js/clone.js, js/segmenter.js: extract clone.getLocus()

See #3513.

browser/js/clone.js

@@ -443,6 +443,24 @@ Clone.prototype = {
         return this.m.clusters[this.index]
     },
 
+    /**
+    * @return {string} locus (at least the locus of the 5' gene)cluster number
+    */
+    getLocus: function () {
+
+      locus = this.get('germline')
+
+      if (locus == "unexpected") {
+        var loci = [this.getGene("5").substring(0,3), this.getGene("3").substring(0,3) ]
+        locus = loci[0]
+        if (loci[0] != loci[1]) {
+          console.log("Clone " + this.getName() + "recombines sequences from two separate loci. Using: " + locus)
+        }
+      }
+
+      return locus
+    },
+
     /**
      * compute the clone size ( ratio of all clones clustered ) at a given time
      * @param {integer} time - tracking point (default value : current tracking point)

browser/js/segmenter.js

@@ -822,15 +822,7 @@ Segment.prototype = {
                     request += ">" + c.index + "#" + c.getName() + "\n" + c.id + "\n";
                 }
                 if (c.getSize()>max){
-                    system=c.get('germline')
-
-                    if (system == "unexpected"){
-                        var loci = [c.getGene("5").substring(0,3), c.getGene("3").substring(0,3) ]
-                        system = loci[0]
-                        if (loci[0] != loci[1]){
-                            console.log("Clone " + c.getName() + "recombines sequences from two separate loci. Using: " + system)
-                        }
-                    }
+                    system = c.getLocus()
                     max=c.getSize()
                 }
             }