/**
* Executes the algorithm, producing (at least) a result workbench. Must be implemented in the
* extending class.
*/
public void execute() {
IKnowledge knowledge = getParams().getKnowledge();
SearchParams searchParams = getParams();
FciIndTestParams indTestParams = (FciIndTestParams) searchParams.getIndTestParams();
// Cfci fciSearch =
// new Cfci(getIndependenceTest(), knowledge);
// fciSearch.setMaxIndegree(indTestParams.depth());
// Graph graph = fciSearch.search();
//
// if (knowledge.isDefaultToKnowledgeLayout()) {
// SearchGraphUtils.arrangeByKnowledgeTiers(graph, knowledge);
// }
//
// setResultGraph(graph);
Graph graph;
if (indTestParams.isRFCI_Used()) {
Rfci fci = new Rfci(getIndependenceTest());
fci.setKnowledge(knowledge);
fci.setCompleteRuleSetUsed(indTestParams.isCompleteRuleSetUsed());
fci.setMaxPathLength(indTestParams.getMaxReachablePathLength());
fci.setDepth(indTestParams.getDepth());
graph = fci.search();
} else {
Fci fci = new Fci(getIndependenceTest());
fci.setKnowledge(knowledge);
fci.setCompleteRuleSetUsed(indTestParams.isCompleteRuleSetUsed());
fci.setPossibleDsepSearchDone(indTestParams.isPossibleDsepDone());
fci.setMaxPathLength(indTestParams.getMaxReachablePathLength());
fci.setDepth(indTestParams.getDepth());
graph = fci.search();
}
if (getSourceGraph() != null) {
GraphUtils.arrangeBySourceGraph(graph, getSourceGraph());
} else if (knowledge.isDefaultToKnowledgeLayout()) {
SearchGraphUtils.arrangeByKnowledgeTiers(graph, knowledge);
} else {
GraphUtils.circleLayout(graph, 200, 200, 150);
}
setResultGraph(graph);
}
public void rtestDSeparation4() {
Graph graph = new Dag(GraphUtils.randomGraph(100, 20, 100, 5, 5, 5, false));
long start, stop;
int depth = -1;
IndependenceTest test = new IndTestDSep(graph);
Rfci fci = new Rfci(test);
Fas fas = new Fas(test);
start = System.currentTimeMillis();
fci.setDepth(depth);
fci.setVerbose(true);
fci.search(fas, fas.getNodes());
stop = System.currentTimeMillis();
System.out.println("DSEP RFCI");
System.out.println("# dsep checks = " + fas.getNumIndependenceTests());
System.out.println("Elapsed " + (stop - start));
System.out.println("Per " + fas.getNumIndependenceTests() / (double) (stop - start));
SemPm pm = new SemPm(graph);
SemIm im = new SemIm(pm);
DataSet data = im.simulateData(1000, false);
IndependenceTest test2 = new IndTestFisherZ(data, 0.001);
Rfci fci3 = new Rfci(test2);
Fas fas2 = new Fas(test2);
start = System.currentTimeMillis();
fci3.setDepth(depth);
fci3.search(fas2, fas2.getNodes());
stop = System.currentTimeMillis();
System.out.println("FISHER Z RFCI");
System.out.println("# indep checks = " + fas.getNumIndependenceTests());
System.out.println("Elapsed " + (stop - start));
System.out.println("Per " + fas.getNumIndependenceTests() / (double) (stop - start));
}
