X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAlignFrame.java;h=39dad15d528ee87f9ceeaac5921727d519158d9a;hb=ea115fc4decf24137e52aaeee36713e9d5f3a743;hp=91529deea7d20dcc3cf57b770d5d2173f3dba15a;hpb=fdd551b9bfed534b0d4685bec8aecae842656574;p=jalview.git

diff --git a/src/jalview/gui/AlignFrame.java b/src/jalview/gui/AlignFrame.java
index 91529de..39dad15 100644
--- a/src/jalview/gui/AlignFrame.java
+++ b/src/jalview/gui/AlignFrame.java
@@ -168,7 +168,6 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
 
   boolean autoAlignNewSequences;
 
-  boolean recurring;
 
   /*
    * The currently displayed panel (selected tabbed view if more than one)
@@ -340,11 +339,6 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
     init();
   }
 
-  public void setIsRecurring(boolean status)
-  {
-    recurring = status;
-  }
-
   /**
    * initalise the alignframe from the underlying viewport data and the
    * configurations
@@ -4743,7 +4737,7 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
             HMMFile hmmFile = new HMMFile(new FileParse(file, sourceType));
             HiddenMarkovModel hmm = hmmFile.getHMM();
             SequenceI hmmSeq = hmm.initHMMSequence(this, 0);
-            getViewport().initInformation(hmmSeq);
+            getViewport().initInformation();
             getViewport().updateInformation(alignPanel);
             getViewport().alignmentChanged(alignPanel);
             isAnnotation = true;
@@ -4773,10 +4767,6 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
           else
           {
             new FileLoader().LoadFile(viewport, file, sourceType, format);
-            if (autoAlignNewSequences && !recurring)
-            {
-              new Thread(new HMMAlignThread(this, false)).start();
-            }
           }
         }
       }