X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FPCAPanel.java;h=64253b41ec5850047d9ba8a70e0a8c636e660708;hb=df9b85c1cf39894039018499fe802406cc37f209;hp=e680ddeab3fcb15970cd0817878fad8521c221a2;hpb=bf2bf43c980b18a26b724d2a2d51dddc1a79a185;p=jalview.git

diff --git a/src/jalview/gui/PCAPanel.java b/src/jalview/gui/PCAPanel.java
index e680dde..64253b4 100755
--- a/src/jalview/gui/PCAPanel.java
+++ b/src/jalview/gui/PCAPanel.java
@@ -59,11 +59,11 @@ public class PCAPanel extends GPCAPanel implements Runnable
         boolean sameLength = true;
 
         if ((av.getSelectionGroup() != null) &&
-                (av.getSelectionGroup().getSize() > 3))
+                (av.getSelectionGroup().getSize(false) > 3))
         {
-            seqs = new Sequence[av.getSelectionGroup().getSize()];
+            seqs = new Sequence[av.getSelectionGroup().getSize(false)];
             int length = av.getSelectionGroup().getSequenceAt(0).getLength();
-            for (int i = 0; i < av.getSelectionGroup().getSize(); i++)
+            for (int i = 0; i < av.getSelectionGroup().getSize(false); i++)
             {
                 seqs[i] = av.getSelectionGroup().getSequenceAt(i);
                 if(seqs[i].getLength()!=length)