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The Waikato Environment for Knowledge Analysis (WEKA), a machine learning workbench. This is the stable version. Apart from bugfixes, this version does not receive any other updates.
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/*
 *    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 2 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, write to the Free Software
 *    Foundation, Inc., 675 Mass Ave, Cambridge, MA 02139, USA.
 */

/*
 *    Kernel.java
 *    Copyright (C) 1999 University of Waikato, Hamilton, New Zealand
 *
 */

package weka.classifiers.functions.supportVector;

import weka.core.Capabilities;
import weka.core.CapabilitiesHandler;
import weka.core.Copyable;
import weka.core.Instance;
import weka.core.Instances;
import weka.core.Option;
import weka.core.OptionHandler;
import weka.core.RevisionHandler;
import weka.core.RevisionUtils;
import weka.core.SerializedObject;
import weka.core.Utils;

import java.io.Serializable;
import java.util.Enumeration;
import java.util.Vector;

/**
 * Abstract kernel. 
 * Kernels implementing this class must respect Mercer's condition in order 
 * to ensure a correct behaviour of SMOreg.
 * 
 * @author Eibe Frank ([email protected])
 * @author FracPete (fracpete at waikato dot ac dot nz)
 * @version $Revision: 9897 $
 */
public abstract class Kernel 
  implements Serializable, OptionHandler, CapabilitiesHandler, RevisionHandler {

  /** for serialization */
  private static final long serialVersionUID = -6102771099905817064L;

  /** The dataset */
  protected Instances m_data;

  /** enables debugging output */
  protected boolean m_Debug = false;

  /** Turns off all checks */
  protected boolean m_ChecksTurnedOff = false;
  
  /**
   * Returns a string describing the kernel
   * 
   * @return a description suitable for displaying in the
   *         explorer/experimenter gui
   */
  public abstract String globalInfo();
    
  /**
   * Computes the result of the kernel function for two instances.
   * If id1 == -1, eval use inst1 instead of an instance in the dataset.
   *
   * @param id1 the index of the first instance in the dataset
   * @param id2 the index of the second instance in the dataset
   * @param inst1 the instance corresponding to id1 (used if id1 == -1)
   * @return the result of the kernel function
   * @throws Exception if something goes wrong
   */
  public abstract double eval(int id1, int id2, Instance inst1) 
    throws Exception;

  /**
   * Frees the memory used by the kernel.
   * (Useful with kernels which use cache.)
   * This function is called when the training is done.
   * i.e. after that, eval will be called with id1 == -1.
   */
  public abstract void clean();

  /**
   * Returns the number of kernel evaluation performed.
   *
   * @return the number of kernel evaluation performed.
   */
  public abstract int numEvals();

  /**
   * Returns the number of dot product cache hits.
   *
   * @return the number of dot product cache hits, or -1 if not supported by this kernel.
   */
  public abstract int numCacheHits();
    
  /**
   * Returns an enumeration describing the available options.
   *
   * @return an enumeration of all the available options.
   */
  public Enumeration listOptions() {
    Vector		result;
    
    result = new Vector();

    result.addElement(new Option(
	"\tEnables debugging output (if available) to be printed.\n"
	+ "\t(default: off)",
	"D", 0, "-D"));

    result.addElement(new Option(
	"\tTurns off all checks - use with caution!\n"
	+ "\t(default: checks on)",
	"no-checks", 0, "-no-checks"));

    return result.elements();
  }

  /**
   * Parses a given list of options. 
   * 
   * @param options the list of options as an array of strings
   * @throws Exception if an option is not supported
   */
  public void setOptions(String[] options) throws Exception {
    setDebug(Utils.getFlag('D', options));

    setChecksTurnedOff(Utils.getFlag("no-checks", options));

    Utils.checkForRemainingOptions(options);
  }

  /**
   * Gets the current settings of the Kernel.
   *
   * @return an array of strings suitable for passing to setOptions
   */
  public String[] getOptions() {
    Vector    result;

    result = new Vector();

    if (getDebug())
      result.add("-D");

    if (getChecksTurnedOff())
      result.add("-no-checks");

    return (String[]) result.toArray(new String[result.size()]);	  
  }

  /**
   * Enables or disables the output of debug information (if the derived
   * kernel supports that)
   * 
   * @param value	whether to output debugging information
   */
  public void setDebug(boolean value) {
    m_Debug = value;
  }
  
  /**
   * Gets whether debugging output is turned on or not.
   * 
   * @return		true if debugging output is produced.
   */
  public boolean getDebug() {
    return m_Debug;
  }

  /**
   * Returns the tip text for this property
   * 
   * @return 		tip text for this property suitable for
   * 			displaying in the explorer/experimenter gui
   */
  public String debugTipText() {
    return "Turns on the output of debugging information.";
  }
  
  /**
   * Disables or enables the checks (which could be time-consuming). Use with
   * caution!
   * 
   * @param value	if true turns off all checks
   */
  public void setChecksTurnedOff(boolean value) {
    m_ChecksTurnedOff = value;
  }
  
  /**
   * Returns whether the checks are turned off or not.
   * 
   * @return		true if the checks are turned off
   */
  public boolean getChecksTurnedOff() {
    return m_ChecksTurnedOff;
  }

  /**
   * Returns the tip text for this property
   * 
   * @return 		tip text for this property suitable for
   * 			displaying in the explorer/experimenter gui
   */
  public String checksTurnedOffTipText() {
    return "Turns time-consuming checks off - use with caution.";
  }
  
  /**
   * initializes variables etc.
   * 
   * @param data	the data to use
   */
  protected void initVars(Instances data) {
    m_data = data;
  }

  /** 
   * Returns the Capabilities of this kernel. Derived kernels have to
   * override this method to enable capabilities.
   *
   * @return            the capabilities of this object
   * @see               Capabilities
   */
  public Capabilities getCapabilities() {
    Capabilities result = new Capabilities(this);
    result.enableAll();
    
    return result;
  }
  
  /**
   * Returns the revision string.
   * 
   * @return            the revision
   */
  public String getRevision() {
    return RevisionUtils.extract("$Revision: 9897 $");
  }
  
  /**
   * builds the kernel with the given data
   * 
   * @param data	the data to base the kernel on
   * @throws Exception	if something goes wrong
   */
  public void buildKernel(Instances data) throws Exception {
    // does kernel handle the data?
    if (!getChecksTurnedOff())
      getCapabilities().testWithFail(data);
    
    initVars(data);
  }

  /**
   * Creates a shallow copy of the kernel (if it implements Copyable) 
   * otherwise a deep copy using serialization.
   *
   * @param kernel 	the kernel to copy
   * @return 		a shallow or deep copy of the kernel
   * @throws Exception 	if an error occurs
   */
  public static Kernel makeCopy(Kernel kernel) throws Exception {
    if (kernel instanceof Copyable) {
      return (Kernel) ((Copyable) kernel).copy();
    }
    return (Kernel) new SerializedObject(kernel).getObject();
  }

  /**
   * Creates a given number of deep or shallow (if the kernel implements Copyable) 
   * copies of the given kernel using serialization.
   * 
   * @param model 	the kernel to copy
   * @param num 	the number of kernel copies to create.
   * @return 		an array of kernels.
   * @throws Exception 	if an error occurs
   */
  public static Kernel[] makeCopies(Kernel model, int num) throws Exception {
    if (model == null)
      throw new Exception("No model kernel set");

    Kernel[] kernels = new Kernel[num];
    if (model instanceof Copyable) {
      for (int i = 0; i < kernels.length; i++) {
        kernels[i] = (Kernel) ((Copyable) model).copy();
      }
    } else {
      SerializedObject so = new SerializedObject(model);
      for (int i = 0; i < kernels.length; i++)
        kernels[i] = (Kernel) so.getObject();
    }

    return kernels;
  }
  
  /**
   * Creates a new instance of a kernel given it's class name and
   * (optional) arguments to pass to it's setOptions method.
   *
   * @param kernelName 	the fully qualified class name of the classifier
   * @param options 	an array of options suitable for passing to setOptions. May
   * 			be null.
   * @return 		the newly created classifier, ready for use.
   * @throws Exception 	if the classifier name is invalid, or the options
   * 			supplied are not acceptable to the classifier
   */
  public static Kernel forName(String kernelName, String[] options) 
    throws Exception {

    return (Kernel) Utils.forName(Kernel.class, kernelName, options);
  }
}