X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fgui%2FIdCanvas.java;h=3bc3168290d06646a5d1f3b6751a7426cbba0ec2;hb=f21eb611044169a07a7d4c6e2f69dd772fa7c872;hp=6810fed9e16f47ff76cbcf78dbf4b3b9d5cd5224;hpb=cca50cb3aee94f3ed1a5e504d45b8d8b665f8c5b;p=jalview.git

diff --git a/src/jalview/gui/IdCanvas.java b/src/jalview/gui/IdCanvas.java
index 6810fed..3bc3168 100755
--- a/src/jalview/gui/IdCanvas.java
+++ b/src/jalview/gui/IdCanvas.java
@@ -310,7 +310,7 @@ public class IdCanvas extends JPanel
         for (int i = starty; i < alheight; i++)
         {
           SequenceI s = av.getAlignment().getSequenceAt(i);
-          if (av.hasHiddenRows())
+          if (av.isDisplayReferenceSeq() || av.hasHiddenRows())
           {
             setHiddenFont(s);
           }
@@ -350,7 +350,7 @@ public class IdCanvas extends JPanel
           continue;
         }
 
-        if (av.hasHiddenRows())
+        if (av.isDisplayReferenceSeq() || av.hasHiddenRows())
         {
           setHiddenFont(sequence);
         }