X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FUserDefinedColours.java;h=86c39f9124cba0057f783392dff07a42e54dc4eb;hb=d86deeaf2bf1128ff2d4e610c9a715c9970fb3ad;hp=2369049231035fd3cdbdbd603a325a17302907c5;hpb=9e46fb6245b28f14f01cb84d46d03cf5453e7010;p=jalview.git

diff --git a/src/jalview/gui/UserDefinedColours.java b/src/jalview/gui/UserDefinedColours.java
index 2369049..86c39f9 100755
--- a/src/jalview/gui/UserDefinedColours.java
+++ b/src/jalview/gui/UserDefinedColours.java
@@ -66,6 +66,11 @@ public class UserDefinedColours extends GUserDefinedColours
     public UserDefinedColours(AlignmentPanel ap, SequenceGroup sg)
     {
         super();
+
+        //AW - LOWER CASE DISABLED IN 2.1.01 bug fix release
+        casePanel.setVisible(false);
+
+
         lcaseColour.setEnabled(false);
 
         this.ap = ap;
@@ -132,6 +137,9 @@ public class UserDefinedColours extends GUserDefinedColours
 
     void resetButtonPanel(boolean caseSensitive)
     {
+      //AW - LOWER CASE DISABLED IN 2.1.01 bug fix release
+      caseSensitive = false;
+
       buttonPanel.removeAll();
 
 
@@ -348,10 +356,12 @@ public class UserDefinedColours extends GUserDefinedColours
           {    }
         }
 
+      /* //AW - LOWER CASE DISABLED IN 2.1.01 bug fix release
         if(caseSensitive.isSelected())
           button.setMargin(new java.awt.Insets(2,2,2,2));
         else
-          button.setMargin(new java.awt.Insets(2,14,2,14));
+         button.setMargin(new java.awt.Insets(2,14,2,14));
+      */
 
         button.setBackground(col);
         button.setText(label);
@@ -573,7 +583,7 @@ public class UserDefinedColours extends GUserDefinedColours
               }
               else
               {
-                index = ((Integer)ResidueProperties.aaHash.get(name)).intValue();
+                index = ResidueProperties.aaIndex[name.charAt(0)];
               }
               if(index == -1)
                 continue;