void clearCutNodes() {
if (origTree != null) {
if (origVertex != null && origVertex.getState() == PhyloNode.CUT) {
origTree.deleteSubtree(origVertex);
origTree.removeElbowsBelow(origTree.getRoot());
setStateRecursive(origTree, (PhyloNode) origTree.getRoot(), PhyloNode.NONE);
origVertex.found = false;
origVertex = null;
origTree.modPlus();
}
}
}
public void setClip(RootedTree tree, PhyloNode node) {
setStateRecursive(tree, (PhyloNode) tree.getRoot(), PhyloNode.NONE);
RootedTree clone = tree.cloneSubtree(node);
newickString = TreeIO.createNHXString(clone);
origTree = tree;
origVertex = node;
fireEvent(CLIPBOARD_UPDATED);
}
void clearTree() {
if (origTree != null) {
setStateRecursive(origTree, (PhyloNode) origTree.getRoot(), PhyloNode.NONE);
origTree = null;
}
}