Almost working

[jalview.git] / src / jalview / gui / PaSiMapPanel.java

diff --git a/src/jalview/gui/PaSiMapPanel.java b/src/jalview/gui/PaSiMapPanel.java
index f3a1f52..cd1dd5a 100644 (file)
--- a/src/jalview/gui/PaSiMapPanel.java
+++ b/src/jalview/gui/PaSiMapPanel.java
@@ -91,7 +91,7 @@ public class PaSiMapPanel extends GPCAPanel
   public PaSiMapPanel(AlignmentPanel alignPanel, String modelName,
           SimilarityParamsI params)
   {
-    super();
+    super(3);  // dim = 3
     this.av = alignPanel.av;
     this.ap = alignPanel;
     boolean nucleotide = av.getAlignment().isNucleotide();
@@ -109,8 +109,6 @@ public class PaSiMapPanel extends GPCAPanel
 
     boolean selected = av.getSelectionGroup() != null
             && av.getSelectionGroup().getSize() > 0;
-    //&! do i need seqstrings? -> no
-    //AlignmentView seqstrings = av.getAlignmentView(selected);
     SequenceI[] seqs;
     if (!selected)
     {
@@ -124,8 +122,6 @@ public class PaSiMapPanel extends GPCAPanel
     ScoreModelI scoreModel = ScoreModels.getInstance()
             .getScoreModel(modelName, ap);
     setPasimapModel(
-    //&!
-            //new PaSiMapModel(seqstrings, seqs, nucleotide, scoreModel, params));
             new PaSiMapModel(av, seqs, nucleotide, scoreModel, params));
     PaintRefresher.Register(this, av.getSequenceSetId());
 
@@ -715,8 +711,6 @@ public class PaSiMapPanel extends GPCAPanel
    * 
    * @param data
    */
-  //public void setInputData(AlignmentView data)
-  //&! viewport or panel?
   public void setInputData(AlignmentViewport data)
   {
     getPasimapModel().setInputData(data);