import jalview.api.analysis.ScoreModelI;
import jalview.api.analysis.SimilarityParamsI;
-import jalview.datamodel.SequenceNode;
+import jalview.datamodel.BinaryNode;
import jalview.viewmodel.AlignmentViewport;
/**
* {@inheritDoc}
*/
@Override
- protected void findNewDistances(SequenceNode nodei, SequenceNode nodej,
+ protected void findNewDistances(BinaryNode nodei, BinaryNode nodej,
double dist)
{
double ih = 0;
double jh = 0;
- SequenceNode sni = nodei;
- SequenceNode snj = nodej;
+ BinaryNode sni = nodei;
+ BinaryNode snj = nodej;
while (sni != null)
{
ih = ih + sni.dist;
- sni = (SequenceNode) sni.left();
+ sni = (BinaryNode) sni.left();
}
while (snj != null)
{
jh = jh + snj.dist;
- snj = (SequenceNode) snj.left();
+ snj = (BinaryNode) snj.left();
}
nodei.dist = ((dist / 2) - ih);