diff --git a/Modules/DiffusionImaging/FiberTracking/Testing/CMakeLists.txt b/Modules/DiffusionImaging/FiberTracking/Testing/CMakeLists.txt index d46f8c63b2..f8cb5f846a 100644 --- a/Modules/DiffusionImaging/FiberTracking/Testing/CMakeLists.txt +++ b/Modules/DiffusionImaging/FiberTracking/Testing/CMakeLists.txt @@ -1,11 +1,11 @@ MITK_CREATE_MODULE_TESTS() mitkAddCustomModuleTest(mitkFiberBundleXReaderWriterTest mitkFiberBundleXReaderWriterTest ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX.fib) mitkAddCustomModuleTest(mitkGibbsTrackingTest mitkGibbsTrackingTest ${MITK_DATA_DIR}/DiffusionImaging/qBallImage.qbi ${MITK_DATA_DIR}/DiffusionImaging/diffusionImageMask.nrrd ${MITK_DATA_DIR}/DiffusionImaging/gibbsTrackingParameters.gtp ${MITK_DATA_DIR}/DiffusionImaging/gibbsTractogram.fib) mitkAddCustomModuleTest(mitkStreamlineTrackingTest mitkStreamlineTrackingTest ${MITK_DATA_DIR}/DiffusionImaging/tensorImage.dti ${MITK_DATA_DIR}/DiffusionImaging/diffusionImageMask.nrrd ${MITK_DATA_DIR}/DiffusionImaging/streamlineTractogram.fib) mitkAddCustomModuleTest(mitkPeakExtractionTest mitkPeakExtractionTest ${MITK_DATA_DIR}/DiffusionImaging/qBallImage_SHCoeffs.nrrd ${MITK_DATA_DIR}/DiffusionImaging/diffusionImageMask.nrrd ${MITK_DATA_DIR}/DiffusionImaging/qBallImage_VectorField.fib) mitkAddCustomModuleTest(mitkLocalFiberPlausibilityTest mitkLocalFiberPlausibilityTest ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX.fib ${MITK_DATA_DIR}/DiffusionImaging/LDFP_GT_DIRECTION_0.nrrd ${MITK_DATA_DIR}/DiffusionImaging/LDFP_GT_DIRECTION_1.nrrd ${MITK_DATA_DIR}/DiffusionImaging/LDFP_ERROR_IMAGE.nrrd ${MITK_DATA_DIR}/DiffusionImaging/LDFP_NUM_DIRECTIONS.nrrd ${MITK_DATA_DIR}/DiffusionImaging/LDFP_VECTOR_FIELD.fib ${MITK_DATA_DIR}/DiffusionImaging/LDFP_ERROR_IMAGE_IGNORE.nrrd) mitkAddCustomModuleTest(mitkFiberTransformationTest mitkFiberTransformationTest ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_transformed.fib) -mitkAddCustomModuleTest(mitkFiberExtractionTest mitkFiberExtractionTest ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_extracted.fib ${MITK_DATA_DIR}/DiffusionImaging/ROI1.pf ${MITK_DATA_DIR}/DiffusionImaging/ROI2.pf ${MITK_DATA_DIR}/DiffusionImaging/ROI3.pf ${MITK_DATA_DIR}/DiffusionImaging/ROIIMAGE.nrrd ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_inside.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_outside.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_passing-mask.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_ending-in-mask.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_subtracted.fib) +mitkAddCustomModuleTest(mitkFiberExtractionTest mitkFiberExtractionTest ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_extracted.fib ${MITK_DATA_DIR}/DiffusionImaging/ROI1.pf ${MITK_DATA_DIR}/DiffusionImaging/ROI2.pf ${MITK_DATA_DIR}/DiffusionImaging/ROI3.pf ${MITK_DATA_DIR}/DiffusionImaging/ROIIMAGE.nrrd ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_inside.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_outside.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_passing-mask.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_ending-in-mask.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_subtracted.fib ${MITK_DATA_DIR}/DiffusionImaging/fiberBundleX_added.fib) mitkAddCustomModuleTest(mitkFiberGenerationTest mitkFiberGenerationTest ${MITK_DATA_DIR}/DiffusionImaging/Fiberfox/Fiducial_0.pf ${MITK_DATA_DIR}/DiffusionImaging/Fiberfox/Fiducial_1.pf ${MITK_DATA_DIR}/DiffusionImaging/Fiberfox/Fiducial_2.pf ${MITK_DATA_DIR}/DiffusionImaging/Fiberfox/uniform.fib ${MITK_DATA_DIR}/DiffusionImaging/Fiberfox/gaussian.fib) # TODO: fiberfox signalgen diff --git a/Modules/DiffusionImaging/FiberTracking/Testing/mitkFiberExtractionTest.cpp b/Modules/DiffusionImaging/FiberTracking/Testing/mitkFiberExtractionTest.cpp index 2f6e39c3d3..07c60576c2 100644 --- a/Modules/DiffusionImaging/FiberTracking/Testing/mitkFiberExtractionTest.cpp +++ b/Modules/DiffusionImaging/FiberTracking/Testing/mitkFiberExtractionTest.cpp @@ -1,97 +1,97 @@ /*=================================================================== The Medical Imaging Interaction Toolkit (MITK) Copyright (c) German Cancer Research Center, Division of Medical and Biological Informatics. All rights reserved. This software is distributed WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See LICENSE.txt or http://www.mitk.org for details. ===================================================================*/ #include #include #include #include #include #include #include #include /**Documentation * Test if fiber transfortaiom methods work correctly */ int mitkFiberExtractionTest(int argc, char* argv[]) { MITK_TEST_BEGIN("mitkFiberExtractionTest"); MITK_INFO << "argc: " << argc; - MITK_TEST_CONDITION_REQUIRED(argc==12,"check for input data") + MITK_TEST_CONDITION_REQUIRED(argc==13,"check for input data") try{ RegisterFiberTrackingObjectFactory(); mitk::FiberBundleX::Pointer groundTruthFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[1])->GetData()); mitk::FiberBundleX::Pointer testFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[2])->GetData()); // test planar figure based extraction mitk::PlanarFigure::Pointer pf1 = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[3])->GetData()); mitk::PlanarFigure::Pointer pf2 = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[4])->GetData()); mitk::PlanarFigure::Pointer pf3 = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[5])->GetData()); mitk::PlanarFigureComposite::Pointer pfc1 = mitk::PlanarFigureComposite::New(); pfc1->setOperationType(mitk::PFCOMPOSITION_AND_OPERATION); pfc1->addPlanarFigure(pf2); pfc1->addPlanarFigure(pf3); mitk::PlanarFigureComposite::Pointer pfc2 = mitk::PlanarFigureComposite::New(); pfc2->setOperationType(mitk::PFCOMPOSITION_OR_OPERATION); pfc2->addPlanarFigure(pf1); pfc2->addPlanarFigure(dynamic_cast(pfc1.GetPointer())); mitk::FiberBundleX::Pointer extractedFibs = groundTruthFibs->ExtractFiberSubset(pfc2); MITK_TEST_CONDITION_REQUIRED(extractedFibs->Equals(testFibs),"check planar figure extraction") // test subtraction and addition mitk::FiberBundleX::Pointer notExtractedFibs = groundTruthFibs->SubtractBundle(extractedFibs); MITK_INFO << argv[11]; testFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[11])->GetData()); MITK_TEST_CONDITION_REQUIRED(notExtractedFibs->Equals(testFibs),"check bundle subtraction") - testFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[12])->GetData()); mitk::FiberBundleX::Pointer joinded = extractedFibs->AddBundle(notExtractedFibs); + testFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[12])->GetData()); MITK_TEST_CONDITION_REQUIRED(joinded->Equals(testFibs),"check bundle addition") // test binary image based extraction mitk::Image::Pointer mitkRoiImage = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[6])->GetData()); typedef itk::Image< unsigned char, 3 > itkUCharImageType; itkUCharImageType::Pointer itkRoiImage = itkUCharImageType::New(); mitk::CastToItkImage(mitkRoiImage, itkRoiImage); mitk::FiberBundleX::Pointer inside = groundTruthFibs->RemoveFibersOutside(itkRoiImage, false); mitk::FiberBundleX::Pointer outside = groundTruthFibs->RemoveFibersOutside(itkRoiImage, true); mitk::FiberBundleX::Pointer passing = groundTruthFibs->ExtractFiberSubset(itkRoiImage, true); mitk::FiberBundleX::Pointer ending = groundTruthFibs->ExtractFiberSubset(itkRoiImage, false); testFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[7])->GetData()); MITK_TEST_CONDITION_REQUIRED(inside->Equals(testFibs),"check inside mask extraction") testFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[8])->GetData()); MITK_TEST_CONDITION_REQUIRED(outside->Equals(testFibs),"check outside mask extraction") testFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[9])->GetData()); MITK_TEST_CONDITION_REQUIRED(passing->Equals(testFibs),"check passing mask extraction") testFibs = dynamic_cast(mitk::IOUtil::LoadDataNode(argv[10])->GetData()); MITK_TEST_CONDITION_REQUIRED(ending->Equals(testFibs),"check ending in mask extraction") } catch(...) { return EXIT_FAILURE; } // always end with this! MITK_TEST_END(); }