JAL-1632 JAL-2416 load score matrices from file, as float[][]

[jalview.git] / src / jalview / viewmodel / PCAModel.java

diff --git a/src/jalview/viewmodel/PCAModel.java b/src/jalview/viewmodel/PCAModel.java
index b0af302..9383166 100644 (file)
--- a/src/jalview/viewmodel/PCAModel.java
+++ b/src/jalview/viewmodel/PCAModel.java
@@ -37,7 +37,7 @@ public class PCAModel
     seqstrings = seqstrings2;
     seqs = seqs2;
     nucleotide = nucleotide2;
-    score_matrix = nucleotide2 ? "PID" : "BLOSUM62";
+    score_matrix = nucleotide2 ? "DNA" : "BLOSUM62";
   }
 
   private volatile PCA pca;
@@ -148,7 +148,7 @@ public class PCAModel
 
     for (int i = 0; i < pca.getM().rows; i++)
     {
-      ((SequencePoint) points.elementAt(i)).coord = scores[i];
+      points.elementAt(i).coord = scores[i];
     }
   }