 'text'});
}
public async fetchEdges(nodes: Node[], dataset: InteractionProteinProteinDB, licenced: boolean): Promise<any> {
@@ -105,7 +113,7 @@ export class NetexControllerService {
* Returns list of mapped nodes if node was found, otherwise original node to not lose information
*/
const payload = {nodes: nodes, dataset: dataset, licenced: licenced};
- return this.http.post(`${environment.backend}fetch_edges/`, payload).toPromise();
+ return this.http.post(`${this.getBackend()}fetch_edges/`, payload).toPromise();
}
@@ -113,6 +121,6 @@ export class NetexControllerService {
/**
* returns promise of task status
*/
- return this.http.get(`${environment.backend}get_license`).toPromise();
+ return this.http.get(`${this.getBackend()}get_license`).toPromise();
}
}
diff --git a/src/index.html b/src/index.html
index fa27760bfef0e93bec516b19df4d54a04d96c980..52ec8c03e828afa9ad86245edb5fe192103c1ae7 100644
--- a/src/index.html
+++ b/src/index.html
@@ -112,7 +112,7 @@ Export As Graphml Button<br>
<drugst-one id="tatata"
groups='{ "nodeGroups" : { "selectedNode": { "borderWidth": 3,"borderWidthSelected": 4,"color": { "border": "#ff1818","highlight": {"border": "#ff1818"}},"font": { "color": "#F8981","size": 14 }},"Protein":{"shape":"circle","groupName":"Protein","type":"Protein","color":"#172b4d","font":{"color":"#ffffff"}}}}'
- config='{ "identifier":"symbol","title":"ROBUST output network", "taskDrugName": "Drug Search", "showLegendNodes": true, "showLegendEdges": true, "showSidebar": "left", "showOverview": true, "legendPos": "left", "legendClass": "legend", "showQuery": true, "showItemSelector": true,"showSimpleAnalysis": false,"showAdvAnalysis": true,"showSelection": true,"showTasks": true,"showNetworkMenu": "right","showLegend": true,"showNetworkMenuButtonExpression": true, "showNetworkMenuButtonScreenshot": true,"showNetworkMenuButtonExportGraphml": true,"showNetworkMenuButtonAdjacentDrugs": true,"showNetworkMenuButtonCenter": true,"showConnectGenes": false,"networkMenuButtonAdjacentDrugsLabel": "Drugs","showNetworkMenuButtonAdjacentDisordersProteins": true,"networkMenuButtonAdjacentDisordersProteinsLabel": "Disorders (protein)","showNetworkMenuButtonAdjacentDisordersDrugs": true,"networkMenuButtonAdjacentDisordersDrugsLabel": "Disorders (drug)","showNetworkMenuButtonAnimation": true,"networkMenuButtonAnimationLabel": "Animation", "autofillEdges": true, "physicsOn": false,"useNedrexLicenced": true,"selfReferences": false, "interactionDrugProtein": "NeDRex", "indicationDrugDisorder": "NeDRex","nodeShadow": true,"edgeShadow": true, "algorithms": {"drug": ["trustrank", "closeness", "degree", "proximity"], "drug-target": ["trustrank", "multisteiner", "keypathwayminer", "degree", "closeness", "betweenness"]}, "associatedProteinDisorder": "NeDRex", "expandNetworkMenu": true}'
+ config='{"identifier":"symbol","title":"ROBUST output network", "taskDrugName": "Drug Search", "showLegendNodes": true, "showLegendEdges": true, "showSidebar": "left", "showOverview": true, "legendPos": "left", "legendClass": "legend", "showQuery": true, "showItemSelector": true,"showSimpleAnalysis": false,"showAdvAnalysis": true,"showSelection": true,"showTasks": true,"showNetworkMenu": "right","showLegend": true,"showNetworkMenuButtonExpression": true, "showNetworkMenuButtonScreenshot": true,"showNetworkMenuButtonExportGraphml": true,"showNetworkMenuButtonAdjacentDrugs": true,"showNetworkMenuButtonCenter": true,"showConnectGenes": false,"networkMenuButtonAdjacentDrugsLabel": "Drugs","showNetworkMenuButtonAdjacentDisordersProteins": true,"networkMenuButtonAdjacentDisordersProteinsLabel": "Disorders (protein)","showNetworkMenuButtonAdjacentDisordersDrugs": true,"networkMenuButtonAdjacentDisordersDrugsLabel": "Disorders (drug)","showNetworkMenuButtonAnimation": true,"networkMenuButtonAnimationLabel": "Animation", "autofillEdges": true, "physicsOn": false,"useNedrexLicenced": true,"selfReferences": false, "interactionDrugProtein": "NeDRex", "indicationDrugDisorder": "NeDRex","nodeShadow": true,"edgeShadow": true, "algorithms": {"drug": ["trustrank", "closeness", "degree", "proximity"], "drug-target": ["trustrank", "multisteiner", "keypathwayminer", "degree", "closeness", "betweenness"]}, "associatedProteinDisorder": "NeDRex", "expandNetworkMenu": true}'
network='{"nodes": [{"id":"PSEN1","group":"Protein","label":"PSEN1"},{"id":"PSEN2","group":"Protein","label":"PSEN2"},{"id":"APP","group":"Protein","label":"APP"},{"id":"APOE","group":"Protein","label":"APOE"},{"id":"RNF32","group":"Protein","label":"RNF32"},{"id":"STX5","group":"Protein","label":"STX5"},{"id":"TRAF3IP1","group":"Protein","label":"TRAF3IP1"},{"id":"PHB1","group":"Protein","label":"PHB1"},{"id":"MAPT","group":"Protein","label":"MAPT"},{"id":"ESR1","group":"Protein","label":"ESR1"},{"id":"IRF3","group":"Protein","label":"IRF3"},{"id":"DYNC1H1","group":"Protein","label":"DYNC1H1"},{"id":"CUL3","group":"Protein","label":"CUL3"},{"id":"HMGB1","group":"Protein","label":"HMGB1"},{"id":"DNAJC7","group":"Protein","label":"DNAJC7"},{"id":"NEFM","group":"Protein","label":"NEFM"},{"id":"DISC1","group":"Protein","label":"DISC1"},{"id":"PPP5C","group":"Protein","label":"PPP5C"},{"id":"CTNNB1","group":"Protein","label":"CTNNB1"},{"id":"KRAS","group":"Protein","label":"KRAS"}]}'
></drugst-one>