C++ labelsetimage::Pointer类代码示例

  void TestSetActiveLayer()
  {
    // Cache active layer
    mitk::LabelSet::ConstPointer activeLayer = m_LabelSetImage->GetActiveLabelSet();

    // Add new layer
    mitk::LabelSet::Pointer newlayer = mitk::LabelSet::New();
    mitk::Label::Pointer label1 = mitk::Label::New();
    label1->SetName("Label1");
    label1->SetValue(1);

    mitk::Label::Pointer label2 = mitk::Label::New();
    label2->SetName("Label2");
    label2->SetValue(200);

    newlayer->AddLabel(label1);
    newlayer->AddLabel(label2);
    newlayer->SetActiveLabel(200);

    unsigned int layerID = m_LabelSetImage->AddLayer(newlayer);

    // Set initial layer as active layer
    m_LabelSetImage->SetActiveLayer(0);
    CPPUNIT_ASSERT_MESSAGE("Wrong active labelset returned", mitk::Equal(*activeLayer, *m_LabelSetImage->GetActiveLabelSet(), 0.00001, true));

    // Set previously added layer as active layer
    m_LabelSetImage->SetActiveLayer(layerID);
    CPPUNIT_ASSERT_MESSAGE("Wrong active labelset returned", mitk::Equal(*newlayer, *m_LabelSetImage->GetActiveLabelSet(), 0.00001, true));

    // Set a non existing layer as active layer - nothing should change
    m_LabelSetImage->SetActiveLayer(10000);
    CPPUNIT_ASSERT_MESSAGE("Wrong active labelset returned", mitk::Equal(*newlayer, *m_LabelSetImage->GetActiveLabelSet(), 0.00001, true));
  }

  void TestRemoveLabels()
  {
    mitk::Image::Pointer image = mitk::IOUtil::LoadImage(GetTestDataFilePath("Multilabel/LabelSetTestInitializeImage.nrrd"));
    m_LabelSetImage->InitializeByLabeledImage(image);

    CPPUNIT_ASSERT_MESSAGE("Image - number of labels is not 6",m_LabelSetImage->GetNumberOfLabels() == 6);
    // 2ndMin because of the exterior label = 0
    CPPUNIT_ASSERT_MESSAGE("Labels with value 1 and 3 was not remove from the image", m_LabelSetImage->GetStatistics()->GetScalarValue2ndMin() == 1);
    CPPUNIT_ASSERT_MESSAGE("Label with value 7 was not remove from the image", m_LabelSetImage->GetStatistics()->GetScalarValueMax() == 7);

    CPPUNIT_ASSERT_MESSAGE("Label with ID 3 does not exists after initialization",m_LabelSetImage->ExistLabel(3) == true);
    CPPUNIT_ASSERT_MESSAGE("Label with ID 7 does not exists after initialization",m_LabelSetImage->ExistLabel(7) == true);

    std::vector<mitk::Label::PixelType> labelsToBeRemoved;
    labelsToBeRemoved.push_back(1);
    labelsToBeRemoved.push_back(3);
    labelsToBeRemoved.push_back(7);
    m_LabelSetImage->RemoveLabels(labelsToBeRemoved);

    CPPUNIT_ASSERT_MESSAGE("Wrong number of labels after some have been removed", m_LabelSetImage->GetNumberOfLabels() == 3);
    // Values within the image are 0, 1, 3, 5, 6, 7 - New Min/Max value should be 5 / 6
    // 2ndMin because of the exterior label = 0
    CPPUNIT_ASSERT_MESSAGE("Labels with value 1 and 3 was not remove from the image", m_LabelSetImage->GetStatistics()->GetScalarValue2ndMin() == 5);
    CPPUNIT_ASSERT_MESSAGE("Label with value 7 was not remove from the image", m_LabelSetImage->GetStatistics()->GetScalarValueMax() == 6);
  }

  void TestGetLabel()
  {
    mitk::Label::Pointer label1 = mitk::Label::New();
    label1->SetName("Label1");
    mitk::Label::PixelType value1 = 1;
    label1->SetValue(value1);

    mitk::Label::Pointer label2 = mitk::Label::New();
    label2->SetName("Label2");
    mitk::Label::PixelType value2 = 200;
    label2->SetValue(value2);

    m_LabelSetImage->GetActiveLabelSet()->AddLabel(label1);
    m_LabelSetImage->AddLayer();
    m_LabelSetImage->GetLabelSet(1)->AddLabel(label2);

    CPPUNIT_ASSERT_MESSAGE("Wrong label retrieved for active layer", mitk::Equal(*m_LabelSetImage->GetLabel(1), *label1, 0.0001, true));
    CPPUNIT_ASSERT_MESSAGE("Wrong label retrieved for layer 1", mitk::Equal(*m_LabelSetImage->GetLabel(200, 1), *label2, 0.0001, true));

    // Try to get a non existing label
    mitk::Label* label3 = m_LabelSetImage->GetLabel(1000);
    CPPUNIT_ASSERT_MESSAGE("Non existing label should be NULL", label3 == NULL);

    // Try to get a label from a non existing layer
    label3 = m_LabelSetImage->GetLabel(200, 1000);
    CPPUNIT_ASSERT_MESSAGE("Label from non existing layer should be NULL", label3 == NULL);
  }

 void setUp() override
 {
   // Create a new labelset image
   m_LabelSetImage = mitk::LabelSetImage::New();
   mitk::Image::Pointer regularImage = mitk::Image::New();
   unsigned int dimensions[3] = {256, 256, 312};
   regularImage->Initialize(mitk::MakeScalarPixelType<int>(), 3, dimensions);
   m_LabelSetImage->Initialize(regularImage);
 }

  void TestReadWrite3DplusTLabelSetImage()
  {
    unsigned int dimensions[4] = {256, 256, 312, 10};
    regularImage->Initialize(mitk::MakeScalarPixelType<int>(), 4, dimensions);

    multilabelImage = mitk::LabelSetImage::New();
    multilabelImage->Initialize(regularImage);
    mitk::LabelSet::Pointer newlayer = mitk::LabelSet::New();
    newlayer->SetLayer(1);
    mitk::Label::Pointer label0 = mitk::Label::New();
    label0->SetName("Background");
    label0->SetValue(0);

    mitk::Label::Pointer label1 = mitk::Label::New();
    label1->SetName("Label1");
    label1->SetValue(1);

    mitk::Label::Pointer label2 = mitk::Label::New();
    label2->SetName("Label2");
    label2->SetValue(200);

    newlayer->AddLabel(label0);
    newlayer->AddLabel(label1);
    newlayer->AddLabel(label2);
    newlayer->SetActiveLabel(200);

    multilabelImage->AddLayer(newlayer);

    pathToImage = mitk::IOUtil::CreateTemporaryDirectory();
    pathToImage.append("/LabelSetTestImage3DplusT.nrrd");

    mitk::IOUtil::Save(multilabelImage, pathToImage);

    mitk::LabelSetImage::Pointer loadedImage =
      dynamic_cast<mitk::LabelSetImage *>(mitk::IOUtil::Load(pathToImage)[0].GetPointer());

    // This information is currently not serialized but also checked within the Equals function
    loadedImage->SetActiveLayer(multilabelImage->GetActiveLayer());

    CPPUNIT_ASSERT_MESSAGE("Error reading label set image", loadedImage.IsNotNull());
    CPPUNIT_ASSERT_MESSAGE("Error reading label set image", mitk::Equal(*multilabelImage, *loadedImage, 0.0001, true));

    itksys::SystemTools::RemoveFile(pathToImage);
  }

  void TestGetTotalNumberOfLabels()
  {
    mitk::Label::Pointer label1 = mitk::Label::New();
    label1->SetName("Label1");
    mitk::Label::PixelType value1 = 1;
    label1->SetValue(value1);

    mitk::Label::Pointer label2 = mitk::Label::New();
    label2->SetName("Label2");
    mitk::Label::PixelType value2 = 200;
    label2->SetValue(value2);

    m_LabelSetImage->GetActiveLabelSet()->AddLabel(label1);
    m_LabelSetImage->AddLayer();
    m_LabelSetImage->GetLabelSet(1)->AddLabel(label2);
    CPPUNIT_ASSERT_MESSAGE(
      "Wrong total number of labels",
      m_LabelSetImage->GetTotalNumberOfLabels() == 4); // added 2 labels + 2 exterior default labels
  }

  void TestGetActiveLabel()
  {
    mitk::Label::Pointer label1 = mitk::Label::New();
    label1->SetName("Label1");
    mitk::Label::PixelType value1 = 1;
    label1->SetValue(value1);

    mitk::Label::Pointer label2 = mitk::Label::New();
    label2->SetName("Label2");
    mitk::Label::PixelType value2 = 200;
    label2->SetValue(value2);

    m_LabelSetImage->GetActiveLabelSet()->AddLabel(label1);
    m_LabelSetImage->GetActiveLabelSet()->AddLabel(label2);
    m_LabelSetImage->GetActiveLabelSet()->SetActiveLabel(1);
    CPPUNIT_ASSERT_MESSAGE("Layer was not added correctly to image - active label is wrong",m_LabelSetImage->GetActiveLabel()->GetValue() == value1);
    m_LabelSetImage->GetActiveLabelSet()->SetActiveLabel(value2);
    CPPUNIT_ASSERT_MESSAGE("Layer was not added correctly to image - active label is wrong",m_LabelSetImage->GetActiveLabel()->GetValue() == value2);
  }

  // Reduce contours with nth point
  void TestInitialize()
  {
    // LabelSet image should always has the pixel type mitk::Label::PixelType
    CPPUNIT_ASSERT_MESSAGE("LabelSetImage has wrong pixel type",
                           m_LabelSetImage->GetPixelType() == mitk::MakeScalarPixelType<mitk::Label::PixelType>());

    mitk::Image::Pointer regularImage = mitk::Image::New();
    unsigned int dimensions[3] = {256,256,312};
    regularImage->Initialize(mitk::MakeScalarPixelType<int>(), 3, dimensions);

    mitk::BaseGeometry::Pointer regularImageGeo = regularImage->GetGeometry();
    mitk::BaseGeometry::Pointer labelImageGeo = m_LabelSetImage->GetGeometry();
    MITK_ASSERT_EQUAL(labelImageGeo, regularImageGeo, "LabelSetImage has wrong geometry");

    // By default one layer containing the exterior label should be added
    CPPUNIT_ASSERT_MESSAGE("Image was not correctly initialized - number of layers is not one",m_LabelSetImage->GetNumberOfLayers() == 1);
    CPPUNIT_ASSERT_MESSAGE("Image was not correctly initialized - active layer has wrong ID",m_LabelSetImage->GetActiveLayer() == 0);

    CPPUNIT_ASSERT_MESSAGE("Image was not correctly initialized - active label is not the exterior label",m_LabelSetImage->GetActiveLabel()->GetValue() == 0);
  }

void LabelSetImageIO::LoadLabelSetImagePreset(const std::string & presetFilename, mitk::LabelSetImage::Pointer& inputImage )
{
  std::unique_ptr<TiXmlDocument> presetXmlDoc(new TiXmlDocument());

  bool ok = presetXmlDoc->LoadFile(presetFilename);
  if ( !ok )
    return;

  TiXmlElement * presetElem = presetXmlDoc->FirstChildElement("LabelSetImagePreset");
  if(!presetElem)
  {
    MITK_INFO << "No valid preset XML";
    return;
  }

  int numberOfLayers;
  presetElem->QueryIntAttribute("layers", &numberOfLayers);

  for(int i = 0 ; i < numberOfLayers; i++)
  {
    TiXmlElement * layerElem = presetElem->FirstChildElement("Layer");
    int numberOfLabels;
    layerElem->QueryIntAttribute("labels", &numberOfLabels);

    if(inputImage->GetLabelSet(i) == NULL) inputImage->AddLayer();

    TiXmlElement * labelElement = layerElem->FirstChildElement("Label");
    if(labelElement == NULL) break;
    for(int j = 0 ; j < numberOfLabels; j++)
    {

      mitk::Label::Pointer label = mitk::LabelSetImageIO::LoadLabelFromTiXmlDocument(labelElement);
      inputImage->GetLabelSet()->AddLabel(label);

      labelElement = labelElement->NextSiblingElement("Label");
      if(labelElement == NULL) break;
    }
  }
}

  void TestGetActiveLabelSet()
  {
    mitk::LabelSet::Pointer newlayer = mitk::LabelSet::New();
    mitk::Label::Pointer label1 = mitk::Label::New();
    label1->SetName("Label1");
    label1->SetValue(1);

    mitk::Label::Pointer label2 = mitk::Label::New();
    label2->SetName("Label2");
    label2->SetValue(200);

    newlayer->AddLabel(label1);
    newlayer->AddLabel(label2);
    newlayer->SetActiveLabel(200);

    unsigned int layerID = m_LabelSetImage->AddLayer(newlayer);

    mitk::LabelSet::Pointer activeLayer = m_LabelSetImage->GetActiveLabelSet();

    CPPUNIT_ASSERT_MESSAGE("Wrong layer ID was returned", layerID == 1);
    CPPUNIT_ASSERT_MESSAGE("Wrong active labelset returned", mitk::Equal(*newlayer, *activeLayer, 0.00001, true));
  }

void MitkImageToMitkLabelSetImage(itk::VectorImage< TPixel, VDimensions> * source, mitk::LabelSetImage::Pointer &output)
{
  typedef itk::VectorImage< TPixel, VDimensions > VectorImageType;
  typedef itk::Image< TPixel, VDimensions > ImageType;
  typedef itk::VectorIndexSelectionCastImageFilter< VectorImageType, ImageType > VectorIndexSelectorType;

  unsigned int numberOfComponents = source->GetVectorLength();

  if (numberOfComponents < 1)
  {
    mitkThrow() << "At least one Component is required.";
  }

  typename VectorIndexSelectorType::Pointer vectorIndexSelector = VectorIndexSelectorType::New();

  vectorIndexSelector->SetIndex(0);
  vectorIndexSelector->SetInput(source);
  vectorIndexSelector->Update();

  mitk::Image::Pointer tempImage;
  mitk::CastToMitkImage(vectorIndexSelector->GetOutput(), tempImage);

  output = mitk::LabelSetImage::New();
  output->InitializeByLabeledImage(tempImage);

  for (unsigned int layer = 1; layer < numberOfComponents; ++layer)
  {
    typename VectorIndexSelectorType::Pointer vectorIndexSelectorLoop = VectorIndexSelectorType::New();
    vectorIndexSelectorLoop->SetIndex(layer);
    vectorIndexSelector->SetInput(source);
    vectorIndexSelector->Update();

    mitk::Image::Pointer loopImage;
    mitk::CastToMitkImage(vectorIndexSelector->GetOutput(), loopImage);

    output->AddLayer(loopImage);
  }

}

  void Result_Match_Expectation()
  {
    mitk::LabelSetImageSurfaceStampFilter::Pointer filter = mitk::LabelSetImageSurfaceStampFilter::New();
    filter->SetSurface(m_Surface);
    filter->SetForceOverwrite(true);
    filter->SetInput(m_LabelSetImage);
    filter->Update();
    mitk::LabelSetImage::Pointer result = dynamic_cast<mitk::LabelSetImage *>(
      m_LabelSetImage.GetPointer()); // dynamic_cast<mitk::LabelSetImage*>(filter->GetOutput());
    // result->DisconnectPipeline();
    // mitk::LabelSetImage::Pointer result
    // =dynamic_cast<mitk::LabelSetImage*>(m_LabelSetImage->Clone().GetPointer());//dynamic_cast<mitk::LabelSetImage*>(filter->GetOutput());

    mitk::LabelSetImage::Pointer expectedResult = dynamic_cast<mitk::LabelSetImage *>(
      mitk::IOUtil::Load(GetTestDataFilePath("Multilabel/StampResultBasedOnEmptyML.nrrd"))[0].GetPointer());

    MITK_ASSERT_EQUAL(result, expectedResult, "Result after stamping should be equal to the saved version");
  }

  void TestMergeLabel()
  {
    mitk::Image::Pointer image = dynamic_cast<mitk::Image*>(mitk::IOUtil::Load(GetTestDataFilePath("Multilabel/LabelSetTestInitializeImage.nrrd"))[0].GetPointer());
    m_LabelSetImage = 0;
    m_LabelSetImage = mitk::LabelSetImage::New();
    m_LabelSetImage->InitializeByLabeledImage(image);

    CPPUNIT_ASSERT_MESSAGE("Image - number of labels is not 6", m_LabelSetImage->GetNumberOfLabels() == 6);

    // 2ndMin because of the exterior label = 0
    CPPUNIT_ASSERT_MESSAGE("Wrong MIN value", m_LabelSetImage->GetStatistics()->GetScalarValueMin() == 0);
    CPPUNIT_ASSERT_MESSAGE("Wrong MAX value", m_LabelSetImage->GetStatistics()->GetScalarValueMax() == 7);

    m_LabelSetImage->GetActiveLabelSet()->SetActiveLabel(6);
    // Merge label 7 with label 0. Result should be that label 7 is not present any more
    m_LabelSetImage->MergeLabel(6, 7);
    CPPUNIT_ASSERT_MESSAGE("Label with value 7 was not remove from the image", m_LabelSetImage->GetStatistics()->GetScalarValueMax() == 6);
    m_LabelSetImage->GetStatistics()->GetScalarValue2ndMax();

    // Count all pixels with value 7 = 823
    // Count all pixels with value 6 = 507
    // Check if merge label has 507 + 823 = 1330 pixels
    CPPUNIT_ASSERT_MESSAGE("Label with value 7 was not remove from the image", m_LabelSetImage->GetStatistics()->GetCountOfMaxValuedVoxels() == 1330);
  }

  void TestRemoveLayer()
  {
    // Cache active layer
    mitk::LabelSet::ConstPointer activeLayer = m_LabelSetImage->GetActiveLabelSet();

    // Add new layers
    m_LabelSetImage->AddLayer();

    mitk::LabelSet::Pointer newlayer = mitk::LabelSet::New();
    mitk::Label::Pointer label1 = mitk::Label::New();
    label1->SetName("Label1");
    label1->SetValue(1);

    mitk::Label::Pointer label2 = mitk::Label::New();
    label2->SetName("Label2");
    label2->SetValue(200);

    newlayer->AddLabel(label1);
    newlayer->AddLabel(label2);
    newlayer->SetActiveLabel(200);

    m_LabelSetImage->AddLayer(newlayer);

    CPPUNIT_ASSERT_MESSAGE("Wrong active labelset returned",
                           mitk::Equal(*newlayer, *m_LabelSetImage->GetActiveLabelSet(), 0.00001, true));

    m_LabelSetImage->RemoveLayer();
    CPPUNIT_ASSERT_MESSAGE("Wrong number of layers, after a layer was removed",
                           m_LabelSetImage->GetNumberOfLayers() == 2);
    CPPUNIT_ASSERT_MESSAGE("Check for existing layer failed", m_LabelSetImage->ExistLabelSet(2) == false);
    CPPUNIT_ASSERT_MESSAGE("Check for existing layer failed", m_LabelSetImage->ExistLabelSet(1) == true);
    CPPUNIT_ASSERT_MESSAGE("Check for existing layer failed", m_LabelSetImage->ExistLabelSet(0) == true);

    m_LabelSetImage->RemoveLayer();
    CPPUNIT_ASSERT_MESSAGE("Wrong number of layers, after a layer was removed",
                           m_LabelSetImage->GetNumberOfLayers() == 1);
    CPPUNIT_ASSERT_MESSAGE("Check for existing layer failed", m_LabelSetImage->ExistLabelSet(1) == false);
    CPPUNIT_ASSERT_MESSAGE("Check for existing layer failed", m_LabelSetImage->ExistLabelSet(0) == true);
    CPPUNIT_ASSERT_MESSAGE("Wrong active layer",
                           mitk::Equal(*activeLayer, *m_LabelSetImage->GetActiveLabelSet(), 0.00001, true));

    m_LabelSetImage->RemoveLayer();
    CPPUNIT_ASSERT_MESSAGE("Wrong number of layers, after a layer was removed",
                           m_LabelSetImage->GetNumberOfLayers() == 0);
    CPPUNIT_ASSERT_MESSAGE("Check for existing layer failed", m_LabelSetImage->ExistLabelSet(0) == false);
    CPPUNIT_ASSERT_MESSAGE("Active layers is not nullptr although all layer have been removed",
                           m_LabelSetImage->GetActiveLabelSet() == 0);
  }

 void TestInitializeByLabeledImage()
 {
   mitk::Image::Pointer image = mitk::IOUtil::LoadImage(GetTestDataFilePath("Multilabel/LabelSetTestInitializeImage.nrrd"));
   m_LabelSetImage->InitializeByLabeledImage(image);
   CPPUNIT_ASSERT_MESSAGE("Image - number of labels is not 6",m_LabelSetImage->GetNumberOfLabels() == 6);
 }