query view refactoring + disconnected node removal #717 #719

iVis-at-Bilkent · Jul 1, 2024 · 34da6cb · 34da6cb
1 parent 30db8c9
commit 34da6cb
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Showing 4 changed files with 471 additions and 735 deletions.
diff --git a/app/css/chise.css b/app/css/chise.css
@@ -711,6 +711,13 @@ hr.inspector-divider {
     margin: 1px;
 }
 
+.caption-style-text {
+    padding-top: 8px;
+    padding-bottom: 8px;
+    color: #777;
+    text-align: left;
+}
+
 .chise-tab a {
     color: #555;
     padding-left: 5px !important;

diff --git a/app/js/app-utilities.js b/app/js/app-utilities.js
@@ -3791,4 +3791,39 @@ appUtilities.selectAllElementsOfSameType = function(ele) {
   cy.elements('[class="' + sbgnclass + '"]').select();
 };
 
+appUtilities.removeDisconnectedNodesAfterQuery = function( querySeedGenes ){
+  var isAggregateNode = function (node) {
+    return node.data("class") == "compartment" || node.data("class") == "submap" 
+    || node.data("class") == "complex";
+  }
+
+  var lowerCaseQuerySeedGenes = querySeedGenes.map( (gene) => {
+    return gene.toLowerCase();
+  });
+
+  var cy = appUtilities.getActiveCy();
+  var nodesToDelete = cy.collection();
+  cy.nodes().forEach( (node, idx) => {
+    if(isAggregateNode(node) && node.children().connectedEdges().length != 0){
+      node.children().forEach( (node, idx) => {
+        if(node.connectedEdges().length == 0 && !isAggregateNode(node)){
+          var querySeedNode = false;
+          if(node.data("label")){
+            var lowerCaseNodeLabel = node.data("label").toLowerCase();
+            lowerCaseQuerySeedGenes.forEach( (gene) => {
+              if(lowerCaseNodeLabel.indexOf(gene) >= 0){
+                querySeedNode = true;
+              }
+            });
+          }
+          if(!querySeedNode)
+            nodesToDelete.merge(node);
+        }
+      })
+    }
+  });
+  cy.remove(nodesToDelete);
+  // cy.viewUtilities("get").highlight(nodesToDelete);
+}
+
 module.exports = appUtilities;