X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FUserDefinedColours.java;h=44a633b3be89783da3bd3b1aafe76dd4c92800ea;hb=4663ab6ec8142df859d031bff618d78809e22082;hp=37824fe1688913d7726caaf9837d1544e2ae07b9;hpb=c5e9e6987402a15dc3a58e9d5e4d54be6760ef79;p=jalview.git

diff --git a/src/jalview/gui/UserDefinedColours.java b/src/jalview/gui/UserDefinedColours.java
index 37824fe..44a633b 100755
--- a/src/jalview/gui/UserDefinedColours.java
+++ b/src/jalview/gui/UserDefinedColours.java
@@ -556,7 +556,7 @@ public class UserDefinedColours extends GUserDefinedColours implements
 
     if (ap != null)
     {
-      ucs.setThreshold(0, ap.av.getIgnoreGapsConsensus());
+      ucs.setThreshold(0, ap.av.isIgnoreGapsConsensus());
     }
 
     return ucs;