libvtk6-dev 6.3.0+dfsg1-5 / usr / include / vtk-6.3 / vtkKMeansStatistics.h

/*=========================================================================

Program:   Visualization Toolkit
Module:    vtkKMeansStatistics.h

Copyright (c) Ken Martin, Will Schroeder, Bill Lorensen
All rights reserved.
See Copyright.txt or http://www.kitware.com/Copyright.htm for details.

This software is distributed WITHOUT ANY WARRANTY; without even
the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
PURPOSE.  See the above copyright notice for more information.

=========================================================================*/
/*-------------------------------------------------------------------------
  Copyright 2010 Sandia Corporation.
  Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
  the U.S. Government retains certain rights in this software.
  -------------------------------------------------------------------------*/
// .NAME vtkKMeansStatistics - A class for KMeans clustering
//
// .SECTION Description
// This class takes as input an optional vtkTable on port LEARN_PARAMETERS
// specifying initial  set(s) of cluster values of the following form:
// <pre>
//           K     | Col1            |  ...    | ColN
//      -----------+-----------------+---------+---------------
//           M     |clustCoord(1, 1) |  ...    | clustCoord(1, N)
//           M     |clustCoord(2, 1) |  ...    | clustCoord(2, N)
//           .     |       .         |   .     |        .
//           .     |       .         |   .     |        .
//           .     |       .         |   .     |        .
//           M     |clustCoord(M, 1) |  ...    | clustCoord(M, N)
//           L     |clustCoord(1, 1) |  ...    | clustCoord(1, N)
//           L     |clustCoord(2, 1) |  ...    | clustCoord(2, N)
//           .     |       .         |   .     |        .
//           .     |       .         |   .     |        .
//           .     |       .         |   .     |        .
//           L     |clustCoord(L, 1) |  ...    | clustCoord(L, N)
// </pre>
//
// Because the desired value of K is often not known in advance and the
// results of the algorithm are dependent on the initial cluster centers,
// we provide a mechanism for the user to test multiple runs or sets of cluster centers
// within a single call to the Learn phase.  The first column of the table identifies
// the number of clusters K in the particular run (the entries in this column should be
// of type vtkIdType), while the remaining columns are a
// subset of the columns contained in the table on port INPUT_DATA.  We require that
// all user specified clusters be of the same dimension N and consequently, that the
// LEARN_PARAMETERS table have N+1 columns. Due to this restriction, only one request
// can be processed for each call to the Learn phase and subsequent requests are
// silently ignored. Note that, if the first column of the LEARN_PARAMETERS table is not
// of type vtkIdType, then the table will be ignored and a single run will be performed using
// the first DefaultNumberOfClusters input data observations as initial cluster centers.
//
// When the user does not supply an initial set of clusters, then the first
// DefaultNumberOfClusters input data observations are used as initial cluster
// centers and a single run is performed.
//
//
// This class provides the following functionalities, depending on the operation
// in which it is executed:
// * Learn: calculates new cluster centers for each run.  The output metadata on
//   port OUTPUT_MODEL is a multiblock dataset containing at a minimum
//   one vtkTable with columns specifying the following for each run:
//   the run ID, number of clusters, number of iterations required for convergence,
//   total error associated with the cluster (sum of squared Euclidean distance from each observation
//   to its nearest cluster center), the cardinality of the cluster, and the new
//   cluster coordinates.
//
// * Derive:  An additional vtkTable is stored in the multiblock dataset output on port OUTPUT_MODEL.
//   This table contains columns that store for each run: the runID, number of clusters,
//   total error for all clusters in the run, local rank, and global rank.
//   The local rank is computed by comparing squared Euclidean errors of all runs with
//   the same number of clusters.  The global rank is computed analagously across all runs.
//
// * Assess: This requires a multiblock dataset (as computed from Learn and Derive) on input port INPUT_MODEL
//   and tabular data on input port INPUT_DATA that contains column names matching those
//   of the tables on input port INPUT_MODEL. The assess mode reports the closest cluster center
//   and associated squared Euclidean distance of each observation in port INPUT_DATA's table to the cluster centers for
//   each run in the multiblock dataset provided on port INPUT_MODEL.
//
// The code can handle a wide variety of data types as it operates on vtkAbstractArrays
// and is not limited to vtkDataArrays.  A default distance functor that
// computes the sum of the squares of the Euclidean distance between two objects is provided
// (vtkKMeansDistanceFunctor). The default distance functor can be overridden to use alternative distance metrics.
//
// .SECTION Thanks
// Thanks to Janine Bennett, David Thompson, and Philippe Pebay of
// Sandia National Laboratories for implementing this class.
// Updated by Philippe Pebay, Kitware SAS 2012

#ifndef vtkKMeansStatistics_h
#define vtkKMeansStatistics_h

#include "vtkFiltersStatisticsModule.h" // For export macro
#include "vtkStatisticsAlgorithm.h"

class vtkIdTypeArray;
class vtkIntArray;
class vtkDoubleArray;
class vtkKMeansDistanceFunctor;
class vtkMultiBlockDataSet;

class VTKFILTERSSTATISTICS_EXPORT vtkKMeansStatistics : public vtkStatisticsAlgorithm
{
public:
  vtkTypeMacro(vtkKMeansStatistics, vtkStatisticsAlgorithm);
  virtual void PrintSelf( ostream& os, vtkIndent indent );
  static vtkKMeansStatistics* New();

  // Description:
  // Set the DistanceFunctor.
  virtual void SetDistanceFunctor( vtkKMeansDistanceFunctor* );
  vtkGetObjectMacro(DistanceFunctor,vtkKMeansDistanceFunctor);

  // Description:
  // Set/get the \a DefaultNumberOfClusters, used when no initial cluster coordinates are specified.
  vtkSetMacro(DefaultNumberOfClusters, int);
  vtkGetMacro(DefaultNumberOfClusters, int);

  // Description:
  // Set/get the KValuesArrayName.
  vtkSetStringMacro(KValuesArrayName);
  vtkGetStringMacro(KValuesArrayName);

  // Description:
  // Set/get the MaxNumIterations used to terminate iterations on
  // cluster center coordinates when the relative tolerance can not be met.
  vtkSetMacro( MaxNumIterations, int );
  vtkGetMacro( MaxNumIterations, int );

  // Description:
  // Set/get the relative \a Tolerance used to terminate iterations on
  // cluster center coordinates.
  vtkSetMacro( Tolerance, double );
  vtkGetMacro( Tolerance, double );

  // Description:
  // Given a collection of models, calculate aggregate model
  // NB: not implemented
  virtual void Aggregate( vtkDataObjectCollection*,
                          vtkMultiBlockDataSet* ) { return; };

  //BTX
  // Description:
  // A convenience method for setting properties by name.
  virtual bool SetParameter(
    const char* parameter, int index, vtkVariant value );
  //ETX

protected:
  vtkKMeansStatistics();
  ~vtkKMeansStatistics();

  // Description:
  // Execute the calculations required by the Learn option.
  virtual void Learn( vtkTable*,
                      vtkTable*,
                      vtkMultiBlockDataSet* );

  // Description:
  // Execute the calculations required by the Derive option.
  virtual void Derive( vtkMultiBlockDataSet* );

  // Description:
  // Execute the calculations required by the Assess option.
  virtual void Assess( vtkTable*,
                       vtkMultiBlockDataSet*,
                       vtkTable* );

  // Description:
  // Execute the calculations required by the Test option.
  virtual void Test( vtkTable*,
                     vtkMultiBlockDataSet*,
                     vtkTable* ) { return; };

  //BTX
  // Description:
  // Provide the appropriate assessment functor.
  virtual void SelectAssessFunctor( vtkTable* inData,
                                    vtkDataObject* inMeta,
                                    vtkStringArray* rowNames,
                                    AssessFunctor*& dfunc );
  //ETX
  // Description:
  // Subroutine to update new cluster centers from the old centers.
  // Called from within Learn (and will be overridden by vtkPKMeansStatistics
  // to handle distributed datasets).
  virtual void UpdateClusterCenters( vtkTable* newClusterElements,
                                     vtkTable* curClusterElements,
                                     vtkIdTypeArray* numMembershipChanges,
                                     vtkIdTypeArray* numElementsInCluster,
                                     vtkDoubleArray* error,
                                     vtkIdTypeArray* startRunID,
                                     vtkIdTypeArray* endRunID,
                                     vtkIntArray *computeRun );

  // Description:
  // Subroutine to get the total number of observations.
  // Called from within Learn (and will be overridden by vtkPKMeansStatistics
  // to handle distributed datasets).
  virtual vtkIdType GetTotalNumberOfObservations( vtkIdType numObservations );

  // Description:
  // Subroutine to initalize the cluster centers using those provided by the user
  // in input port LEARN_PARAMETERS.  If no cluster centers are provided, the subroutine uses the
  // first DefaultNumberOfClusters input data points as initial cluster centers.
  // Called from within Learn.
  int InitializeDataAndClusterCenters(vtkTable* inParameters,
                                      vtkTable* inData,
                                      vtkTable*  dataElements,
                                      vtkIdTypeArray*  numberOfClusters,
                                      vtkTable*  curClusterElements,
                                      vtkTable*  newClusterElements,
                                      vtkIdTypeArray*  startRunID,
                                      vtkIdTypeArray*  endRunID);

  // Description:
  // Subroutine to initialize cluster centerss if not provided by the user.
  // Called from within Learn (and will be overridden by vtkPKMeansStatistics
  // to handle distributed datasets).
  virtual void CreateInitialClusterCenters(vtkIdType numToAllocate,
                                           vtkIdTypeArray* numberOfClusters,
                                           vtkTable* inData,
                                           vtkTable* curClusterElements,
                                           vtkTable* newClusterElements);


  // Description:
  // This is the default number of clusters used when the user does not provide initial cluster centers.
  int DefaultNumberOfClusters;
  // Description:
  // This is the name of the column that specifies the number of clusters in each run.
  // This is only used if the user has not specified initial clusters.
  char* KValuesArrayName;
  // Description:
  // This is the maximum number of iterations allowed if the new cluster centers have not yet converged.
  int MaxNumIterations;
  // Description:
  // This is the percentage of data elements that swap cluster IDs
  double Tolerance;
  // Description:
  // This is the Distance functor.  The default is Euclidean distance, however this can be overridden.
  vtkKMeansDistanceFunctor* DistanceFunctor;

private:
  vtkKMeansStatistics( const vtkKMeansStatistics& ); // Not implemented
  void operator=( const vtkKMeansStatistics& );  // Not implemented
};

#endif