From: kjvdheide <kjvanderheide@dundee.ac.uk>
Date: Thu, 26 Oct 2017 15:20:25 +0000 (+0100)
Subject: TreeBuilder now stores the used ScoreModel and ScoreParams
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=9f327c52e2dc32b445f87c1852b7f5ffa0196870;p=jalview.git

TreeBuilder now stores the used ScoreModel and ScoreParams
---

diff --git a/src/jalview/analysis/TreeBuilder.java b/src/jalview/analysis/TreeBuilder.java
index 36a8caf..31fc4b5 100644
--- a/src/jalview/analysis/TreeBuilder.java
+++ b/src/jalview/analysis/TreeBuilder.java
@@ -73,6 +73,10 @@ public abstract class TreeBuilder
 
   Vector<SequenceNode> node;
 
+  protected ScoreModelI scoreModel;
+
+  protected SimilarityParamsI scoreParams;
+
   private AlignmentView seqStrings; // redundant? (see seqData)
 
   /**
@@ -295,7 +299,11 @@ public abstract class TreeBuilder
    */
   protected void computeTree(ScoreModelI sm, SimilarityParamsI scoreOptions)
   {
-    distances = sm.findDistances(seqData, scoreOptions);
+
+    this.scoreModel = sm;
+    this.scoreParams = scoreOptions;
+
+    distances = scoreModel.findDistances(seqData, scoreParams);
 
     makeLeaves();