X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAlignViewport.java;h=ac364b91cc225db23ade698aaa93cfeba5034f60;hb=677878508a8006cbf7e94e4d4e129ddcf3e3f2c2;hp=13f66d973ffeaf84e2085f32bd7e07f85db678c4;hpb=863467bf6c59c0bc5368c8f3a03d9d5a4f10700d;p=jalview.git

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index 13f66d9..ac364b9 100644
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -1763,6 +1763,7 @@ public class AlignViewport implements SelectionSource, VamsasSource
     ColourSchemeI cs = globalColourScheme;
     if (cs != null)
     {
+      cs.alignmentChanged(alignment);
       if (cs instanceof ClustalxColourScheme)
       {
         ((ClustalxColourScheme) cs).resetClustalX(alignment.getSequences(),