Examples with IKnowledge edu.cmu.tetrad.data.IKnowledge used on opensource projects

Example 56 with IKnowledge

use of edu.cmu.tetrad.data.IKnowledge in project tetrad by cmu-phil.

the class VcpcAltRunner method execute.

// ===================PUBLIC METHODS OVERRIDING ABSTRACT================//
public void execute() {
    IKnowledge knowledge = (IKnowledge) getParams().get("knowledge", new Knowledge2());
    Parameters searchParams = getParams();
    Parameters params = searchParams;
    VcpcAlt VcpcAlt = new VcpcAlt(getIndependenceTest());
    VcpcAlt.setKnowledge(knowledge);
    VcpcAlt.setAggressivelyPreventCycles(this.isAggressivelyPreventCycles());
    VcpcAlt.setDepth(params.getInt("depth", -1));
    Graph graph = VcpcAlt.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);
}

Example 57 with IKnowledge

use of edu.cmu.tetrad.data.IKnowledge in project tetrad by cmu-phil.

the class VcpcRunner method execute.

// ===================PUBLIC METHODS OVERRIDING ABSTRACT================//
public void execute() {
    IKnowledge knowledge = (IKnowledge) getParams().get("knowledge", new Knowledge2());
    Parameters searchParams = getParams();
    Parameters params = searchParams;
    Vcpc vcpc = new Vcpc(getIndependenceTest());
    vcpc.setKnowledge(knowledge);
    vcpc.setAggressivelyPreventCycles(this.isAggressivelyPreventCycles());
    vcpc.setDepth(params.getInt("depth", -1));
    if (independenceFactsModel != null) {
        vcpc.setFacts(independenceFactsModel.getFacts());
    }
    Graph graph = vcpc.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);
    setVcpcFields(vcpc);
}

Example 58 with IKnowledge

use of edu.cmu.tetrad.data.IKnowledge in project tetrad by cmu-phil.

the class TestDagInPatternIterator method test5.

@Test
public void test5() {
    RandomUtil.getInstance().setSeed(34828384L);
    List<Node> nodes1 = new ArrayList<>();
    for (int i = 0; i < 3; i++) {
        nodes1.add(new ContinuousVariable("X" + (i + 1)));
    }
    Dag dag1 = new Dag(GraphUtils.randomGraph(nodes1, 0, 3, 30, 15, 15, false));
    Graph pattern = SearchGraphUtils.patternForDag(dag1);
    List<Node> nodes = pattern.getNodes();
    // Make random knowedge.
    int numTiers = 6;
    IKnowledge knowledge = new Knowledge2();
    for (Node node : nodes) {
        int tier = RandomUtil.getInstance().nextInt(numTiers);
        if (tier < 2)
            continue;
        knowledge.addToTier(tier, node.getName());
    }
    if (!knowledge.isViolatedBy(pattern)) {
        DagInPatternIterator iterator1 = new DagInPatternIterator(pattern);
        Graph dag0 = null;
        while (iterator1.hasNext()) {
            Graph dag = iterator1.next();
            if (!knowledge.isViolatedBy(dag)) {
                dag0 = dag;
            }
        }
        if (dag0 == null) {
            fail("Inconsistent knowledge.");
        }
    }
    if (!knowledge.isViolatedBy(pattern)) {
        DagInPatternIterator iterator2 = new DagInPatternIterator(pattern, knowledge);
        while (iterator2.hasNext()) {
            Graph dag = iterator2.next();
            if (knowledge.isViolatedBy(dag)) {
                throw new IllegalArgumentException("Knowledge violated");
            }
        }
    }
    DagInPatternIterator iterator3 = new DagInPatternIterator(pattern);
    int count = 0;
    while (iterator3.hasNext()) {
        iterator3.next();
        count++;
    }
    assertEquals(6, count);
}