X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fanalysis%2FPCA.java;h=1cf21fd9f385ef5b03cf325a34ad424f0dced6bc;hb=2cc3a62e1ae63428db854af668e963f1b23af553;hp=d11d322af83ebecc2231b31fc04565fa6352e88c;hpb=11ec9d4540710b65b82b8b901de07b441c130887;p=jalview.git

diff --git a/src/jalview/analysis/PCA.java b/src/jalview/analysis/PCA.java
index d11d322..1cf21fd 100755
--- a/src/jalview/analysis/PCA.java
+++ b/src/jalview/analysis/PCA.java
@@ -23,6 +23,7 @@ package jalview.analysis;
 import jalview.api.analysis.ScoreModelI;
 import jalview.api.analysis.SimilarityParamsI;
 import jalview.datamodel.AlignmentView;
+import jalview.datamodel.Point;
 import jalview.math.MatrixI;
 
 import java.io.PrintStream;
@@ -92,15 +93,16 @@ public class PCA implements Runnable
    * 
    * @return DOCUMENT ME!
    */
-  public float[][] getComponents(int l, int n, int mm, float factor)
+  public Point[] getComponents(int l, int n, int mm, float factor)
   {
-    float[][] out = new float[getHeight()][3];
+    Point[] out = new Point[getHeight()];
 
     for (int i = 0; i < getHeight(); i++)
     {
-      out[i][0] = (float) component(i, l) * factor;
-      out[i][1] = (float) component(i, n) * factor;
-      out[i][2] = (float) component(i, mm) * factor;
+      float x = (float) component(i, l) * factor;
+      float y = (float) component(i, n) * factor;
+      float z = (float) component(i, mm) * factor;
+      out[i] = new Point(x, y, z);
     }
 
     return out;
@@ -214,7 +216,7 @@ public class PCA implements Runnable
   }
 
   /**
-   * Returns a PrintStream that wraps (sends its output to) the given
+   * Returns a PrintStream that wraps (appends its output to) the given
    * StringBuilder
    * 
    * @param sb