From 3f94e4d8d59aba8cd0ae252f2d8be3e2df1fbc8f Mon Sep 17 00:00:00 2001
From: AndiMajore <andi.majore@googlemail.com>
Date: Tue, 24 Aug 2021 19:22:29 +0200
Subject: [PATCH] added doc structure
---
drugstone-test.html | 9 ++--
releases/release_tag.sh | 10 ++---
.../analysis-panel.component.ts | 2 -
.../launch-analysis.component.ts | 6 ++-
.../explorer-page.component.html | 1 +
.../explorer-page/explorer-page.component.ts | 42 +++++++++++--------
src/app/services/analysis/analysis.service.ts | 3 +-
src/index.html | 6 +++
8 files changed, 50 insertions(+), 29 deletions(-)
diff --git a/drugstone-test.html b/drugstone-test.html
index d98985f8..28776f37 100644
--- a/drugstone-test.html
+++ b/drugstone-test.html
@@ -1,17 +1,20 @@
<html lang="en">
<head>
<link rel="stylesheet" type="text/css" href="src/stylesheets/theme.css">
- <script src="https://cdn.jsdelivr.net/gh/AndiMajore/drugstone-releases/uhh/drugsTone.js"></script>
- <link rel="stylesheet" href="https://cdn.jsdelivr.net/gh/AndiMajore/drugstone-releases@0.8.1-rc3/uhh/styles.css">
+ <script src="https://cdn.jsdelivr.net/gh/AndiMajore/drugstone-releases@0.8.2-rc1/remote/drugsTone.js"></script>
+ <link rel="stylesheet" href="https://cdn.jsdelivr.net/gh/AndiMajore/drugstone-releases@0.8.2-rc1/remote/styles.css">
<!-- <link rel="stylesheet" type="text/css" href="./drugsTone-build/styles.css">-->
</head>
<body>
<div style="height: 700px; width: 1300px;">
<network-expander
- id='example-drugst.one'
+ id='drugstOne'
config='{"nodeGroups":{"patient":{"type":"patient","color":"#000000","font":{"color":"#f0f0f0"},"groupName":"Patient","shape":"image","image":"https://static.thenounproject.com/png/22780-200.png","shadow":true},"condition":{"type":"condition","color":"#000000","font":{"color":"#f0f0f0"},"groupName":"Condition","shape":"text","shadow":false},"important":{"type":"gene","color":"#ff881f","font":{"color":"#f0f0f0"},"groupName":"Important Gene","shape":"star","shadow":true},"gene":{"type":"gene","color":"#4da300","font":{"color":"#f0f0f0"},"groupName":"Gene","shape":"circle","shadow":true}},"edgeGroups":{"genotype":{"color":"white","groupName":"Relevant Gene","shadow":false},"has-condition":{"color":"white","groupName":"Has Condition","dashes":[2,2],"shadow":false},"ggi":{"color":"#ffffff","groupName":"Interaction","dashes":[3,2],"shadow":false}},"identifier":"symbol","title":"Breast cancer example network","nodeShadow":false,"edgeShadow":false,"showLegend":true}'
network='{"nodes":[{"id":"patient-1","group":"patient","x":592,"y":446},{"id":"patient-2","group":"patient","x":235,"y":87},{"id":"patient-3","group":"patient","x":105,"y":369},{"id":"ATM","label":"ATM","group":"gene","x":289,"y":242},{"id":"BARD1","label":"BARD1","group":"gene","x":44,"y":250},{"id":"BRCA1","label":"BRCA1","group":"gene","x":466,"y":576},{"id":"BRCA2","label":"BRCA2","group":"gene","x":507,"y":285},{"id":"BRIP1","label":"BRIP1","group":"gene","x":54,"y":474},{"id":"CHEK2","label":"CHEK2","group":"gene","x":216,"y":590},{"id":"CDH1","label":"CDH1","group":"gene","x":320,"y":-57},{"id":"NF1","label":"NF1","group":"gene","x":481,"y":111},{"id":"NBN","label":"NBN","group":"gene","x":-57,"y":314},{"id":"PALB2","label":"PALB2","group":"gene","x":450,"y":190},{"id":"PTEN","label":"PTEN","group":"important","x":305,"y":494},{"id":"RAD51C","label":"RAD51C","group":"gene","x":182,"y":-90},{"id":"RAD51D","label":"RAD51D","group":"gene","x":368,"y":73},{"id":"STK11","label":"STK11","group":"gene","x":686,"y":330},{"id":"TP53","label":"TP53","group":"important","x":333,"y":316},{"id":"subtype-1","label":"Subtype 1","group":"condition","x":556,"y":171},{"id":"subtype-2","label":"Subtype 2","group":"condition","x":-87,"y":221}],"edges":[{"from":"BRCA1","to":"BRCA2","group":"ggi"},{"from":"ATM","to":"BARD1","group":"ggi"},{"from":"BRCA1","to":"CHEK2","group":"ggi"},{"from":"RAD51C","to":"RAD51D","group":"ggi"},{"from":"STK11","to":"TP53","group":"ggi"},{"from":"TP53","to":"PALB2","group":"ggi"},{"from":"TP53","to":"RAD51D","group":"ggi"},{"from":"TP53","to":"NF1","group":"ggi"},{"from":"TP53","to":"BRCA1","group":"ggi"},{"from":"TP53","to":"BRCA2","group":"ggi"},{"from":"PTEN","to":"BRCA1","group":"ggi"},{"from":"PTEN","to":"BRCA2","group":"ggi"},{"from":"TP53","to":"PTEN","group":"ggi"},{"from":"ATM","to":"PTEN","group":"ggi"},{"from":"CDH1","to":"RAD51D","group":"ggi"},{"from":"CDH1","to":"PALB2","group":"ggi"},{"from":"NBN","to":"BRIP1","group":"ggi"},{"from":"BRIP1","to":"PTEN","group":"ggi"},{"from":"patient-1","to":"BRCA1","group":"genotype"},{"from":"patient-1","to":"TP53","group":"genotype"},{"from":"patient-1","to":"BRCA2","group":"genotype"},{"from":"patient-1","to":"PTEN","group":"genotype"},{"from":"patient-2","to":"TP53","group":"genotype"},{"from":"patient-2","to":"NF1","group":"genotype"},{"from":"patient-2","to":"BARD1","group":"genotype"},{"from":"patient-3","to":"TP53","group":"genotype"},{"from":"patient-3","to":"PTEN","group":"genotype"},{"from":"patient-3","to":"NBN","group":"genotype"},{"from":"patient-1","to":"subtype-1","group":"has-condition"},{"from":"patient-2","to":"subtype-1","group":"has-condition"},{"from":"patient-3","to":"subtype-2","group":"has-condition"}]}'>
</network-expander>
+ <script type="text/javascript">
+ document.getElementById("drugstOne").addEventListener("taskEvent",(event)=>{console.log(event.detail)})
+ </script>
</div>
</body>
</html>
diff --git a/releases/release_tag.sh b/releases/release_tag.sh
index 1edfae82..9145eb4f 100755
--- a/releases/release_tag.sh
+++ b/releases/release_tag.sh
@@ -33,11 +33,11 @@ echo "Updating Repo..."
#cd ../
#cp frontend/drugsTone-build/* drugstone-releases/dev/
#
-#echo "Building remote..."
-#cd frontend || exit
-#npm run build:netex-remote
-#cd ../
-#cp frontend/drugsTone-build/* drugstone-releases/remote/
+echo "Building remote..."
+cd frontend || exit
+npm run build:netex-remote
+cd ../
+cp frontend/drugsTone-build/* drugstone-releases/remote/
echo "Building v-server..."
diff --git a/src/app/components/analysis-panel/analysis-panel.component.ts b/src/app/components/analysis-panel/analysis-panel.component.ts
index e1de3195..a92a38c3 100644
--- a/src/app/components/analysis-panel/analysis-panel.component.ts
+++ b/src/app/components/analysis-panel/analysis-panel.component.ts
@@ -70,7 +70,6 @@ export class AnalysisPanelComponent implements OnInit, OnChanges {
for (const key of Object.keys(config)) {
this.myConfig[key] = config[key];
}
- console.log(this.myConfig)
}
@Output() tokenChange = new EventEmitter<string | null>();
@Output() showDetailsChange = new EventEmitter<Wrapper>();
@@ -166,7 +165,6 @@ export class AnalysisPanelComponent implements OnInit, OnChanges {
if (this.task && this.task.info.done) {
this.result = await this.netex.getTaskResult(this.token);
- console.log(this.result)
const nodeAttributes = this.result.nodeAttributes || {};
this.seedMap = nodeAttributes.isSeed || {};
diff --git a/src/app/dialogs/launch-analysis/launch-analysis.component.ts b/src/app/dialogs/launch-analysis/launch-analysis.component.ts
index 526c084f..38ef3ecd 100644
--- a/src/app/dialogs/launch-analysis/launch-analysis.component.ts
+++ b/src/app/dialogs/launch-analysis/launch-analysis.component.ts
@@ -28,6 +28,8 @@ export class LaunchAnalysisComponent implements OnInit, OnChanges {
public config: IConfig;
@Output()
public showChange = new EventEmitter<boolean>();
+ @Output()
+ public taskEvent = new EventEmitter<object>();
public algorithm: AlgorithmType | QuickAlgorithmType;
@@ -173,7 +175,9 @@ export class LaunchAnalysisComponent implements OnInit, OnChanges {
}
parameters.hub_penalty = this.multisteinerHubPenalty;
}
- await this.analysis.startAnalysis(this.algorithm, this.target, parameters);
+ const token = await this.analysis.startAnalysis(this.algorithm, this.target, parameters);
+ const object = {taskId: token, algorithm: this.algorithm, target: this.target, params: parameters};
+ this.taskEvent.emit(object);
}
}
diff --git a/src/app/pages/explorer-page/explorer-page.component.html b/src/app/pages/explorer-page/explorer-page.component.html
index f4ead32b..e459358c 100644
--- a/src/app/pages/explorer-page/explorer-page.component.html
+++ b/src/app/pages/explorer-page/explorer-page.component.html
@@ -8,6 +8,7 @@
[target]="analysisDialogTarget"
[config]="myConfig"
[inputNetwork]="{ nodes: proteins, edges: edges }"
+ (taskEvent)="emitTaskEvent($event)"
>
</app-launch-analysis>
diff --git a/src/app/pages/explorer-page/explorer-page.component.ts b/src/app/pages/explorer-page/explorer-page.component.ts
index 118b1b3a..8d1a07b9 100644
--- a/src/app/pages/explorer-page/explorer-page.component.ts
+++ b/src/app/pages/explorer-page/explorer-page.component.ts
@@ -4,8 +4,9 @@ import {
ElementRef,
HostListener,
Input,
- OnInit,
+ OnInit, Output,
ViewChild,
+ EventEmitter,
ViewEncapsulation
} from '@angular/core';
import {
@@ -27,7 +28,7 @@ import {defaultConfig, EdgeGroup, IConfig, InteractionDatabase, NodeGroup} from
import {NetexControllerService} from 'src/app/services/netex-controller/netex-controller.service';
import {downLoadFile, removeDuplicateObjectsFromList} from '../../utils'
import * as merge from 'lodash/fp/merge';
-import { AnalysisPanelComponent } from 'src/app/components/analysis-panel/analysis-panel.component';
+import {AnalysisPanelComponent} from 'src/app/components/analysis-panel/analysis-panel.component';
// import * as 'vis' from 'vis-network';
// import {DataSet} from 'vis-data';
@@ -115,6 +116,9 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
this.createNetwork();
}
+ @Output()
+ public taskEvent = new EventEmitter<object>();
+
public get network() {
return this.networkJSON;
}
@@ -177,7 +181,7 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
@ViewChild('network', {static: false}) networkEl: ElementRef;
@ViewChild('networkWithLegend', {static: false}) networkWithLegendEl: ElementRef;
- @ViewChild(AnalysisPanelComponent, { static: false })
+ @ViewChild(AnalysisPanelComponent, {static: false})
private analysisPanel: AnalysisPanelComponent;
constructor(
@@ -213,7 +217,7 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
false,
selected,
1.0
- )
+ )
nodeStyled.x = pos[wrapper.id].x;
nodeStyled.y = pos[wrapper.id].y;
updatedNodes.push(nodeStyled);
@@ -314,6 +318,7 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
this.smallStyle = this.windowWidth < 1250;
}
+
private zoomToNode(id: string) {
// get network object, depending on whether analysis is open or not
const network = this.selectedAnalysisToken ? this.analysisPanel.network : this.networkInternal;
@@ -455,18 +460,18 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
public updateAdjacentDrugs(bool: boolean) {
this.adjacentDrugs = bool;
if (this.adjacentDrugs) {
- this.netex.adjacentDrugs(this.myConfig.interactionDrugProtein, this.nodeData.nodes).subscribe(response => {
- for (const interaction of response.pdis) {
- const edge = {from: interaction.protein, to: interaction.drug};
- this.adjacentDrugEdgesList.push(mapCustomEdge(edge, this.myConfig));
- }
- for (const drug of response.drugs) {
- drug.group = 'foundDrug';
- drug.id = getDrugNodeId(drug)
- this.adjacentDrugList.push(mapCustomNode(drug, this.myConfig))
- }
- this.nodeData.nodes.add(this.adjacentDrugList);
- this.nodeData.edges.add(this.adjacentDrugEdgesList);
+ this.netex.adjacentDrugs(this.myConfig.interactionDrugProtein, this.nodeData.nodes).subscribe(response => {
+ for (const interaction of response.pdis) {
+ const edge = {from: interaction.protein, to: interaction.drug};
+ this.adjacentDrugEdgesList.push(mapCustomEdge(edge, this.myConfig));
+ }
+ for (const drug of response.drugs) {
+ drug.group = 'foundDrug';
+ drug.id = getDrugNodeId(drug)
+ this.adjacentDrugList.push(mapCustomNode(drug, this.myConfig))
+ }
+ this.nodeData.nodes.add(this.adjacentDrugList);
+ this.nodeData.edges.add(this.adjacentDrugEdgesList);
})
this.legendContext = 'adjacentDrugs'
} else {
@@ -646,7 +651,7 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
false,
this.analysis.inSelection(getWrapperFromNode(item)),
1.0
- )
+ )
)
updatedNodes.push(node);
}
@@ -700,4 +705,7 @@ export class ExplorerPageComponent implements OnInit, AfterViewInit {
this.currentViewSelectedTissue = this.selectedTissue;
}
+ emitTaskEvent(eventObject: object) {
+ this.taskEvent.emit(eventObject);
+ }
}
diff --git a/src/app/services/analysis/analysis.service.ts b/src/app/services/analysis/analysis.service.ts
index 541905ea..86b584b1 100644
--- a/src/app/services/analysis/analysis.service.ts
+++ b/src/app/services/analysis/analysis.service.ts
@@ -289,7 +289,7 @@ export class AnalysisService {
position: 'top-center',
animate: {in: 'fadeIn', out: 'fadeOut'}
});
- return;
+ return '';
}
const resp = await this.http.post<any>(`${environment.backend}task/`, {
algorithm,
@@ -300,6 +300,7 @@ export class AnalysisService {
this.tokens.push(resp.token);
localStorage.setItem(`netex-tokens-${window.location.host}`, JSON.stringify(this.tokens));
this.startWatching();
+ return resp.token;
}
public isLaunchingQuick(): boolean {
diff --git a/src/index.html b/src/index.html
index 34f3cec1..d97b1223 100644
--- a/src/index.html
+++ b/src/index.html
@@ -29,6 +29,7 @@
<button onclick=changeConfigStr('{"legendPos":"left"}') > Legend to Left </button> <br>
<button onclick=changeConfigStr('{"legendPos":"right"}') > Legend to Right </button> <br>
<button onclick=changeConfigStr('{"interactions":"omnipath"}') >Get Omnipath Interactions </button> <br>
+<button onclick="initTaskEventListener()">Init Task-Eventlistener</button> <br>
<!--<input type="checkbox" onclick=changeConfigStr('{"showSimpleAnalysis":'+this.checked+'}') checked /> Show SimpleAnalysis<br>-->
@@ -95,6 +96,11 @@
netexp.setAttribute('config', config);
}
+ function initTaskEventListener(){
+ document.getElementsByTagName("network-expander")[0].addEventListener("taskEvent",(event)=>{console.log(event.detail)})
+ }
+
+
function setNetwork(nw) {
const netexp = document.getElementById(nw);
--
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