JAL-3829 pushed the PDBFTSClient specific code to new ‘StructureChooserQuerySource...

[jalview.git] / src / jalview / workers / ConsensusThread.java

diff --git a/src/jalview/workers/ConsensusThread.java b/src/jalview/workers/ConsensusThread.java
index 335529c..1a5aaa4 100644 (file)
--- a/src/jalview/workers/ConsensusThread.java
+++ b/src/jalview/workers/ConsensusThread.java
@@ -46,7 +46,7 @@ public class ConsensusThread extends AlignCalcWorker
       return;
     }
     calcMan.notifyStart(this);
-    long started = System.currentTimeMillis();
+    // long started = System.currentTimeMillis();
     try
     {
       AlignmentAnnotation consensus = getConsensusAnnotation();
@@ -118,7 +118,10 @@ public class ConsensusThread extends AlignCalcWorker
   protected void eraseConsensus(int aWidth)
   {
     AlignmentAnnotation consensus = getConsensusAnnotation();
-    consensus.annotations = new Annotation[aWidth];
+    if (consensus != null)
+    {
+      consensus.annotations = new Annotation[aWidth];
+    }
     AlignmentAnnotation gap = getGapAnnotation();
     if (gap != null)
     {