Dont make groups of hidden sequences

[jalview.git] / src / jalview / appletgui / AlignFrame.java

diff --git a/src/jalview/appletgui/AlignFrame.java b/src/jalview/appletgui/AlignFrame.java
index ced0622..de19fd8 100755 (executable)
--- a/src/jalview/appletgui/AlignFrame.java
+++ b/src/jalview/appletgui/AlignFrame.java
@@ -825,10 +825,11 @@ public void itemStateChanged(ItemEvent evt)
     //For sequence removal and addition, we need to fire\r
    //the property change event FROM the viewport where the\r
    //original alignment was altered\r
+   AlignmentI al = null;\r
     if (command instanceof EditCommand)\r
     {\r
       EditCommand editCommand = (EditCommand) command;\r
-      AlignmentI al = editCommand.getAlignment();\r
+      al = editCommand.getAlignment();\r
       Vector comps = (Vector) PaintRefresher.components\r
           .get(viewport.getSequenceSetId());\r
       for (int i = 0; i < comps.size(); i++)\r
@@ -842,16 +843,19 @@ public void itemStateChanged(ItemEvent evt)
           }\r
         }\r
       }\r
-      if (originalSource == null && al!=null)\r
-      {\r
-        //The original view is closed, we must validate\r
-        //the current view against the closed view first\r
+    }\r
+\r
+    if (originalSource == null)\r
+    {\r
+      //The original view is closed, we must validate\r
+      //the current view against the closed view first\r
+      if (al != null)\r
         PaintRefresher.validateSequences(al, viewport.alignment);\r
-        originalSource = viewport;\r
-      }\r
 \r
+      originalSource = viewport;\r
     }\r
 \r
+\r
     return originalSource;\r
   }\r
 \r