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

Example 51 with IKnowledge

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

the class TsFciRunner2 method execute.

// =================PUBLIC METHODS OVERRIDING ABSTRACT=================//
/**
 * Executes the algorithm, producing (at least) a result workbench. Must be
 * implemented in the extending class.
 */
public void execute() {
    IKnowledge knowledge = (IKnowledge) getParams().get("knowledge", new Knowledge2());
    Parameters searchParams = getParams();
    Parameters params = searchParams;
    Graph graph;
    IndependenceTest independenceTest = getIndependenceTest();
    Score score = new ScoredIndTest(independenceTest);
    if (independenceTest instanceof IndTestDSep) {
        final DagToPag dagToPag = new DagToPag(((IndTestDSep) independenceTest).getGraph());
        dagToPag.setCompleteRuleSetUsed(params.getBoolean("completeRuleSetUsed", false));
        graph = dagToPag.convert();
    } else {
        GFci fci = new GFci(independenceTest, score);
        fci.setKnowledge(knowledge);
        fci.setCompleteRuleSetUsed(params.getBoolean("completeRuleSetUsed", false));
        fci.setMaxPathLength(params.getInt("maxReachablePathLength", -1));
        fci.setMaxDegree(params.getInt("maxIndegree"));
        fci.setCompleteRuleSetUsed(false);
        fci.setFaithfulnessAssumed(params.getBoolean("faithfulnessAssumed", true));
        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);
}

Example 52 with IKnowledge

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

the class SampleVcpcFastRunner method execute.

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

Example 53 with IKnowledge

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

the class PcdRunner method execute.

// ===================PUBLIC METHODS OVERRIDING ABSTRACT================//
public void execute() {
    IKnowledge knowledge = (IKnowledge) getParams().get("knowledge", new Knowledge2());
    Parameters searchParams = getParams();
    Parameters params = searchParams;
    Pcd pc = new Pcd(getIndependenceTest());
    pc.setKnowledge(knowledge);
    pc.setDepth(params.getInt("depth", -1));
    Graph graph;
    try {
        graph = pc.search();
    } catch (UnsupportedOperationException e) {
        e.printStackTrace();
        JOptionPane.showMessageDialog(JOptionUtils.centeringComp(), "There was an error, probably because the " + "independence test doesn't support determinististic checks.");
        return;
    }
    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 54 with IKnowledge

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

the class MbfsPatternRunner method execute.

// ===================PUBLIC METHODS OVERRIDING ABSTRACT================//
public void execute() {
    IKnowledge knowledge = (IKnowledge) getParams().get("knowledge", new Knowledge2());
    Mbfs search = new Mbfs(getIndependenceTest(), -1);
    search.setDepth(getParams().getInt("depth", -1));
    // search.setTrueGraph(trueGraph);
    Graph graph = search.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 55 with IKnowledge

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

the class PcLocalRunner method execute.

// ===================PUBLIC METHODS OVERRIDING ABSTRACT================//
public void execute() {
    IKnowledge knowledge = (IKnowledge) getParams().get("knowledge", new Knowledge2());
    IndependenceTest independenceTest = getIndependenceTest();
    Parameters testParams = getParams();
    PcLocal search = new PcLocal(independenceTest);
    search.setAggressivelyPreventCycles(isAggressivelyPreventCycles());
    search.setKnowledge(knowledge);
    Graph graph = search.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);
}