///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below.       //
// Copyright (C) 1998, 1999, 2000, 2001, 2002, 2003, 2004, 2005, 2006,       //
// 2007, 2008, 2009, 2010, 2014, 2015, 2022 by Peter Spirtes, Richard        //
// Scheines, Joseph Ramsey, and Clark Glymour.                               //
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package edu.cmu.tetrad.algcomparison.examples;

import edu.cmu.tetrad.algcomparison.Comparison;
import edu.cmu.tetrad.algcomparison.algorithm.Algorithms;
import edu.cmu.tetrad.algcomparison.algorithm.oracle.cpdag.Fges;
import edu.cmu.tetrad.algcomparison.score.MVPBicScore;
import edu.cmu.tetrad.algcomparison.statistic.*;
import edu.cmu.tetrad.util.Parameters;

/**
 * An example script to load in data sets and graphs from files and analyze them. The
 * files loaded must be in the same format as
 * <p>
 * new Comparison().saveDataSetAndGraphs("comparison/save1", simulation, parameters);
 * <p>
 * saves them. For other formats, specialty data loaders can be written to implement the
 * Simulation interface.
 *
 * @author josephramsey
 */
public class MVPCompareFromFiles {
    public static void main(String... args) {
        Parameters parameters = new Parameters();

        // Can leave the simulation parameters out since
        // we're loading from file here.

        parameters.set("numRuns", 3);
        parameters.set("maxDistinctValuesDiscrete", 5);

        parameters.set("structurePrior", -0.5);
        parameters.set("fDegree", -1);
        parameters.set("discretize", 0);

        parameters.set("alpha", 1e-3, 1e-4);

        Statistics statistics = new Statistics();

        statistics.add(new ParameterColumn("avgDegree"));
        statistics.add(new ParameterColumn("sampleSize"));
        statistics.add(new AdjacencyPrecision());
        statistics.add(new AdjacencyRecall());
        statistics.add(new ArrowheadPrecision());
        statistics.add(new ArrowheadRecall());
        statistics.add(new ElapsedCpuTime());

        statistics.setWeight("AP", 1.0);
        statistics.setWeight("AR", 0.5);
        statistics.setWeight("AHP", 1.0);
        statistics.setWeight("AHR", 0.5);

        Algorithms algorithms = new Algorithms();

        algorithms.add(new Fges(new MVPBicScore()));

        Comparison comparison = new Comparison();
        comparison.setShowAlgorithmIndices(true);
        comparison.setShowSimulationIndices(true);
        comparison.setSortByUtility(false);
        comparison.setShowUtilities(false);
        comparison.setComparisonGraph(Comparison.ComparisonGraph.true_DAG);

        comparison.compareFromFiles("comparison", algorithms, statistics, parameters);
    }
}




