normalised logo rendering (JAL-958)

[jalview.git] / src / jalview / gui / AlignmentPanel.java

diff --git a/src/jalview/gui/AlignmentPanel.java b/src/jalview/gui/AlignmentPanel.java
index f7c465c..2b4c0db 100644 (file)
--- a/src/jalview/gui/AlignmentPanel.java
+++ b/src/jalview/gui/AlignmentPanel.java
@@ -1357,6 +1357,7 @@ public class AlignmentPanel extends GAlignmentPanel implements
     boolean cons = av.isShowGroupConsensus();
     boolean showprf = av.isShowSequenceLogo();
     boolean showConsHist = av.isShowConsensusHistogram();
+    boolean normLogo = av.isNormaliseSequenceLogo();
 
     boolean sortg = true;
 
@@ -1392,6 +1393,7 @@ public class AlignmentPanel extends GAlignmentPanel implements
           // set defaults for this group's conservation/consensus
           sg.setshowSequenceLogo(showprf);
           sg.setShowConsensusHistogram(showConsHist);
+          sg.setNormaliseSequenceLogo(normLogo);
         }
         if (conv)
         {