-protected void makeReferenceSeq_actionPerformed(ActionEvent actionEvent)
-{
- if (!ap.av.getAlignment().hasSeqrep())
- {
- // initialise the display flags so the user sees something happen
- ap.av.setDisplayReferenceSeq(true);
- ap.av.setColourByReferenceSeq(true);
- ap.av.getAlignment().setSeqrep(sequence);
- }
- else