void setUp() override
{
m_ReferenceImage = mitk::IOUtil::LoadImage(GetTestDataFilePath("Pic3D.nrrd"));
CPPUNIT_ASSERT_MESSAGE("Failed to load image for test: [Pic3D.nrrd]", m_ReferenceImage.IsNotNull());
m_InterpolationController = mitk::SegmentationInterpolationController::GetInstance();
// Create empty segmentation
// Surely there must be a better way to get an image with all zeros?
m_SegmentationImage = mitk::Image::New();
const mitk::PixelType pixelType(mitk::MakeScalarPixelType<mitk::Tool::DefaultSegmentationDataType>());
m_SegmentationImage->Initialize(pixelType, m_ReferenceImage->GetDimension(), m_ReferenceImage->GetDimensions());
m_SegmentationImage->SetClonedTimeGeometry(m_ReferenceImage->GetTimeGeometry());
unsigned int size = sizeof(mitk::Tool::DefaultSegmentationDataType);
for (unsigned int dim = 0; dim < m_SegmentationImage->GetDimension(); ++dim)
{
size *= m_SegmentationImage->GetDimension(dim);
}
mitk::ImageWriteAccessor imageAccessor(m_SegmentationImage);
memset(imageAccessor.GetData(), 0, size);
// Work in the center of the image (Pic3D)
m_CenterPoint = {{ 127, 127, 25 }};
}
void mitk::ToFVisualizationFilter::InitImage(mitk::Image::Pointer image)
{
unsigned int dimensions[2];
dimensions[0] = this->m_ImageWidth;
dimensions[1] = this->m_ImageHeight;
image->Initialize(mitk::PixelType(mitkIpPicUInt, 24, 3), 2, dimensions); //unsigned char RGB
}
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();
}
}
bool mitkSegmentationInterpolationTestClass::CreateSegmentation()
{
m_Image = mitk::Image::New();
dim[0]=15;
dim[1]=20;
dim[2]=25;
pad[0]=2;
pad[1]=3;
pad[2]=4;
m_Image->Initialize(mitk::PixelType(typeid(int)), 3, dim);
return true;
}
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);
}