X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fworkers%2FStrucConsensusThread.java;fp=src%2Fjalview%2Fworkers%2FStrucConsensusThread.java;h=e0b38334e171414bcb4de3e78431e36a1902dbfe;hb=9623cea766a766683243235557ad48e6f7659e6a;hp=4471b6e8905be30fee016dcd7e8aa0f61bd24ae3;hpb=6066400ed6b0fe288ebbea82389f59838a534706;p=jalview.git

diff --git a/src/jalview/workers/StrucConsensusThread.java b/src/jalview/workers/StrucConsensusThread.java
index 4471b6e..e0b3833 100644
--- a/src/jalview/workers/StrucConsensusThread.java
+++ b/src/jalview/workers/StrucConsensusThread.java
@@ -98,7 +98,7 @@ public class StrucConsensusThread extends AlignCalcWorker implements
       // select rna struct to use for calculation
       for (int i = 0; i < aa.length; i++)
       {
-        if (aa[i].getRNAStruc() != null && aa[i].isValidStruc())
+        if (aa[i].visible && aa[i].isRNA() && aa[i].isValidStruc())
         {
           rnaStruc = aa[i];
           break;
@@ -126,11 +126,6 @@ public class StrucConsensusThread extends AlignCalcWorker implements
       alignViewport.setRnaStructureConsensusHash(hStrucConsensus);
       // TODO AlignmentAnnotation rnaStruc!!!
       updateResultAnnotation(true);
-      if (alignViewport.getGlobalColourScheme() != null)
-      {
-        alignViewport.getGlobalColourScheme().setConsensus(hStrucConsensus);
-      }
-
     } catch (OutOfMemoryError error)
     {
       calcMan.workerCannotRun(this);