private boolean isUndirected(Graph graph, Node x, Node y) {
List<Edge> edges = graph.getEdges(x, y);
if (edges.size() == 1) {
Edge edge = graph.getEdge(x, y);
return Edges.isUndirectedEdge(edge);
}
return false;
}
/** Get all nodes that are connected to Y by an undirected edge and not adjacent to X. */
private static List<Node> getTNeighbors(Node x, Node y, Graph graph) {
List<Edge> yEdges = graph.getEdges(y);
List<Node> tNeighbors = new ArrayList<Node>();
for (Edge edge : yEdges) {
if (!Edges.isUndirectedEdge(edge)) {
continue;
}
Node z = edge.getDistalNode(y);
if (graph.isAdjacentTo(z, x)) {
continue;
}
tNeighbors.add(z);
}
return tNeighbors;
}
/**
* Find all nodes that are connected to Y by an undirected edge that are adjacent to X (that is,
* by undirected or directed edge).
*/
private static List<Node> getNaYX(Node x, Node y, Graph graph) {
List<Edge> yEdges = graph.getEdges(y);
List<Node> nayx = new ArrayList<Node>();
for (Edge edge : yEdges) {
if (!Edges.isUndirectedEdge(edge)) {
continue;
}
Node z = edge.getDistalNode(y);
if (!graph.isAdjacentTo(z, x)) {
continue;
}
nayx.add(z);
}
return nayx;
}
private Graph pickDag(Graph graph) {
SearchGraphUtils.basicPattern(graph, false);
addRequiredEdges(graph);
boolean containsUndirected;
do {
containsUndirected = false;
for (Edge edge : graph.getEdges()) {
if (Edges.isUndirectedEdge(edge)) {
containsUndirected = true;
graph.removeEdge(edge);
Edge _edge = Edges.directedEdge(edge.getNode1(), edge.getNode2());
graph.addEdge(_edge);
}
}
meekOrient(graph, getKnowledge());
} while (containsUndirected);
return graph;
}
/** Do an actual deletion (Definition 13 from Chickering, 2002). */
private void delete(Node x, Node y, List<Node> subset, Graph graph, double bump) {
Edge trueEdge = null;
if (trueGraph != null) {
Node _x = trueGraph.getNode(x.getName());
Node _y = trueGraph.getNode(y.getName());
trueEdge = trueGraph.getEdge(_x, _y);
}
if (log && verbose) {
Edge oldEdge = graph.getEdge(x, y);
String label = trueGraph != null && trueEdge != null ? "*" : "";
TetradLogger.getInstance()
.log(
"deletedEdges",
(graph.getNumEdges() - 1)
+ ". DELETE "
+ oldEdge
+ " "
+ subset
+ " ("
+ bump
+ ") "
+ label);
out.println(
(graph.getNumEdges() - 1)
+ ". DELETE "
+ oldEdge
+ " "
+ subset
+ " ("
+ bump
+ ") "
+ label);
} else {
int numEdges = graph.getNumEdges() - 1;
if (numEdges % 50 == 0) out.println(numEdges);
}
graph.removeEdge(x, y);
for (Node h : subset) {
Edge oldEdge = graph.getEdge(y, h);
graph.removeEdge(y, h);
graph.addDirectedEdge(y, h);
if (log) {
TetradLogger.getInstance()
.log("directedEdges", "--- Directing " + oldEdge + " to " + graph.getEdge(y, h));
}
if (verbose) {
out.println("--- Directing " + oldEdge + " to " + graph.getEdge(y, h));
}
if (Edges.isUndirectedEdge(graph.getEdge(x, h))) {
if (!graph.isAdjacentTo(x, h))
throw new IllegalArgumentException("Not adjacent: " + x + ", " + h);
oldEdge = graph.getEdge(x, h);
graph.removeEdge(x, h);
graph.addDirectedEdge(x, h);
if (log) {
TetradLogger.getInstance()
.log("directedEdges", "--- Directing " + oldEdge + " to " + graph.getEdge(x, h));
}
if (verbose) {
out.println("--- Directing " + oldEdge + " to " + graph.getEdge(x, h));
}
}
}
}