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• C45Saver.java

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weka.core.converters.C45Saver Maven / Gradle / Ivy

/*
 *   This program is free software: you can redistribute it and/or modify
 *   it under the terms of the GNU General Public License as published by
 *   the Free Software Foundation, either version 3 of the License, or
 *   (at your option) any later version.
 *
 *   This program is distributed in the hope that it will be useful,
 *   but WITHOUT ANY WARRANTY; without even the implied warranty of
 *   MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 *   GNU General Public License for more details.
 *
 *   You should have received a copy of the GNU General Public License
 *   along with this program.  If not, see .
 */

/*
 *    C45Saver.java
 *    Copyright (C) 2004-2012 University of Waikato, Hamilton, New Zealand
 *
 */

package weka.core.converters;

import java.io.File;
import java.io.IOException;
import java.io.PrintWriter;
import java.util.Collections;
import java.util.Enumeration;
import java.util.Vector;

import weka.core.Attribute;
import weka.core.Capabilities;
import weka.core.Capabilities.Capability;
import weka.core.Instance;
import weka.core.Instances;
import weka.core.Option;
import weka.core.OptionHandler;
import weka.core.RevisionUtils;
import weka.core.Utils;

/**
 *  Writes to a destination that is in the format used
 * by the C4.5 algorithm.

 * Therefore it outputs a names and a data file.
 * 

 * 
 * 
 *  Valid options are:
 * 

 * 
 * 
 * -i <the input file>
 * The input file
 * 
 * 
 * 
 * -o <the output file>
 * The output file
 * 
 * 
 * 
 * -c <the class index>
 * The class index
 * 
 * 
 * 
 * 
 * @author Stefan Mutter ([email protected])
 * @version $Revision: 10203 $
 * @see Saver
 */
public class C45Saver extends AbstractFileSaver implements BatchConverter,
  IncrementalConverter, OptionHandler {

  /** for serialization */
  static final long serialVersionUID = -821428878384253377L;

  /** Constructor */
  public C45Saver() {

    resetOptions();
  }

  /**
   * Returns a string describing this Saver
   * 
   * @return a description of the Saver suitable for displaying in the
   *         explorer/experimenter gui
   */
  public String globalInfo() {
    return "Writes to a destination that is in the format used by the C4.5 algorithm.\nTherefore it outputs a names and a data file.";
  }

  /**
   * Returns a description of the file type.
   * 
   * @return a short file description
   */
  @Override
  public String getFileDescription() {
    return "C4.5 file format";
  }

  /**
   * Resets the Saver
   */
  @Override
  public void resetOptions() {

    super.resetOptions();
    setFileExtension(".names");
  }

  /**
   * Returns the Capabilities of this saver.
   * 
   * @return the capabilities of this object
   * @see Capabilities
   */
  @Override
  public Capabilities getCapabilities() {
    Capabilities result = super.getCapabilities();

    // attributes
    result.enable(Capability.NOMINAL_ATTRIBUTES);
    result.enable(Capability.NUMERIC_ATTRIBUTES);
    result.enable(Capability.DATE_ATTRIBUTES);
    result.enable(Capability.MISSING_VALUES);

    // class
    result.enable(Capability.NOMINAL_CLASS);
    result.enable(Capability.NUMERIC_CLASS);
    result.enable(Capability.DATE_CLASS);
    result.enable(Capability.MISSING_CLASS_VALUES);

    return result;
  }

  /**
   * Saves an instances incrementally. Structure has to be set by using the
   * setStructure() method or setInstances() method.
   * 
   * @param inst the instance to save
   * @throws IOException throws IOEXception if an instance cannot be saved
   *           incrementally.
   */
  @Override
  public void writeIncremental(Instance inst) throws IOException {

    int writeMode = getWriteMode();
    Instances structure = getInstances();
    PrintWriter outW = null;

    if (structure != null) {
      if (structure.classIndex() == -1) {
        structure.setClassIndex(structure.numAttributes() - 1);
        System.err
          .println("No class specified. Last attribute is used as class attribute.");
      }
      if (structure.attribute(structure.classIndex()).isNumeric()) {
        throw new IOException(
          "To save in C4.5 format the class attribute cannot be numeric.");
      }
    }
    if (getRetrieval() == BATCH || getRetrieval() == NONE) {
      throw new IOException("Batch and incremental saving cannot be mixed.");
    }
    if (retrieveFile() == null || getWriter() == null) {
      throw new IOException(
        "C4.5 format requires two files. Therefore no output to standard out can be generated.\nPlease specifiy output files using the -o option.");
    }

    outW = new PrintWriter(getWriter());

    if (writeMode == WAIT) {
      if (structure == null) {
        setWriteMode(CANCEL);
        if (inst != null) {
          System.err
            .println("Structure(Header Information) has to be set in advance");
        }
      } else {
        setWriteMode(STRUCTURE_READY);
      }
      writeMode = getWriteMode();
    }
    if (writeMode == CANCEL) {
      if (outW != null) {
        outW.close();
      }
      cancel();
    }
    if (writeMode == STRUCTURE_READY) {
      setWriteMode(WRITE);
      // write header: here names file
      for (int i = 0; i < structure.attribute(structure.classIndex())
        .numValues(); i++) {
        outW.write(structure.attribute(structure.classIndex()).value(i));
        if (i < structure.attribute(structure.classIndex()).numValues() - 1) {
          outW.write(",");
        } else {
          outW.write(".\n");
        }
      }
      for (int i = 0; i < structure.numAttributes(); i++) {
        if (i != structure.classIndex()) {
          outW.write(structure.attribute(i).name() + ": ");
          if (structure.attribute(i).isNumeric()
            || structure.attribute(i).isDate()) {
            outW.write("continuous.\n");
          } else {
            Attribute temp = structure.attribute(i);
            for (int j = 0; j < temp.numValues(); j++) {
              outW.write(temp.value(j));
              if (j < temp.numValues() - 1) {
                outW.write(",");
              } else {
                outW.write(".\n");
              }
            }
          }
        }
      }
      outW.flush();
      outW.close();

      writeMode = getWriteMode();

      String out = retrieveFile().getAbsolutePath();
      setFileExtension(".data");
      out = out.substring(0, out.lastIndexOf('.')) + getFileExtension();
      File namesFile = new File(out);
      try {
        setFile(namesFile);
      } catch (Exception ex) {
        throw new IOException(
          "Cannot create data file, only names file created.");
      }
      if (retrieveFile() == null || getWriter() == null) {
        throw new IOException(
          "Cannot create data file, only names file created.");
      }
      outW = new PrintWriter(getWriter());
    }
    if (writeMode == WRITE) {
      if (structure == null) {
        throw new IOException("No instances information available.");
      }
      if (inst != null) {
        // write instance: here data file
        for (int j = 0; j < inst.numAttributes(); j++) {
          if (j != structure.classIndex()) {
            if (inst.isMissing(j)) {
              outW.write("?,");
            } else if (structure.attribute(j).isNominal()
              || structure.attribute(j).isString()) {
              outW.write(structure.attribute(j).value((int) inst.value(j))
                + ",");
            } else {
              outW.write("" + inst.value(j) + ",");
            }
          }
        }
        // write the class value
        if (inst.isMissing(structure.classIndex())) {
          outW.write("?");
        } else {
          outW.write(structure.attribute(structure.classIndex()).value(
            (int) inst.value(structure.classIndex())));
        }
        outW.write("\n");
        // flushes every 100 instances
        m_incrementalCounter++;
        if (m_incrementalCounter > 100) {
          m_incrementalCounter = 0;
          outW.flush();
        }
      } else {
        // close
        if (outW != null) {
          outW.flush();
          outW.close();
        }
        setFileExtension(".names");
        m_incrementalCounter = 0;
        resetStructure();
        outW = null;
        resetWriter();
      }
    }
  }

  /**
   * Writes a Batch of instances
   * 
   * @throws IOException throws IOException if saving in batch mode is not
   *           possible
   */
  @Override
  public void writeBatch() throws IOException {

    Instances instances = getInstances();

    if (instances == null) {
      throw new IOException("No instances to save");
    }
    if (instances.classIndex() == -1) {
      instances.setClassIndex(instances.numAttributes() - 1);
      System.err
        .println("No class specified. Last attribute is used as class attribute.");
    }
    if (instances.attribute(instances.classIndex()).isNumeric()) {
      throw new IOException(
        "To save in C4.5 format the class attribute cannot be numeric.");
    }
    if (getRetrieval() == INCREMENTAL) {
      throw new IOException("Batch and incremental saving cannot be mixed.");
    }

    setRetrieval(BATCH);
    if (retrieveFile() == null || getWriter() == null) {
      throw new IOException(
        "C4.5 format requires two files. Therefore no output to standard out can be generated.\nPlease specifiy output files using the -o option.");
    }
    setWriteMode(WRITE);
    // print names file
    setFileExtension(".names");
    PrintWriter outW = new PrintWriter(getWriter());
    for (int i = 0; i < instances.attribute(instances.classIndex()).numValues(); i++) {
      outW.write(instances.attribute(instances.classIndex()).value(i));
      if (i < instances.attribute(instances.classIndex()).numValues() - 1) {
        outW.write(",");
      } else {
        outW.write(".\n");
      }
    }
    for (int i = 0; i < instances.numAttributes(); i++) {
      if (i != instances.classIndex()) {
        outW.write(instances.attribute(i).name() + ": ");
        if (instances.attribute(i).isNumeric()
          || instances.attribute(i).isDate()) {
          outW.write("continuous.\n");
        } else {
          Attribute temp = instances.attribute(i);
          for (int j = 0; j < temp.numValues(); j++) {
            outW.write(temp.value(j));
            if (j < temp.numValues() - 1) {
              outW.write(",");
            } else {
              outW.write(".\n");
            }
          }
        }
      }
    }
    outW.flush();
    outW.close();

    // print data file
    String out = retrieveFile().getAbsolutePath();
    setFileExtension(".data");
    out = out.substring(0, out.lastIndexOf('.')) + getFileExtension();
    File namesFile = new File(out);
    try {
      setFile(namesFile);
    } catch (Exception ex) {
      throw new IOException(
        "Cannot create data file, only names file created (Reason: "
          + ex.toString() + ").");
    }
    if (retrieveFile() == null || getWriter() == null) {
      throw new IOException("Cannot create data file, only names file created.");
    }
    outW = new PrintWriter(getWriter());
    // print data file
    for (int i = 0; i < instances.numInstances(); i++) {
      Instance temp = instances.instance(i);
      for (int j = 0; j < temp.numAttributes(); j++) {
        if (j != instances.classIndex()) {
          if (temp.isMissing(j)) {
            outW.write("?,");
          } else if (instances.attribute(j).isNominal()
            || instances.attribute(j).isString()) {
            outW.write(instances.attribute(j).value((int) temp.value(j)) + ",");
          } else {
            outW.write("" + temp.value(j) + ",");
          }
        }
      }
      // write the class value
      if (temp.isMissing(instances.classIndex())) {
        outW.write("?");
      } else {
        outW.write(instances.attribute(instances.classIndex()).value(
          (int) temp.value(instances.classIndex())));
      }
      outW.write("\n");
    }
    outW.flush();
    outW.close();
    setFileExtension(".names");
    setWriteMode(WAIT);
    outW = null;
    resetWriter();
    setWriteMode(CANCEL);
  }

  /**
   * Returns an enumeration describing the available options.
   * 
   * @return an enumeration of all the available options.
   */
  @Override
  public Enumeration listOptions() {
    Vector result = new Vector();

    result.addElement(new Option("The class index", "c", 1,
      "-c "));

    result.addAll(Collections.list(super.listOptions()));

    return result.elements();
  }

  /**
   * Parses a given list of options.
   * 

   * 
   *  Valid options are:
   * 

   * 
   * 
   * -i <the input file>
   * The input file
   * 
   * 
   * 
   * -o <the output file>
   * The output file
   * 
   * 
   * 
   * -c <the class index>
   * The class index
   * 
   * 
   * 
   * 
   * @param options the list of options as an array of strings
   * @throws Exception if an option is not supported
   */
  @Override
  public void setOptions(String[] options) throws Exception {

    String outputString = Utils.getOption('o', options);
    String inputString = Utils.getOption('i', options);
    String indexString = Utils.getOption('c', options);

    ArffLoader loader = new ArffLoader();

    resetOptions();

    // parse index
    int index = -1;
    if (indexString.length() != 0) {
      if (indexString.equals("first")) {
        index = 0;
      } else {
        if (indexString.equals("last")) {
          index = -1;
        } else {
          index = Integer.parseInt(indexString);
        }
      }
    }

    if (inputString.length() != 0) {
      try {
        File input = new File(inputString);
        loader.setFile(input);
        Instances inst = loader.getDataSet();
        if (index == -1) {
          inst.setClassIndex(inst.numAttributes() - 1);
        } else {
          inst.setClassIndex(index);
        }
        setInstances(inst);
      } catch (Exception ex) {
        throw new IOException(
          "No data set loaded. Data set has to be arff format (Reason: "
            + ex.toString() + ").");
      }
    } else {
      throw new IOException("No data set to save.");
    }

    if (outputString.length() != 0) {
      // add appropriate file extension
      if (!outputString.endsWith(getFileExtension())) {
        if (outputString.lastIndexOf('.') != -1) {
          outputString = (outputString.substring(0,
            outputString.lastIndexOf('.')))
            + getFileExtension();
        } else {
          outputString = outputString + getFileExtension();
        }
      }
      try {
        File output = new File(outputString);
        setFile(output);
      } catch (Exception ex) {
        throw new IOException("Cannot create output file.");
      }
    }

    if (index == -1) {
      index = getInstances().numAttributes() - 1;
    }
    getInstances().setClassIndex(index);

    super.setOptions(options);

    Utils.checkForRemainingOptions(options);
  }

  /**
   * Gets the current settings of the C45Saver object.
   * 
   * @return an array of strings suitable for passing to setOptions
   */
  @Override
  public String[] getOptions() {

    Vector options = new Vector();

    if (retrieveFile() != null) {
      options.add("-o");
      options.add("" + retrieveFile());
    } else {
      options.add("-o");
      options.add("");
    }
    if (getInstances() != null) {
      options.add("-i");
      options.add("" + getInstances().relationName());
      options.add("-c");
      options.add("" + getInstances().classIndex());
    } else {
      options.add("-i");
      options.add("");
      options.add("-c");
      options.add("");
    }

    Collections.addAll(options, super.getOptions());

    return options.toArray(new String[0]);
  }

  /**
   * Returns the revision string.
   * 
   * @return the revision
   */
  @Override
  public String getRevision() {
    return RevisionUtils.extract("$Revision: 10203 $");
  }

  /**
   * Main method.
   * 
   * @param args should contain the options of a Saver.
   */
  public static void main(String[] args) {
    runFileSaver(new C45Saver(), args);
  }
}