C++ image::Pointer类代码示例

  void GetImageStatisticsWithImageAndMaskNotConnected()
  {
    //create rules connection + add statistics to dataStorage
    auto statisticsNode = mitk::CreateImageStatisticsNode(m_statisticsContainer, "testStatistics");
    CreateNodeRelationImage(m_statisticsContainer.GetPointer(), m_image.GetPointer());
    CreateNodeRelationMask(m_statisticsContainer.GetPointer(), m_mask.GetPointer());
    auto standaloneDataStorage = mitk::StandaloneDataStorage::New();
    standaloneDataStorage->Add(statisticsNode);

    //rule: (image-->statistics, mask-->statistics), 1 connected image --> test return nullptr
    mitk::ImageStatisticsContainer::ConstPointer statisticsWithImage;
    CPPUNIT_ASSERT_NO_THROW(statisticsWithImage = mitk::ImageStatisticsContainerManager::GetImageStatistics(standaloneDataStorage.GetPointer(), m_image.GetPointer()));
    CPPUNIT_ASSERT_EQUAL(statisticsWithImage.IsNull(), true);

    //rule: (image-->statistics, mask-->statistics), 1 unconnected image, 1 unconnected mask --> test return nullptr
    mitk::ImageStatisticsContainer::ConstPointer statisticsWithImageNotConnectedAndMaskNotConnected;
    CPPUNIT_ASSERT_NO_THROW(statisticsWithImageNotConnectedAndMaskNotConnected = mitk::ImageStatisticsContainerManager::GetImageStatistics(standaloneDataStorage.GetPointer(), m_image2.GetPointer(), m_mask2.GetPointer()));
    CPPUNIT_ASSERT_EQUAL(statisticsWithImageNotConnectedAndMaskNotConnected.IsNull(), true);

    //rule: (image-->statistics, mask-->statistics), 1 unconnected image, 1 connected mask --> test return nullptr
    mitk::ImageStatisticsContainer::ConstPointer statisticsWithImageAndMaskNotConnected;
    CPPUNIT_ASSERT_NO_THROW(statisticsWithImageAndMaskNotConnected = mitk::ImageStatisticsContainerManager::GetImageStatistics(standaloneDataStorage.GetPointer(), m_image2.GetPointer(), m_mask.GetPointer()));
    CPPUNIT_ASSERT_EQUAL(statisticsWithImageAndMaskNotConnected.IsNull(), true);

    //rule: (image-->statistics, mask-->statistics), 1 connected image, 1 unconnected planarFigure --> test return nullptr
    mitk::ImageStatisticsContainer::ConstPointer statisticsWithImageAndPlanarFigureNotConnected;
    CPPUNIT_ASSERT_NO_THROW(statisticsWithImageAndPlanarFigureNotConnected = mitk::ImageStatisticsContainerManager::GetImageStatistics(standaloneDataStorage.GetPointer(), m_image.GetPointer(), m_planarFigure.GetPointer()));
    CPPUNIT_ASSERT_EQUAL(statisticsWithImageAndPlanarFigureNotConnected.IsNull(), true);

    //rule: (image-->statistics, mask-->statistics), 1 unconnected image, 1 unconnected planarFigure --> test return nullptr
    mitk::ImageStatisticsContainer::ConstPointer statisticsWithImageNotConnectedAndPlanarFigureNotConnected;
    CPPUNIT_ASSERT_NO_THROW(statisticsWithImageAndPlanarFigureNotConnected = mitk::ImageStatisticsContainerManager::GetImageStatistics(standaloneDataStorage.GetPointer(), m_image2.GetPointer(), m_planarFigure.GetPointer()));
    CPPUNIT_ASSERT_EQUAL(statisticsWithImageAndPlanarFigureNotConnected.IsNull(), true);
  }

static bool CompareImages(mitk::Image::Pointer mitkImage, cv::Mat openCVImage)
{
    float equal = true;
    if ((mitkImage->GetDimension(0)!=openCVImage.cols)||(mitkImage->GetDimension(1)!=openCVImage.rows))
    {
        equal = false;
    }
    for (unsigned int i=0; i<openCVImage.cols; i++)
    {
        for (unsigned int j=0; j<openCVImage.rows; j++)
        {
            mitk::Index3D currentIndex;
            currentIndex[0] = i;
            currentIndex[1] = j;
            currentIndex[2] = 0;
            float mitkImageValue = mitkImage->GetPixelValueByIndex(currentIndex);
            float openCVImageValue = openCVImage.at<float>(j,i);
            if (!mitk::Equal(mitkImageValue,openCVImageValue))
            {
                equal = false;
            }
        }
    }
    return equal;
}

void mitk::SurfaceInterpolationController::SetCurrentInterpolationSession(mitk::Image::Pointer currentSegmentationImage)
{
  if (currentSegmentationImage.GetPointer() == m_SelectedSegmentation)
    return;

  if (currentSegmentationImage.IsNull())
  {
    m_SelectedSegmentation = nullptr;
    return;
  }

  m_SelectedSegmentation = currentSegmentationImage.GetPointer();

  auto it = m_ListOfInterpolationSessions.find(currentSegmentationImage.GetPointer());
  // If the session does not exist yet create a new ContourPositionPairList otherwise reinitialize the interpolation pipeline
  if (it == m_ListOfInterpolationSessions.end())
  {
    ContourPositionInformationVec2D newList;
    m_ListOfInterpolationSessions.insert(std::pair<mitk::Image*, ContourPositionInformationVec2D>(m_SelectedSegmentation, newList));
    m_InterpolationResult = nullptr;
    m_CurrentNumberOfReducedContours = 0;

    itk::MemberCommand<SurfaceInterpolationController>::Pointer command = itk::MemberCommand<SurfaceInterpolationController>::New();
    command->SetCallbackFunction(this, &SurfaceInterpolationController::OnSegmentationDeleted);
    m_SegmentationObserverTags.insert( std::pair<mitk::Image*, unsigned long>( m_SelectedSegmentation, m_SelectedSegmentation->AddObserver( itk::DeleteEvent(), command ) ) );
  }

  this->ReinitializeInterpolation();
}

void mitk::MorphologicalOperations::FillHoles(mitk::Image::Pointer &image)
{
  MITK_INFO << "Start FillHole...";

  int timeSteps = static_cast<int>(image->GetTimeSteps());

  if (timeSteps > 1)
  {
    mitk::ImageTimeSelector::Pointer timeSelector = mitk::ImageTimeSelector::New();
    timeSelector->SetInput(image);

    for (int t = 0; t < timeSteps; ++t)
    {
      MITK_INFO << "  Processing time step " << t;

      timeSelector->SetTimeNr(t);
      timeSelector->Update();

      mitk::Image::Pointer img3D = timeSelector->GetOutput();
      img3D->DisconnectPipeline();

      AccessByItk_1(img3D, itkFillHoles, img3D);

      mitk::ImageReadAccessor accessor(img3D);
      image->SetVolume(accessor.GetData(), t);
    }
  }
  else
  {
    AccessByItk_1(image, itkFillHoles, image);
  }

  MITK_INFO << "Finished FillHole";
}

static bool CompareImages(mitk::Image::Pointer mitkImage, cv::Mat openCVImage)
{
  float equal = true;
  if (static_cast<int>(mitkImage->GetDimension(0)) != openCVImage.cols || static_cast<int>(mitkImage->GetDimension(1)) != openCVImage.rows)
  {
    equal = false;
  }
  mitk::ImagePixelReadAccessor<float,2> imageAcces(mitkImage, mitkImage->GetSliceData(0));
  for(int i=0; i<openCVImage.cols; i++)
  {
    for(int j=0; j<openCVImage.rows; j++)
    {
      itk::Index<2> currentIndex;
      currentIndex[0] = i;
      currentIndex[1] = j;
      float mitkImageValue = imageAcces.GetPixelByIndex(currentIndex);
      float openCVImageValue = openCVImage.at<float>(j,i);
      if (!mitk::Equal(mitkImageValue,openCVImageValue))
      {
        equal = false;
      }
    }
  }
  return equal;
}

void mitk::USTelemedImageSource::GetNextRawImage( mitk::Image::Pointer& image)
{
  if ( image.IsNull() ) { image = mitk::Image::New(); }

  //get the actual resolution to check if it changed. We have to do this every time because the geometry takes a few frames to adapt
  Usgfw2Lib::tagImageResolution resolutionInMetersActual;
  m_ImageProperties->GetResolution(&resolutionInMetersActual, 0);
  if (m_OldnXPelsPerUnit != resolutionInMetersActual.nXPelsPerUnit || m_OldnYPelsPerUnit != resolutionInMetersActual.nYPelsPerUnit)
    {
      //we can only update if the image exists and has a geometry
      if (m_Image.IsNotNull() && m_Image->GetGeometry() != nullptr)
     {
        m_OldnXPelsPerUnit = resolutionInMetersActual.nXPelsPerUnit;
        m_OldnYPelsPerUnit = resolutionInMetersActual.nYPelsPerUnit;
        UpdateImageGeometry();
      }

    }
  //now update image
  if ( m_Image->IsInitialized() )
  {
    m_ImageMutex->Lock();

    // copy contents of the given image into the member variable
    image->Initialize(m_Image->GetPixelType(), m_Image->GetDimension(), m_Image->GetDimensions());
    mitk::ImageReadAccessor inputReadAccessor(m_Image, m_Image->GetSliceData(0,0,0));
    image->SetSlice(inputReadAccessor.GetData());
    image->SetGeometry(m_Image->GetGeometry());

    m_ImageMutex->Unlock();
  }

}

  /**
   * @brief AddColouredOverlay - Overlays the rgbImage with an coloured overlay
   *
   * For all positions in overlayImage not zero, its value is multiplied the the colour value and added
   * to the rgbImage.
   *
   * @param rgbImage - input rgbImage to which the coloured overlay is added
   * @param overlayImage
   * @param color
   */
  void AddColouredOverlay(mitk::Image::Pointer rgbImage, mitk::Image::Pointer overlayImage, mitk::Color color)
  {
    unsigned int *dim = rgbImage->GetDimensions();
    itk::Image<PixelType,3>::Pointer itkOverlayImage = itk::Image<PixelType,3>::New();
    mitk::CastToItkImage(overlayImage.GetPointer(), itkOverlayImage);
    mitk::ImagePixelWriteAccessor<RGBPixelType ,3> writeAcc(rgbImage);

    itk::Index<3> idx;
    itk::RGBPixel<PixelType> value;
    unsigned short overlayVal=0;
    // Fill rgb image with gray values
    for (idx[2] =0; (unsigned int)idx[2] < dim[2]; idx[2]++)
    {
      for (idx[1] =0; (unsigned int)idx[1] < dim[1]; idx[1]++)
      {
        for (idx[0] =0; (unsigned int)idx[0] < dim[0]; idx[0]++)
        {
          overlayVal = 255*itkOverlayImage->GetPixel(idx);
          value = writeAcc.GetPixelByIndex(idx);
          value[0] = std::min( (int)(value[0] + overlayVal * color[0]),254*255);
          value[1] =  std::min((int)(value[1] + overlayVal * color[1]),254*255) ;
          value[2] = std::min((int)(value[2] + overlayVal * color[2]),254*255);
          writeAcc.SetPixelByIndex(idx, value);
        }
      }
    }
  }

void StartSimulation(FiberfoxParameters<double> parameters, FiberBundle::Pointer fiberBundle, mitk::Image::Pointer refImage, string message)
{
    itk::TractsToDWIImageFilter< short >::Pointer tractsToDwiFilter = itk::TractsToDWIImageFilter< short >::New();
    tractsToDwiFilter->SetUseConstantRandSeed(true);
    tractsToDwiFilter->SetParameters(parameters);
    tractsToDwiFilter->SetFiberBundle(fiberBundle);
    tractsToDwiFilter->Update();

    mitk::Image::Pointer testImage = mitk::GrabItkImageMemory( tractsToDwiFilter->GetOutput() );
    testImage->SetProperty( mitk::DiffusionPropertyHelper::GRADIENTCONTAINERPROPERTYNAME.c_str(), mitk::GradientDirectionsProperty::New( parameters.m_SignalGen.GetGradientDirections() ) );
    testImage->SetProperty( mitk::DiffusionPropertyHelper::REFERENCEBVALUEPROPERTYNAME.c_str(), mitk::FloatProperty::New( parameters.m_SignalGen.m_Bvalue ) );

    mitk::DiffusionPropertyHelper propertyHelper( testImage );
    propertyHelper.InitializeImage();

    if (refImage.IsNotNull())
    {
        if( static_cast<mitk::GradientDirectionsProperty*>( refImage->GetProperty(mitk::DiffusionPropertyHelper::GRADIENTCONTAINERPROPERTYNAME.c_str()).GetPointer() )->GetGradientDirectionsContainer().IsNotNull() )
        {
            ItkDwiType::Pointer itkTestImagePointer = ItkDwiType::New();
            mitk::CastToItkImage(testImage, itkTestImagePointer);
            ItkDwiType::Pointer itkRefImagePointer = ItkDwiType::New();
            mitk::CastToItkImage(refImage, itkRefImagePointer);

            bool cond = CompareDwi(itkTestImagePointer, itkRefImagePointer);
            if (!cond)
            {
                MITK_INFO << "Saving test and rference image to " << mitk::IOUtil::GetTempPath();
                mitk::IOUtil::SaveBaseData(testImage, mitk::IOUtil::GetTempPath()+"testImage.dwi");
                mitk::IOUtil::SaveBaseData(refImage, mitk::IOUtil::GetTempPath()+"refImage.dwi");
            }
            MITK_TEST_CONDITION_REQUIRED(cond, message);
        }
    }
}

void mitk::NonStaticArithmeticOperation::CallExecuteTwoImageFilter(mitk::Image::Pointer imageA, mitk::Image::Pointer imageB)
{
  if (imageA->GetDimension() != imageB->GetDimension())
  {
    mitkThrow() << "Image have different dimensions. This is not supported by mitk::ArithmeticOperation";
  }

  switch (imageA->GetDimension())
  {
  case 1:
    AccessTwoImagesFixedDimensionByItk(imageA, imageB, mitk::NonStaticArithmeticOperation::ExecuteTwoImageFilter, 1);
    break;
  case 2:
    AccessTwoImagesFixedDimensionByItk(imageA, imageB, mitk::NonStaticArithmeticOperation::ExecuteTwoImageFilter, 2);
    break;
  case 3:
    AccessTwoImagesFixedDimensionByItk(imageA, imageB, mitk::NonStaticArithmeticOperation::ExecuteTwoImageFilter, 3);
    break;
  case 4:
    AccessTwoImagesFixedDimensionByItk(imageA, imageB, mitk::NonStaticArithmeticOperation::ExecuteTwoImageFilter, 4);
    break;
  default:
    mitkThrow() << "Image Dimension of "<<imageA->GetDimension() << " is not supported";
    break;
  }
}

static bool CompareImages(mitk::Image::Pointer image1, mitk::Image::Pointer image2)
{

  unsigned int dimX = image1->GetDimension(0);
  unsigned int dimY = image1->GetDimension(1);

  //make sure images have the same dimensions
  if((dimX != image1->GetDimension(0)) || (dimY != image1->GetDimension(1)))
    return false;

  //compare all pixel values
  for(unsigned int i = 0; i<dimX; i++)
  {
    for(unsigned int j = 0; j < dimY; j++)
    {
      mitk::Index3D idx;
      idx[0] = i; idx[1] = j; idx[2] = 0;
      if(!(mitk::Equal(image1->GetPixelValueByIndex(idx), image1->GetPixelValueByIndex(idx))))
      {
        return false;
      }

    }
  }

  //all pixels have identical values
  return true;
}

  void Init()
  {

    im1 = mitk::ImageGenerator::GenerateRandomImage<double>(2,2,2,1,2,2,2,1,0);
    im2 = mitk::ImageGenerator::GenerateRandomImage<double>(3,3,3,1,3,3,3,3,2);
    im3 = mitk::ImageGenerator::GenerateRandomImage<double>(4,4,4,1,4,4,4,5,4);
    im4 = mitk::ImageGenerator::GenerateRandomImage<double>(5,5,5,1,5,5,5,7,6);

    dataCol1 = mitk::DataCollection::New();
    dataCol2 = mitk::DataCollection::New();

    dataCol1->AddData(im1.GetPointer(),"T1");

    dataCol1->AddData(im2.GetPointer(),"T2");

    dataCol2->AddData(im3.GetPointer(),"T1");
    dataCol2->AddData(im4.GetPointer(),"T2");

    col1 = mitk::DataCollection::New();

    col1->SetName("GnaBla");
    col1->AddData(dataCol1.GetPointer(), "0001");
    col1->AddData(dataCol2.GetPointer(), "0002");

    m_Collection = mitk::DataCollection::New();

    m_Collection->SetName("DummyCollection");
    m_Collection->AddData(col1.GetPointer(), "C1");


  }

        Attributes::Attributes(mitk::Image::Pointer mitkImage)
        {
            log_trace(Log::New, this);

            Pixel::ID pixelID;
            Component::ID componentID;
            unsigned int dimension;

            log_info("pixelType: " << mitkImage->GetPixelType().GetPixelTypeAsString());
            log_info("channels : " << mitkImage->GetPixelType().GetNumberOfComponents());
            log_info("component: " << mitkImage->GetPixelType().GetComponentTypeAsString());
            log_info("dimension: " << mitkImage->GetDimension());

            switch (mitkImage->GetPixelType().GetPixelType())
            {
                case itk::ImageIOBase::SCALAR:  pixelID = Pixel::ID::Scalar; break;
                case itk::ImageIOBase::RGB:     pixelID = Pixel::ID::Rgb; break;
                case itk::ImageIOBase::RGBA:    pixelID = Pixel::ID::Rgba; break;

                default: pixelID = Pixel::ID::Scalar; break;
            }

            switch ((itk::ImageIOBase::IOComponentType) mitkImage->GetPixelType().GetComponentType())
            {
                case itk::ImageIOBase::UCHAR:   componentID = Component::ID::UChar; break;
                case itk::ImageIOBase::USHORT:  componentID = Component::ID::UShort; break;
                case itk::ImageIOBase::UINT:    componentID = Component::ID::UInt; break;
                case itk::ImageIOBase::CHAR:    componentID = Component::ID::Char; break;
                case itk::ImageIOBase::SHORT:   componentID = Component::ID::Short; break;
                case itk::ImageIOBase::INT: 	componentID = Component::ID::Int; break;
                case itk::ImageIOBase::FLOAT:   componentID = Component::ID::Float; break;
                case itk::ImageIOBase::DOUBLE: 	componentID = Component::ID::Double; break;

                default: componentID = Component::ID::Double; break;
            }

            if (mitkImage->GetPixelType().GetNumberOfComponents() == 1)
            {
                pixelID = Pixel::ID::Scalar;
            }

            if (mitkImage->GetPixelType().GetNumberOfComponents() == 3)
            {
                pixelID = Pixel::ID::Rgb;
            }

            if (mitkImage->GetPixelType().GetNumberOfComponents() == 4)
            {
                pixelID = Pixel::ID::Rgba;
            }

            dimension = mitkImage->GetDimension();

            this->m_dimension = dimension;
            this->m_pixelID = pixelID;
            this->m_componentID = componentID;
        }

void mitk::SurfaceInterpolationController::SetCurrentInterpolationSession(mitk::Image::Pointer currentSegmentationImage)
{
  if (currentSegmentationImage.GetPointer() == m_SelectedSegmentation)
    return;

  m_ReduceFilter->Reset();
  m_NormalsFilter->Reset();
  m_InterpolateSurfaceFilter->Reset();

  if (currentSegmentationImage.IsNull())
  {
    m_SelectedSegmentation = 0;
    return;
  }
  ContourListMap::iterator it = m_ListOfInterpolationSessions.find(currentSegmentationImage.GetPointer());

  m_SelectedSegmentation = currentSegmentationImage.GetPointer();

  itk::ImageBase<3>::Pointer itkImage = itk::ImageBase<3>::New();
  AccessFixedDimensionByItk_1( m_SelectedSegmentation, GetImageBase, 3, itkImage );
  m_InterpolateSurfaceFilter->SetReferenceImage( itkImage.GetPointer() );

  if (it == m_ListOfInterpolationSessions.end())
  {
    ContourPositionPairList newList;
    m_ListOfInterpolationSessions.insert(std::pair<mitk::Image*, ContourPositionPairList>(m_SelectedSegmentation, newList));
    m_InterpolationResult = 0;
    m_CurrentNumberOfReducedContours = 0;

    itk::MemberCommand<SurfaceInterpolationController>::Pointer command = itk::MemberCommand<SurfaceInterpolationController>::New();
    command->SetCallbackFunction(this, &SurfaceInterpolationController::OnSegmentationDeleted);
    m_SegmentationObserverTags.insert( std::pair<mitk::Image*, unsigned long>( m_SelectedSegmentation, m_SelectedSegmentation->AddObserver( itk::DeleteEvent(), command ) ) );

  }
  else
  {
    for (unsigned int i = 0; i < m_ListOfInterpolationSessions[m_SelectedSegmentation].size(); i++)
    {
      m_ReduceFilter->SetInput(i, m_ListOfInterpolationSessions[m_SelectedSegmentation].at(i).contour);
    }

    m_ReduceFilter->Update();

    m_CurrentNumberOfReducedContours = m_ReduceFilter->GetNumberOfOutputs();

    for (unsigned int i = 0; i < m_CurrentNumberOfReducedContours; i++)
    {
      m_NormalsFilter->SetInput(i, m_ReduceFilter->GetOutput(i));
      m_InterpolateSurfaceFilter->SetInput(i, m_NormalsFilter->GetOutput(i));
    }
  }
  Modified();
}

static void Paint(mitk::Image::Pointer image, itk::Index<3> index, unsigned int timeStep)
{
  // As soon as the ImagePixelWriteAccessor object goes out of scope at the
  // end of this function, the image will be unlocked again (RAII).
  mitk::ImagePixelWriteAccessor<T> writeAccessor(image, image->GetVolumeData(timeStep));
  writeAccessor.SetPixelByIndex(index, std::numeric_limits<T>::min());

  // Don't forget to update the modified time stamp of the image. Otherwise,
  // everything downstream wouldn't recognize that the image changed,
  // including the rendering system.
  image->Modified();
}

/**
 * @brief RemapIntoVectorImage Take a 3d+t image and reinterpret it as vector image
 * @return vectoriamge
 */
mitk::DiffusionImageCreationFilter::VectorImageType::Pointer
mitk::DiffusionImageCreationFilter::RemapIntoVectorImage( mitk::Image::Pointer input)
{
  typedef itk::Image<mitk::DiffusionPropertyHelper::DiffusionPixelType, 3> ImageVolumeType;
  typedef itk::ComposeImageFilter< ImageVolumeType > ComposeFilterType;

  ComposeFilterType::Pointer vec_composer = ComposeFilterType::New();
  mitk::ImageTimeSelector::Pointer t_selector = mitk::ImageTimeSelector::New();
  t_selector->SetInput( input );

  for( unsigned int i=0; i< input->GetTimeSteps(); i++)
  {
    t_selector->SetTimeNr(i);
    t_selector->Update();

    ImageVolumeType::Pointer singleImageItk;
    mitk::CastToItkImage( t_selector->GetOutput(), singleImageItk );

    vec_composer->SetInput( i, singleImageItk );
  }

  try
  {
    vec_composer->Update();
  }
  catch( const itk::ExceptionObject& e)
  {
    MITK_ERROR << "Caught exception while updating compose filter: " << e.what();
  }

  mitk::DiffusionImageCreationFilter::VectorImageType::Pointer vector_image = vec_composer->GetOutput();
  vector_image->GetPixelContainer()->ContainerManageMemoryOff();

  return vector_image;
}