X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fworkers%2FStrucConsensusThread.java;h=c64521f7dcb5e47eac9d87a03df55b0c1bfbea76;hb=eee8dfa05eeea5b7cc295ba020647842502efe63;hp=3230a364ef57f5162c2d2d7cb30bca833ef896bd;hpb=27c019af21a3eddef893d67fcf27c70f33720a06;p=jalview.git

diff --git a/src/jalview/workers/StrucConsensusThread.java b/src/jalview/workers/StrucConsensusThread.java
index 3230a36..c64521f 100644
--- a/src/jalview/workers/StrucConsensusThread.java
+++ b/src/jalview/workers/StrucConsensusThread.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -116,7 +116,7 @@ public class StrucConsensusThread extends AlignCalcWorker implements
       {
         final SequenceI[] arr = alignment.getSequencesArray();
         nseq = arr.length;
-        jalview.analysis.StructureFrequency.calculate(arr, 0,
+        StructureFrequency.calculate(arr, 0,
                 alignment.getWidth(), hStrucConsensus, true, rnaStruc);
       } catch (ArrayIndexOutOfBoundsException x)
       {
@@ -166,7 +166,7 @@ public class StrucConsensusThread extends AlignCalcWorker implements
     {
       StructureFrequency.completeConsensus(strucConsensus, hStrucConsensus,
               0, hStrucConsensus.length,
-              alignViewport.getIgnoreGapsConsensus(),
+              alignViewport.isIgnoreGapsConsensus(),
               alignViewport.isShowSequenceLogo(), nseq);
     }
   }