Merge branch 'patch/JAL-4345_pae_epas1_doubleclick' into develop

[jalview.git] / src / jalview / io / packed / JalviewDataset.java

diff --git a/src/jalview/io/packed/JalviewDataset.java b/src/jalview/io/packed/JalviewDataset.java
index c1ca1b7..5248a16 100644 (file)
--- a/src/jalview/io/packed/JalviewDataset.java
+++ b/src/jalview/io/packed/JalviewDataset.java
@@ -20,6 +20,7 @@
  */
 package jalview.io.packed;
 
+import jalview.analysis.TreeModel;
 import jalview.api.FeatureColourI;
 import jalview.datamodel.AlignmentI;
 import jalview.datamodel.SequenceI;
@@ -151,8 +152,7 @@ public class JalviewDataset
       {
         // the following works because all trees are already had node/SequenceI
         // associations created.
-        jalview.analysis.NJTree njt = new jalview.analysis.NJTree(
-                al.getSequencesArray(), nf);
+        TreeModel njt = new TreeModel(al.getSequencesArray(), null, nf);
         // this just updates the displayed leaf name on the tree according to
         // the SequenceIs.
         njt.renameAssociatedNodes();
@@ -291,7 +291,7 @@ public class JalviewDataset
     AlignmentSet last = getLastAlignmentSet();
     if (last != null)
     {
-      System.err.println("Deuniquifying last alignment set.");
+      jalview.bin.Console.errPrintln("Deuniquifying last alignment set.");
       last.deuniquifyAlignment();
     }
     al.add(new AlignmentSet(newal));