convert space to gapchar

[jalview.git] / src / jalview / gui / FeatureRenderer.java

diff --git a/src/jalview/gui/FeatureRenderer.java b/src/jalview/gui/FeatureRenderer.java
index 178dc38..a1de62e 100755 (executable)
--- a/src/jalview/gui/FeatureRenderer.java
+++ b/src/jalview/gui/FeatureRenderer.java
@@ -49,7 +49,7 @@ public class FeatureRenderer
 
   // A higher level for grouping features of a
   // particular type
-  Hashtable featureGroups = null;
+  Hashtable featureGroups = new Hashtable();
 
   // This is actually an Integer held in the hashtable,
   // Retrieved using the key feature type
@@ -397,13 +397,16 @@ public class FeatureRenderer
    * them. Then fires a PropertyChangeEvent on the changeSupport object.
    *
    */
-  synchronized void findAllFeatures()
+  void findAllFeatures()
   {
-    findAllFeatures(true); // add all new features as visible
-    if (!firing) {
-      firing=true;
-      changeSupport.firePropertyChange("changeSupport",null,null);
-      firing=false;
+    synchronized (firing)
+    {
+        if (firing.equals(Boolean.FALSE)) {
+          firing=Boolean.TRUE;
+          findAllFeatures(true); // add all new features as visible
+          changeSupport.firePropertyChange("changeSupport",null,null);
+          firing=Boolean.FALSE;
+      }
     }
   }
   /**
@@ -455,6 +458,7 @@ public class FeatureRenderer
       {
         if (!av.featuresDisplayed.containsKey(features[index].getType()))
         {
+
           if(featureGroups.containsKey(features[index].getType()))
           {
             boolean visible = ( (Boolean) featureGroups.get(
@@ -462,8 +466,6 @@ public class FeatureRenderer
 
             if(!visible)
             {
-              System.out.println(features[index].featureGroup
-                                 +" not visible");
               index++;
               continue;
             }
@@ -495,7 +497,7 @@ public class FeatureRenderer
     updateRenderOrder(allfeatures);
     findingFeatures = false;
   }
-  protected boolean firing=false;
+  protected Boolean firing=Boolean.FALSE;
   /**
    * replaces the current renderOrder with the unordered features in allfeatures.
    * The ordering of any types in both renderOrder and allfeatures is preserved,