private void calculateArrowsForward(Node x, Node y, Graph graph) {
clearArrow(x, y);
if (!knowledgeEmpty()) {
if (getKnowledge().isForbidden(x.getName(), y.getName())) {
return;
}
}
List<Node> naYX = getNaYX(x, y, graph);
List<Node> t = getTNeighbors(x, y, graph);
DepthChoiceGenerator gen = new DepthChoiceGenerator(t.size(), t.size());
int[] choice;
while ((choice = gen.next()) != null) {
List<Node> s = GraphUtils.asList(choice, t);
if (!knowledgeEmpty()) {
if (!validSetByKnowledge(y, s)) {
continue;
}
}
double bump = insertEval(x, y, s, naYX, graph);
if (bump > 0.0) {
Arrow arrow = new Arrow(bump, x, y, s, naYX);
sortedArrows.add(arrow);
addLookupArrow(x, y, arrow);
}
}
}
private void ruleR1(Graph skeleton, Graph graph, List<Node> nodes) {
for (Node node : nodes) {
SortedMap<Double, String> scoreReports = new TreeMap<Double, String>();
List<Node> adj = skeleton.getAdjacentNodes(node);
DepthChoiceGenerator gen = new DepthChoiceGenerator(adj.size(), adj.size());
int[] choice;
double maxScore = Double.NEGATIVE_INFINITY;
List<Node> parents = null;
while ((choice = gen.next()) != null) {
List<Node> _parents = GraphUtils.asList(choice, adj);
double score = score(node, _parents);
scoreReports.put(-score, _parents.toString());
if (score > maxScore) {
maxScore = score;
parents = _parents;
}
}
for (double score : scoreReports.keySet()) {
TetradLogger.getInstance()
.log(
"score",
"For " + node + " parents = " + scoreReports.get(score) + " score = " + -score);
}
TetradLogger.getInstance().log("score", "");
if (parents == null) {
continue;
}
if (normal(node, parents)) continue;
for (Node _node : adj) {
if (parents.contains(_node)) {
Edge parentEdge = Edges.directedEdge(_node, node);
if (!graph.containsEdge(parentEdge)) {
graph.addEdge(parentEdge);
}
}
}
}
}
// Invalid if then nodes or graph changes.
private void calculateArrowsBackward(Node x, Node y, Graph graph) {
if (x == y) {
return;
}
if (!graph.isAdjacentTo(x, y)) {
return;
}
if (!knowledgeEmpty()) {
if (!getKnowledge().noEdgeRequired(x.getName(), y.getName())) {
return;
}
}
List<Node> naYX = getNaYX(x, y, graph);
clearArrow(x, y);
List<Node> _naYX = new ArrayList<Node>(naYX);
DepthChoiceGenerator gen = new DepthChoiceGenerator(_naYX.size(), _naYX.size());
int[] choice;
while ((choice = gen.next()) != null) {
List<Node> H = GraphUtils.asList(choice, _naYX);
if (!knowledgeEmpty()) {
if (!validSetByKnowledge(y, H)) {
continue;
}
}
double bump = deleteEval(x, y, H, naYX, graph);
if (bump > 0.0) {
Arrow arrow = new Arrow(bump, x, y, H, naYX);
sortedArrows.add(arrow);
addLookupArrow(x, y, arrow);
}
}
}
private void resolveOneEdgeMax(Graph graph, Node x, Node y, boolean strong, Graph oldGraph) {
if (RandomUtil.getInstance().nextDouble() > 0.5) {
Node temp = x;
x = y;
y = temp;
}
TetradLogger.getInstance().log("info", "\nEDGE " + x + " --- " + y);
SortedMap<Double, String> scoreReports = new TreeMap<Double, String>();
List<Node> neighborsx = graph.getAdjacentNodes(x);
neighborsx.remove(y);
double max = Double.NEGATIVE_INFINITY;
boolean left = false;
boolean right = false;
DepthChoiceGenerator genx = new DepthChoiceGenerator(neighborsx.size(), neighborsx.size());
int[] choicex;
while ((choicex = genx.next()) != null) {
List<Node> condxMinus = GraphUtils.asList(choicex, neighborsx);
List<Node> condxPlus = new ArrayList<Node>(condxMinus);
condxPlus.add(y);
double xPlus = score(x, condxPlus);
double xMinus = score(x, condxMinus);
List<Node> neighborsy = graph.getAdjacentNodes(y);
neighborsy.remove(x);
DepthChoiceGenerator geny = new DepthChoiceGenerator(neighborsy.size(), neighborsy.size());
int[] choicey;
while ((choicey = geny.next()) != null) {
List<Node> condyMinus = GraphUtils.asList(choicey, neighborsy);
// List<Node> parentsY = oldGraph.getParents(y);
// parentsY.remove(x);
// if (!condyMinus.containsAll(parentsY)) {
// continue;
// }
List<Node> condyPlus = new ArrayList<Node>(condyMinus);
condyPlus.add(x);
double yPlus = score(y, condyPlus);
double yMinus = score(y, condyMinus);
// Checking them all at once is expensive but avoids lexical ordering problems in the
// algorithm.
if (normal(y, condyPlus)
|| normal(x, condxMinus)
|| normal(x, condxPlus)
|| normal(y, condyMinus)) {
continue;
}
double delta = 0.0;
if (strong) {
if (yPlus <= xPlus + delta && xMinus <= yMinus + delta) {
double score = combinedScore(xPlus, yMinus);
if (yPlus <= yMinus + delta && xMinus <= xPlus + delta) {
StringBuilder builder = new StringBuilder();
builder.append("\nStrong " + y + "->" + x + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
if (score > max) {
max = score;
left = true;
right = false;
}
} else {
StringBuilder builder = new StringBuilder();
builder.append("\nNo directed edge " + x + "--" + y + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
}
} else if (xPlus <= yPlus + delta && yMinus <= xMinus + delta) {
double score = combinedScore(yPlus, xMinus);
if (yMinus <= yPlus + delta && xPlus <= xMinus + delta) {
StringBuilder builder = new StringBuilder();
builder.append("\nStrong " + x + "->" + y + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
if (score > max) {
max = score;
left = false;
right = true;
}
} else {
StringBuilder builder = new StringBuilder();
builder.append("\nNo directed edge " + x + "--" + y + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
}
} else if (yPlus <= xPlus + delta && yMinus <= xMinus + delta) {
double score = combinedScore(yPlus, xMinus);
StringBuilder builder = new StringBuilder();
builder.append("\nNo directed edge " + x + "--" + y + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
} else if (xPlus <= yPlus + delta && xMinus <= yMinus + delta) {
double score = combinedScore(yPlus, xMinus);
StringBuilder builder = new StringBuilder();
builder.append("\nNo directed edge " + x + "--" + y + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
}
} else {
if (yPlus <= xPlus + delta && xMinus <= yMinus + delta) {
double score = combinedScore(xPlus, yMinus);
StringBuilder builder = new StringBuilder();
builder.append("\nWeak " + y + "->" + x + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
if (score > max) {
max = score;
left = true;
right = false;
}
} else if (xPlus <= yPlus + delta && yMinus <= xMinus + delta) {
double score = combinedScore(yPlus, xMinus);
StringBuilder builder = new StringBuilder();
builder.append("\nWeak " + x + "->" + y + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
if (score > max) {
max = score;
left = false;
right = true;
}
} else if (yPlus <= xPlus + delta && yMinus <= xMinus + delta) {
double score = combinedScore(yPlus, xMinus);
StringBuilder builder = new StringBuilder();
builder.append("\nNo directed edge " + x + "--" + y + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
} else if (xPlus <= yPlus + delta && xMinus <= yMinus + delta) {
double score = combinedScore(yPlus, xMinus);
StringBuilder builder = new StringBuilder();
builder.append("\nNo directed edge " + x + "--" + y + " " + score);
builder.append("\n Parents(" + x + ") = " + condxMinus);
builder.append("\n Parents(" + y + ") = " + condyMinus);
scoreReports.put(-score, builder.toString());
}
}
}
}
for (double score : scoreReports.keySet()) {
TetradLogger.getInstance().log("info", scoreReports.get(score));
}
graph.removeEdges(x, y);
if (left) {
graph.addDirectedEdge(y, x);
}
if (right) {
graph.addDirectedEdge(x, y);
}
if (!graph.isAdjacentTo(x, y)) {
graph.addUndirectedEdge(x, y);
}
}