JAL-2401 don't apply lower case colour to upper case

diff --git a/src/jalview/gui/UserDefinedColours.java b/src/jalview/gui/UserDefinedColours.java
index 463d8cd..6e9a121 100755 (executable)
--- a/src/jalview/gui/UserDefinedColours.java
+++ b/src/jalview/gui/UserDefinedColours.java
@@ -72,7 +72,7 @@ public class UserDefinedColours extends GUserDefinedColours implements
 
   private static final String LAST_DIRECTORY = "LAST_DIRECTORY";
 
-  private static final int MY_FRAME_HEIGHT = 420;
+  private static final int MY_FRAME_HEIGHT = 440;
 
   private static final int MY_FRAME_WIDTH = 810;
 
@@ -277,14 +277,9 @@ public class UserDefinedColours extends GUserDefinedColours implements
   {
     JButton button = null;
     final Color newColour = colorChooser.getColor();
-    for (int i = 0; i < selectedButtons.size(); i++)
-    {
-      button = selectedButtons.get(i);
-      button.setBackground(newColour);
-      button.setForeground(ColorUtils.brighterThan(newColour));
-    }
     if (lcaseColour.isSelected())
     {
+      selectedButtons.clear();
       for (int i = 0; i < lowerCaseButtons.size(); i++)
       {
         button = lowerCaseButtons.get(i);
@@ -292,6 +287,12 @@ public class UserDefinedColours extends GUserDefinedColours implements
         button.setForeground(ColorUtils.brighterThan(button.getBackground()));
       }
     }
+    for (int i = 0; i < selectedButtons.size(); i++)
+    {
+      button = selectedButtons.get(i);
+      button.setBackground(newColour);
+      button.setForeground(ColorUtils.brighterThan(newColour));
+    }
   }
 
   /**