/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
import jalview.datamodel.SequenceI;
import jalview.jbgui.GPairwiseAlignPanel;
import jalview.util.MessageManager;
+import jalview.viewmodel.AlignmentViewport;
import java.awt.event.ActionEvent;
import java.util.Vector;
public class PairwiseAlignPanel extends GPairwiseAlignPanel
{
- AlignViewport av;
+ AlignmentViewport av;
Vector sequences;
* @param av
* DOCUMENT ME!
*/
- public PairwiseAlignPanel(AlignViewport av)
+ public PairwiseAlignPanel(AlignmentViewport av)
{
super();
this.av = av;
totscore = totscore + scores[i][j];
textarea.append(as.getOutput());
- seq = new Sequence(as.getAlignedSeq1().getName(), as.getAStr1(), as
- .getAlignedSeq1().getStart(), as.getAlignedSeq1().getEnd());
- sequences.add(seq);
-
- seq = new Sequence(as.getAlignedSeq2().getName(), as.getAStr2(), as
- .getAlignedSeq2().getStart(), as.getAlignedSeq2().getEnd());
- sequences.add(seq);
+ sequences.add(as.getAlignedSeq1());
+ sequences.add(as.getAlignedSeq2());
}
}