X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FDesktop.java;fp=src%2Fjalview%2Fgui%2FDesktop.java;h=b26a8af83e5866a1f1032f45755d18b3618d0d07;hb=04a4d60a50394d846d0479c442facebe360b5b9c;hp=128481c6a2b7c1f3fddcb48fa99c60c2edb351ab;hpb=653e250e0a2a5dd455ae4c52794c4ce0de340418;p=jalview.git

diff --git a/src/jalview/gui/Desktop.java b/src/jalview/gui/Desktop.java
index 128481c..b26a8af 100644
--- a/src/jalview/gui/Desktop.java
+++ b/src/jalview/gui/Desktop.java
@@ -849,6 +849,7 @@ public class Desktop extends jalview.jbgui.GDesktop
     frame.setResizable(resizable);
     frame.setMaximizable(resizable);
     frame.setIconifiable(resizable);
+    frame.setOpaque(false);
 
     if (frame.getX() < 1 && frame.getY() < 1)
     {
@@ -899,8 +900,6 @@ public class Desktop extends jalview.jbgui.GDesktop
           menuItem.removeActionListener(menuItem.getActionListeners()[0]);
         }
         windowMenu.remove(menuItem);
-
-        System.gc();
       };
     });
 
@@ -1388,7 +1387,6 @@ public class Desktop extends jalview.jbgui.GDesktop
     {
       ssm.resetAll();
     }
-    System.gc();
   }
 
   @Override
@@ -1473,7 +1471,8 @@ public class Desktop extends jalview.jbgui.GDesktop
       return;
     }
 
-    AlignmentViewport source = null, target = null;
+    AlignViewportI source = null;
+    AlignViewportI target = null;
     if (frames[0] instanceof AlignFrame)
     {
       source = ((AlignFrame) frames[0]).getCurrentView();