Merge branch 'bugs/JAL-2777_whitespaceChain' into develop

diff --cc src/jalview/gui/FeatureSettings.java
index c5454ab,63f1b13..b768339
--- 1/src/jalview/gui/FeatureSettings.java
--- 2/src/jalview/gui/FeatureSettings.java
+++ b/src/jalview/gui/FeatureSettings.java
@@@ -1237,8 -1243,11 +1243,11 @@@ public class FeatureSettings extends JP
        @Override
        public void stateChanged(ChangeEvent evt)
        {
-         fr.setTransparency((100 - transparency.getValue()) / 100f);
-         af.alignPanel.paintAlignment(true, true);
+         if (!inConstruction)
+         {
+           fr.setTransparency((100 - transparency.getValue()) / 100f);
 -          af.alignPanel.paintAlignment(true);
++          af.alignPanel.paintAlignment(true,true);
+         }
        }
      });