X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAnnotationLabels.java;h=b1a8aff6a863f3756989c1439747b8d3ef36ad01;hb=f0efe3029537bbbbe788e16eb85cb0af9c0fb81e;hp=2e70ca1bff37b4be255d41afc7b4ef49334e3547;hpb=51d3f6808e74f158d2ba4807ae4dbf6001b94e2b;p=jalview.git

diff --git a/src/jalview/gui/AnnotationLabels.java b/src/jalview/gui/AnnotationLabels.java
index 2e70ca1..b1a8aff 100755
--- a/src/jalview/gui/AnnotationLabels.java
+++ b/src/jalview/gui/AnnotationLabels.java
@@ -457,13 +457,15 @@ public class AnnotationLabels extends JPanel
           if (!ann.groupRef.isUseInfoLetterHeight())
           {
             ann.groupRef.setIgnoreBelowBackground(cbmi.getState());
+            // todo and recompute group annotation
           }
         }
         else if (!ap.av.isInfoLetterHeight())
         {
           ap.av.setIgnoreBelowBackground(cbmi.getState(), ap);
+          // todo and recompute annotation
         }
-        ap.alignmentChanged();
+        ap.alignmentChanged(); // todo not like this
       }
     });
     pop.add(cbmi);
@@ -480,11 +482,13 @@ public class AnnotationLabels extends JPanel
         {
           ann.groupRef.setInfoLetterHeight((letterHeight.getState()));
           ann.groupRef.setIgnoreBelowBackground(true);
+          // todo and recompute group annotation
         }
         else
         {
           ap.av.setInfoLetterHeight(letterHeight.getState(), ap);
           ap.av.setIgnoreBelowBackground(true, ap);
+          // todo and recompute annotation
         }
         ap.alignmentChanged();
       }
@@ -513,7 +517,7 @@ public class AnnotationLabels extends JPanel
         @Override
         public void actionPerformed(ActionEvent e)
         {
-          ann.groupRef.setshowHMMSequenceLogo(cprofl.getState());
+          ann.groupRef.setShowHMMSequenceLogo(cprofl.getState());
           ap.repaint();
         }
       });
@@ -529,7 +533,7 @@ public class AnnotationLabels extends JPanel
           ann.groupRef
                   .setNormaliseHMMSequenceLogo(cproflnorm.getState());
           // automatically enable logo display if we're clicked
-          ann.groupRef.setshowHMMSequenceLogo(true);
+          ann.groupRef.setShowHMMSequenceLogo(true);
           ap.repaint();
         }
       });