Merge branch 'feature-c/2452' into 'dev'

fix -- a clone without reads should not be displayed

Closes #2452

See merge request !47

browser/js/scatterPlot.js

@@ -722,11 +722,10 @@ ScatterPlot.prototype = {
                 var clone = this.barTab[i][j]
                 var cloneID = clone.index;
                 if (this.includeBar(clone)){
-                    height = 0;
                     height = clone.getSize()/bar_max;
 
                     // Minimal height (does not affect y_pos)
-                    var height_for_display = Math.max(height, 0.01)
+                    var height_for_display = this.heightClone(height)
                     var y_pos_for_display = y_pos + height_for_display ;
 
                     y_pos += height;
@@ -816,31 +815,6 @@ ScatterPlot.prototype = {
         
     },
 
-    /**
-     * compute the height of a bar representing a given clone in the bar graph mode
-     * @param {integer} cloneID - clone index
-     * @return {float} height
-     * */
-    getBarHeight: function(cloneID) {
-        var size = this.m.clone(cloneID)
-            .getSize();
-        return size / this.bar_max;
-    },
-
-    /**
-     * compute the x pos of a bar representing a given clone in the bar graph mode
-     * @param {integer} cloneID - clone index
-     * @return {float} pos
-     * */
-    getBarPosition: function(cloneID) {
-        for (var i = 0; i < this.vKey.length; i++) {
-            for (var j = 0; j < this.bar_v[this.vKey[i]].clones.length; j++) {
-                if (this.bar_v[this.vKey[i]].clones[j].id == cloneID)
-                    return this.bar_v[this.vKey[i]].clones[j].pos;
-            }
-        }
-    },
-    
     /**
      * select a mode
      * @param {mode} new mode, this.MODE_*
@@ -1220,15 +1194,22 @@ ScatterPlot.prototype = {
     },
 
     /** 
-     * return the actual radius of the clone
-     * @param {float} size - clone ratio size, between 0.0 and 1.0
+     * return the actual radius (for MODE_GRID) or height (for MODE_BAR) of the clone
+     * A clone without reads is not displayed
+     * A clone with a small number of reads is displayed and has a minimal size
+     * @param {float} size/height - clone ratio size, between 0.0 and 1.0
+     * @return {float} size - clone display size
      * */
     radiusClone: function(size) {
         if (size === 0)
             return 0 ;
-        //Math.pow(x,y) -> x**y
         return this.resizeCoef * Math.pow((size + this.resizeMinSize), (1 / 3)) / 25
     },
+    heightClone: function(height) {
+        if (height === 0)
+            return 0 ;
+        return Math.max(height, 0.01)
+    },
 
 
     /**