libinsighttoolkit4-dev 4.9.0-4ubuntu1 / usr / include / ITK-4.9 / itkFastMarchingBase.h

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 *  Copyright Insight Software Consortium
 *
 *  Licensed under the Apache License, Version 2.0 (the "License");
 *  you may not use this file except in compliance with the License.
 *  You may obtain a copy of the License at
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 *         http://www.apache.org/licenses/LICENSE-2.0.txt
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 *  distributed under the License is distributed on an "AS IS" BASIS,
 *  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 *  See the License for the specific language governing permissions and
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#ifndef itkFastMarchingBase_h
#define itkFastMarchingBase_h

#include "itkIntTypes.h"
#include "itkFastMarchingStoppingCriterionBase.h"
#include "itkFastMarchingTraits.h"

#include <queue>
#include <functional>

namespace itk
{
/**
 * \class FastMarchingBase
 * \brief Abstract class to solve an Eikonal based-equation using Fast Marching
 * Method.
 *
 * Fast marching solves an Eikonal equation where the speed is always
 * non-negative and depends on the position only. Starting from an
 * initial position on the front, fast marching systematically moves the
 * front forward one node at a time.
 *
 * Updates are preformed using an entropy satisfy scheme where only
 * "upwind" neighborhoods are used. This implementation of Fast Marching
 * uses a std::priority_queue to locate the next proper node to
 * update.
 *
 * Fast Marching sweeps through N points in (N log N) steps to obtain
 * the arrival time value as the front propagates through the domain.
 *
 * The initial front is specified by two containers:
 * \li one containing the known nodes (Alive Nodes: nodes that are already
 * part of the object),
 * \li one containing the trial nodes (Trial Nodes: nodes that are
 * considered for inclusion).
 *
 * In order for the filter to evolve, at least some trial nodes must be
 * specified. These can for instance be specified as the layer of
 * nodes around the alive ones.
 *
 * The algorithm is terminated early by setting an appropriate stopping
 * criterion, or if there are no more nodes to process.
 *
 * \tparam TTraits traits which includes definition such as:
 *    \li InputDomainType (itk::Image or itk::QuadEdgeMesh)
 *    \li OutputDomainType (similar to InputDomainType)
 *    \li NodeType (itk::Index if itk::Image and PointIdentifier if
 * itk::QuadEdgeMesh)
 *    \li NodePairType std::pair< NodeType, OutputPixelType >
 *    \li Superclass (itk::ImageToImageFilter or
 * itk::QuadEdgeMeshToQuadEdgeMeshFilter )
 *
 * \todo In the current implemenation, std::priority_queue only allows
 * taking nodes out from the front and putting nodes in from the back.
 * Use itk::PriorityQueueContainer instead.
 *
 * \par Topology constraints:
 * Additional flexibiility in this class includes the implementation of
 * topology constraints for image-based fast marching.  Further details
 * can be found in the paper
 *
 * NJ Tustison, BA Avants, MF Siqueira, JC Gee. "Topological Well-
 * Composedness and Glamorous Glue: A Digital Gluing Algorithm for
 * Topologically Constrained Front Propagation, IEEE Transactions on
 * Image Processing, 20(6):1756-1761, June 2011.
 *
 * Essentially, one can constrain the propagating front(s) such that
 * they either:
 *  1. don't merge (using the "Strict" option)
 *  2. don't create handles (using the "NoHandles" option)
 *
 * Whereas the majority of related work uses the digital topological
 * concept of "simple points" to constrain the evolving front, this
 * filter uses the concept of "well-composedness".  Advantages of
 * the latter over the former includes being able to use the standard
 * marching cubes algorithm to produce a mesh whose genus is identical
 * to that of the evolved front(s).
 *
 * \sa FastMarchingStoppingCriterionBase
 *
 * \ingroup ITKFastMarching
*/
template< typename TInput, typename TOutput >
class FastMarchingBase : public FastMarchingTraits<TInput, TOutput>::SuperclassType
  {
public:
  typedef FastMarchingTraits<TInput, TOutput>   Traits;
  typedef typename Traits::SuperclassType       SuperclassType;

  typedef FastMarchingBase            Self;
  typedef SuperclassType              Superclass;
  typedef SmartPointer< Self >        Pointer;
  typedef SmartPointer< const Self >  ConstPointer;

  /** Input Domain related definitions */
  typedef typename Traits::InputDomainType        InputDomainType;
  typedef typename Traits::InputDomainPointer     InputDomainPointer;
  typedef typename Traits::InputPixelType         InputPixelType;

  /** Output Domain related definitions */
  typedef typename Traits::OutputDomainType       OutputDomainType;
  typedef typename Traits::OutputDomainPointer    OutputDomainPointer;
  typedef typename Traits::OutputPixelType        OutputPixelType;

  /** NodeType type of node */
  typedef typename Traits::NodeType                 NodeType;

  /** NodePairType pair of node and corresponding value */
  typedef typename Traits::NodePairType             NodePairType;
  typedef typename Traits::NodePairContainerType    NodePairContainerType;
  typedef typename Traits::NodePairContainerPointer NodePairContainerPointer;
  typedef typename Traits::NodePairContainerConstIterator
    NodePairContainerConstIterator;

  typedef typename Traits::LabelType                LabelType;

  /** StoppingCriterionType stopping criterion */
  typedef FastMarchingStoppingCriterionBase< TInput, TOutput > StoppingCriterionType;
  typedef typename StoppingCriterionType::Pointer              StoppingCriterionPointer;

  /*
  typedef long ElementIdentifier;

  typedef MinPriorityQueueElementWrapper< NodeType,
    OutputPixelType,
    ElementIdentifier > PriorityQueueElementType;

  typedef PriorityQueueContainer< PriorityQueueElementType,
    PriorityQueueElementType,
    OutputPixelType,
    ElementIdentifier > PriorityQueueType;
  typedef typename PriorityQueueType::Pointer PriorityQueuePointer;
  */

  /** \enum TopologyCheckType */
  enum TopologyCheckType {
    /** \c Nothing */
    Nothing = 0,
    /** \c NoHandles */
    NoHandles,
    /** \c Strict */
    Strict };

  /** Set/Get the TopologyCheckType macro indicating whether the user
  wants to check topology (and which one). */
  itkSetMacro( TopologyCheck, TopologyCheckType );
  itkGetConstReferenceMacro( TopologyCheck, TopologyCheckType );

  /** Set/Get TrialPoints */
  itkSetObjectMacro( TrialPoints, NodePairContainerType );
  itkGetModifiableObjectMacro(TrialPoints, NodePairContainerType );

  /** Set/Get AlivePoints */
  itkSetObjectMacro( AlivePoints, NodePairContainerType );
  itkGetModifiableObjectMacro(AlivePoints, NodePairContainerType );

  /** Set/Get ProcessedPoints */
  itkSetObjectMacro( ProcessedPoints, NodePairContainerType );
  itkGetModifiableObjectMacro(ProcessedPoints, NodePairContainerType );

  /** Set/Get ForbiddenPoints */
  itkSetObjectMacro( ForbiddenPoints, NodePairContainerType );
  itkGetModifiableObjectMacro(ForbiddenPoints, NodePairContainerType );

  /** \brief Set/Get the Stopping Criterion */
  itkSetObjectMacro( StoppingCriterion, StoppingCriterionType );
  itkGetModifiableObjectMacro(StoppingCriterion, StoppingCriterionType );

  /** \brief Set/Get SpeedConstant */
  itkGetMacro( SpeedConstant, double );
  itkSetMacro( SpeedConstant, double );

  /** \brief Set/Get NormalizationFactor */
  itkGetMacro( NormalizationFactor, double );
  itkSetMacro( NormalizationFactor, double );

  /** \brief Get the value reached by the front when it stops propagating */
  itkGetMacro( TargetReachedValue, OutputPixelType );

  /** Set the Collect Points flag. Instrument the algorithm to collect
  * a container of all nodes which it has visited. Useful for
  * creating Narrowbands for level set algorithms that supports
  * narrow banding. */
  itkSetMacro(CollectPoints, bool);

  /** Get the Collect Points flag. */
  itkGetConstReferenceMacro(CollectPoints, bool);
  itkBooleanMacro(CollectPoints);

protected:

  /** \brief Constructor */
  FastMarchingBase();

  /** \brief Destructor */
  virtual ~FastMarchingBase();

  StoppingCriterionPointer m_StoppingCriterion;

  double m_SpeedConstant;
  double m_InverseSpeed;
  double m_NormalizationFactor;

  OutputPixelType m_TargetReachedValue;
  OutputPixelType m_LargeValue;
  OutputPixelType m_TopologyValue;

  NodePairContainerPointer  m_TrialPoints;
  NodePairContainerPointer  m_AlivePoints;
  NodePairContainerPointer  m_ProcessedPoints;
  NodePairContainerPointer  m_ForbiddenPoints;

  bool m_CollectPoints;

  //PriorityQueuePointer m_Heap;
  typedef std::vector< NodePairType >   HeapContainerType;
  typedef std::greater< NodePairType >  NodeComparerType;

  typedef std::priority_queue<
    NodeType,
    HeapContainerType,
    NodeComparerType >
    PriorityQueueType;

  PriorityQueueType m_Heap;

  TopologyCheckType m_TopologyCheck;

  /** \brief Get the total number of nodes in the domain */
  virtual IdentifierType GetTotalNumberOfNodes() const = 0;

  /** \brief Get the ouput value (front value) for a given node */
  virtual const OutputPixelType GetOutputValue( OutputDomainType* oDomain,
                                         const NodeType& iNode ) const = 0;

  /** \brief Set the output value (front value) for a given node */
  virtual void SetOutputValue( OutputDomainType* oDomain,
                              const NodeType& iNode,
                              const OutputPixelType& iValue ) = 0;

  /** \brief Get the LabelType Value for a given node
    \param[in] iNode
    \return its label value  */
  virtual unsigned char
  GetLabelValueForGivenNode( const NodeType& iNode ) const = 0;

  /** \brief Set the Label Value for a given node
    \param[in] iNode
    \param[in] iLabel */
  virtual void SetLabelValueForGivenNode( const NodeType& iNode,
                                         const LabelType& iLabel ) = 0;

  /** \brief Update neighbors to a given node
    \param[in] oDomain
    \param[in] iNode
  */
  virtual void UpdateNeighbors( OutputDomainType* oDomain,
                               const NodeType& iNode ) = 0;

  /** \brief Update value for a given node
    \param[in] oDomain
    \param[in] iNode
    */
  virtual void UpdateValue( OutputDomainType* oDomain,
                           const NodeType& iNode ) = 0;

  /** \brief Check if the current node violate topological criterion.
    \param[in] oDomain
    \param[in] iNode
   */
  virtual bool CheckTopology( OutputDomainType* oDomain,
                             const NodeType& iNode ) = 0;

  /** \brief   */
  void Initialize( OutputDomainType* oDomain );

  /**    */
  virtual void InitializeOutput( OutputDomainType* oDomain ) = 0;

  /**    */
  void GenerateData() ITK_OVERRIDE;

  /** \brief PrintSelf method  */
  void PrintSelf(std::ostream & os, Indent indent) const ITK_OVERRIDE;

private:
  FastMarchingBase( const Self& );
  void operator = ( const Self& );
  };
}

#include "itkFastMarchingBase.hxx"
#endif