transferred the storage position of the HMM to annotations

[jalview.git] / src / jalview / datamodel / Alignment.java

diff --git a/src/jalview/datamodel/Alignment.java b/src/jalview/datamodel/Alignment.java
index a88995d..0b4ffd7 100755 (executable)
--- a/src/jalview/datamodel/Alignment.java
+++ b/src/jalview/datamodel/Alignment.java
@@ -68,8 +68,6 @@ public class Alignment implements AlignmentI
 
   private List<AlignedCodonFrame> codonFrameList;
 
-  HiddenMarkovModel hmm;
-
   private void initAlignment(SequenceI[] seqs)
   {
     groups = Collections.synchronizedList(new ArrayList<SequenceGroup>());
@@ -1962,18 +1960,7 @@ public class Alignment implements AlignmentI
     hiddenCols = cols;
   }
 
-  @Override
-  public HiddenMarkovModel getHMM()
-  {
-
-    return hmm;
-  }
 
-  @Override
-  public void setHMM(HiddenMarkovModel markov)
-  {
 
-    hmm = markov;
-  }
 
 }