package edu.cmu.tetrad.algcomparison.algorithm.oracle.pattern;

import edu.cmu.tetrad.algcomparison.algorithm.Algorithm;
import edu.cmu.tetrad.algcomparison.independence.IndependenceWrapper;
import edu.cmu.tetrad.algcomparison.score.ScoreWrapper;
import edu.cmu.tetrad.algcomparison.utils.HasKnowledge;
import edu.cmu.tetrad.algcomparison.utils.TakesInitialGraph;
import edu.cmu.tetrad.data.*;
import edu.cmu.tetrad.graph.EdgeListGraph;
import edu.cmu.tetrad.graph.Graph;
import edu.cmu.tetrad.search.SearchGraphUtils;
import edu.cmu.tetrad.util.Parameters;
import edu.pitt.dbmi.algo.resampling.GeneralResamplingTest;
import edu.pitt.dbmi.algo.resampling.ResamplingEdgeEnsemble;

import java.util.List;

/**
 * CPC.
 *
 * @author jdramsey
 */
public class Jcpc implements Algorithm, TakesInitialGraph, HasKnowledge {

    static final long serialVersionUID = 23L;
    private IndependenceWrapper test;
    private ScoreWrapper score;
    private Algorithm algorithm = null;
    private Graph initialGraph = null;
    private IKnowledge knowledge = new Knowledge2();

    public Jcpc(IndependenceWrapper type, ScoreWrapper score) {
        this.test = type;
        this.score = score;
    }

    public Jcpc(IndependenceWrapper type, Algorithm algorithm) {
        this.test = type;
        this.algorithm = algorithm;
    }

    @Override
    public Graph search(DataModel dataSet, Parameters parameters) {
    	if (parameters.getInt("numberResampling") < 1) {
            DataSet continuousDataSet = DataUtils.getContinuousDataSet(dataSet);
            edu.cmu.tetrad.search.Jcpc search = new edu.cmu.tetrad.search.Jcpc(
                    test.getTest(continuousDataSet, parameters),
                    score.getScore(continuousDataSet, parameters));
            search.setKnowledge(knowledge);

            return search.search();
    	}else{
    		Jcpc jcpc = new Jcpc(test, score);
    		
			if (initialGraph != null) {
				jcpc.setInitialGraph(initialGraph);
			}
			DataSet data = (DataSet) dataSet;
			GeneralResamplingTest search = new GeneralResamplingTest(data, jcpc, parameters.getInt("numberResampling"));
            search.setKnowledge(knowledge);

            search.setPercentResampleSize(parameters.getDouble("percentResampleSize"));
            search.setResamplingWithReplacement(parameters.getBoolean("resamplingWithReplacement"));
            
            ResamplingEdgeEnsemble edgeEnsemble = ResamplingEdgeEnsemble.Highest;
            switch (parameters.getInt("resamplingEnsemble", 1)) {
                case 0:
                    edgeEnsemble = ResamplingEdgeEnsemble.Preserved;
                    break;
                case 1:
                    edgeEnsemble = ResamplingEdgeEnsemble.Highest;
                    break;
                case 2:
                    edgeEnsemble = ResamplingEdgeEnsemble.Majority;
            }
			search.setEdgeEnsemble(edgeEnsemble);
			search.setAddOriginalDataset(parameters.getBoolean("addOriginalDataset"));
			
			search.setParameters(parameters);
			search.setVerbose(parameters.getBoolean("verbose"));
			return search.search();
    	}

    }

    @Override
    public Graph getComparisonGraph(Graph graph) {
        return SearchGraphUtils.patternForDag(new EdgeListGraph(graph));
    }

    @Override
    public String getDescription() {
        return "JCPC (Joe's CPC) using " + test.getDescription() + (algorithm != null ? " with initial graph from " +
        		algorithm.getDescription() : "");
    }

    @Override
    public DataType getDataType() {
        return test.getDataType();
    }

    @Override
    public List<String> getParameters() {
        List<String> parameters = test.getParameters();
        parameters.add("depth");
        // Resampling
        parameters.add("numberResampling");
        parameters.add("percentResampleSize");
        parameters.add("resamplingWithReplacement");
        parameters.add("resamplingEnsemble");
        parameters.add("addOriginalDataset");
        parameters.add("verbose");
        return parameters;
    }

    @Override
    public IKnowledge getKnowledge() {
        return knowledge;
    }

    @Override
    public void setKnowledge(IKnowledge knowledge) {
        this.knowledge = knowledge;
    }

	@Override
	public Graph getInitialGraph() {
		return initialGraph;
	}

	@Override
	public void setInitialGraph(Graph initialGraph) {
		this.initialGraph = initialGraph;
	}

    @Override
    public void setInitialGraph(Algorithm algorithm) {
        this.algorithm = algorithm;
    }

}
