public static final String PLACEHOLDER = " * ";
NJTree tree;
JScrollPane scrollPane;
+ TreePanel tp;
AlignViewport av;
AlignmentPanel ap;
Font font;
* @param scroller DOCUMENT ME!
* @param label DOCUMENT ME!
*/
- public TreeCanvas(AlignmentPanel ap, JScrollPane scroller)
+ public TreeCanvas(TreePanel tp,
+ AlignmentPanel ap,
+ JScrollPane scroller)
{
+ this.tp = tp;
this.av = ap.av;
this.ap = ap;
font = av.getFont();
scrollPane = scroller;
addMouseListener(this);
addMouseMotionListener(this);
- PaintRefresher.Register(this, ap.av.getSequenceSetId());
ToolTipManager.sharedInstance().registerComponent(this);
}
SequenceGroup selected = av.getSelectionGroup();
if ( (selected != null) &&
- selected.getSequences(false).contains( (SequenceI) node.element()))
+ selected.getSequences(null).contains( (SequenceI) node.element()))
{
g.setColor(Color.gray);
}
}
- PaintRefresher.Refresh(this, av.getSequenceSetId());
+ PaintRefresher.Refresh(tp, av.getSequenceSetId());
repaint();
}
}
if (ob instanceof SequenceI)
{
treeSelectionChanged( (Sequence) ob);
- PaintRefresher.Refresh(this, ap.av.getSequenceSetId());
+ PaintRefresher.Refresh(tp, ap.av.getSequenceSetId());
repaint();
return;
}
colourGroups();
}
- PaintRefresher.Refresh(this, ap.av.getSequenceSetId());
+ PaintRefresher.Refresh(tp, ap.av.getSequenceSetId());
repaint();
}
}
SequenceGroup sg = new SequenceGroup(sequences,
- "TreeGroup", cs, true, true, false,
+ null, cs, true, true, false,
0,
av.alignment.getWidth() - 1);
+ sg.setName("JTreeGroup:"+sg.hashCode());
+
AlignmentPanel[] aps = getAssociatedPanels();
for (int a = 0; a < aps.length; a++)
{
{
Conservation c = new Conservation("Group",
ResidueProperties.propHash, 3,
- sg.getSequences(false),
+ sg.getSequences(null),
sg.getStartRes(), sg.getEndRes());
c.calculate();