QGoMeshSplitDanielssonDistanceAlgo.cxx

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/*=========================================================================
 Authors: The GoFigure Dev. Team.
 at Megason Lab, Systems biology, Harvard Medical school, 2009-11

 Copyright (c) 2009-11, President and Fellows of Harvard College.
 All rights reserved.

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 modification, are permitted provided that the following conditions are met:

 Redistributions of source code must retain the above copyright notice,
 this list of conditions and the following disclaimer.
 Redistributions in binary form must reproduce the above copyright notice,
 this list of conditions and the following disclaimer in the documentation
 and/or other materials provided with the distribution.
 Neither the name of the  President and Fellows of Harvard College
 nor the names of its contributors may be used to endorse or promote
 products derived from this software without specific prior written
 permission.

 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
 "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO,
 THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
 PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS
 BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY,
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=========================================================================*/
#include "QGoMeshSplitDanielssonDistanceAlgo.h"

#include "itkvtkMeshSplitterDanielssonDistanceImageFilter.h"
#include "GoImageProcessor.h"

//temp
#include "vtkPolyDataWriter.h"

QGoMeshSplitDanielssonDistanceAlgo::QGoMeshSplitDanielssonDistanceAlgo(std::vector< vtkPoints* >* iSeeds, QWidget* iParent)
    :QGoSplitDanielssonDistanceAlgo(iSeeds, iParent)
{
  this->setObjectName("Split");
}
//-------------------------------------------------------------------------

//-------------------------------------------------------------------------
QGoMeshSplitDanielssonDistanceAlgo::~QGoMeshSplitDanielssonDistanceAlgo()
{
}
//-------------------------------------------------------------------------

//-------------------------------------------------------------------------
std::vector<vtkPolyData*> QGoMeshSplitDanielssonDistanceAlgo::ApplyAlgo(
    GoImageProcessor* iImages,
    std::string iChannel,
    std::vector<vtkPolyData*> iPolyData,
    bool iIsInvertedOn)
{
  const unsigned int Dimension = 3;
  typedef unsigned char PixelType;
  typedef itk::Image< PixelType, Dimension >  ImageType;
  typedef itk::vtkMeshSplitterDanielssonDistanceImageFilter< ImageType >
      SplitterType;

  std::vector<vtkPolyData*> oVector;

  std::vector< double > bounds(6);
  double* boundsPointer = iPolyData[0]->GetBounds();
  for(unsigned int i = 0; i<Dimension; ++i)
    {
    bounds[i*2] = static_cast<int>(boundsPointer[i*2]);
    bounds[i*2+1] = static_cast<int>(boundsPointer[i*2+1]);
    }

  typedef SplitterType::PointSetType PointSetType;
  PointSetType::Pointer seeds = PointSetType::New();

  ImageType::PointType itk_pt;
  double vtk_pt[3];
  int position = 0;
  for( size_t id = 0; id < this->m_Seeds->size(); id++ )
    {
    for ( int i = 0; i < (*this->m_Seeds)[id]->GetNumberOfPoints(); i++ )
      {
      (*this->m_Seeds)[id]->GetPoint(i, vtk_pt);
      // if seed is inside the bounding box, use it!
      if(    vtk_pt[0] > bounds[0] && vtk_pt[0] < bounds[1]
          && vtk_pt[1] > bounds[2] && vtk_pt[1] < bounds[3]
          && vtk_pt[2] > bounds[4] && vtk_pt[2] < bounds[5])
        {
        itk_pt[0] = vtk_pt[0];
        itk_pt[1] = vtk_pt[1];
        itk_pt[2] = vtk_pt[2];
        std::cout << itk_pt[0] << "-" << itk_pt[1] << "-" << itk_pt[2] << std::endl;
        seeds->SetPoint( position, itk_pt );
        ++position;
        }
      }
    }

  if( position >= 2)
    {
    ImageType::Pointer ITK_Full_Image = iImages->getImageITK<PixelType, Dimension>(
        iImages->getChannelName(0));

    itk::Vector<double> spacing = ITK_Full_Image->GetSpacing();

    // work on smaller region
    // increase size of bounding box by 20*spacing... bug itk?
    for(unsigned int i = 0; i<Dimension; ++i)
      {
      bounds[i*2] = bounds[i*2] - 10*spacing[i];
      bounds[i*2+1] = bounds[i*2+1] + 10*spacing[i];
      }

    // then let's extract the Region of Interest
    ImageType::Pointer ITK_ROI_Image =
        this->ITKExtractROI< PixelType, Dimension >( bounds, ITK_Full_Image);

    SplitterType::Pointer filter = SplitterType::New();
    // size_t nb_ch = iImages->getNumberOfChannels();
    filter->SetNumberOfImages( 1 );
    filter->SetMesh( iPolyData[0] );
    filter->SetFeatureImage( 0,
                             ITK_ROI_Image);

    filter->SetSeeds( seeds );
    filter->Update();
    oVector = filter->GetOutputs();
  }
  return oVector;
}
//-------------------------------------------------------------------------

//-------------------------------------------------------------------------