*/
package jalview.datamodel;
-import java.awt.Color;
-
/**
* DOCUMENT ME!
*
*/
public class SequenceNode extends BinaryNode
{
- /** DOCUMENT ME!! */
- public double dist;
-
- /** DOCUMENT ME!! */
- public int count;
-
- /** DOCUMENT ME!! */
- public double height;
-
- /** DOCUMENT ME!! */
- public float ycount;
-
- /** DOCUMENT ME!! */
- public Color color = Color.black;
-
- /** DOCUMENT ME!! */
- public boolean dummy = false;
-
private boolean placeholder = false;
/**
* @param name
* DOCUMENT ME!
*/
- public SequenceNode(Object val, SequenceNode parent, double dist,
+ public SequenceNode(Object val, BinaryNode parent, double dist,
String name)
{
super(val, parent, name);
* @param dummy
* DOCUMENT ME!
*/
- public SequenceNode(Object val, SequenceNode parent, String name,
+ public SequenceNode(Object val, BinaryNode parent, String name,
double dist, int bootstrap, boolean dummy)
{
super(val, parent, name);
}
/**
- * ascends the tree but doesn't stop until a non-dummy node is discovered.
- * This will probably break if the tree is a mixture of BinaryNodes and
- * SequenceNodes.
- */
- public SequenceNode AscendTree()
- {
- SequenceNode c = this;
-
- do
- {
- c = (SequenceNode) c.parent();
- } while ((c != null) && c.dummy);
-
- return c;
- }
-
- /**
* test if this node has a name that might be a label rather than a bootstrap
* value
*