X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FPCAPanel.java;h=fe0c4f99ae1d24b972519251597ac183e6a467aa;hb=d053a3c980cf4318b9a19a255f9fc870e74de989;hp=6f199c577ad01ab239c5c6e37b9fa691b69522db;hpb=34286266321abbbab6d462c39f500650f9c860c9;p=jalview.git

diff --git a/src/jalview/gui/PCAPanel.java b/src/jalview/gui/PCAPanel.java
index 6f199c5..fe0c4f9 100755
--- a/src/jalview/gui/PCAPanel.java
+++ b/src/jalview/gui/PCAPanel.java
@@ -69,11 +69,11 @@ public class PCAPanel extends GPCAPanel implements Runnable
     seqstrings = av.getAlignmentView(av.getSelectionGroup() != null);
     if (av.getSelectionGroup() == null)
     {
-      seqs = av.alignment.getSequencesArray();
+      seqs = av.getAlignment().getSequencesArray();
     }
     else
     {
-      seqs = av.getSelectionGroup().getSequencesInOrder(av.alignment);
+      seqs = av.getSelectionGroup().getSequencesInOrder(av.getAlignment());
     }
     SeqCigar sq[] = seqstrings.getSequences();
     int length = sq[0].getWidth();