diff --git a/Domains/Microscopy/FindOpenSlide.cmake b/CMake/FindOpenSlide.cmake similarity index 92% rename from Domains/Microscopy/FindOpenSlide.cmake rename to CMake/FindOpenSlide.cmake index 85538d68f5d73693300d5e230bdd99110739e7fa..85b0c67d1c29904f8ca1848ab0b06b4477ffb8f1 100644 --- a/Domains/Microscopy/FindOpenSlide.cmake +++ b/CMake/FindOpenSlide.cmake @@ -26,7 +26,7 @@ mark_as_advanced( OPENSLIDE_LIBRARY ) # the listed variables are TRUE. find_package( PackageHandleStandardArgs ) -FIND_PACKAGE_HANDLE_STANDARD_ARGS( OPENSLIDE DEFAULT_MSG OPENSLIDE_LIBRARY OPENSLIDE_INCLUDE_DIR ) +FIND_PACKAGE_HANDLE_STANDARD_ARGS(OpenSlide DEFAULT_MSG OPENSLIDE_LIBRARY OPENSLIDE_INCLUDE_DIR ) if( OPENSLIDE_FOUND ) set( OPENSLIDE_LIBRARIES ${OPENSLIDE_LIBRARY} ) diff --git a/Domains/Microscopy/CMakeLists.txt b/Domains/Microscopy/CMakeLists.txt index 799ebb413e0994fd82edde8041f508436f944c13..1365e87572fce1cf6b3d282eff3aa8d1562973e5 100644 --- a/Domains/Microscopy/CMakeLists.txt +++ b/Domains/Microscopy/CMakeLists.txt @@ -1,16 +1,10 @@ -# OpenSlide required -LIST(APPEND CMAKE_MODULE_PATH "${CMAKE_CURRENT_SOURCE_DIR}") -find_package(OpenSlide REQUIRED) +set(classes + vtkOpenSlideReader) -mark_as_advanced(OPENSLIDE_INCLUDE_DIR OPENSLIDE_LIBRARY) +vtk_module_add_module(VTK::DomainsMicroscopy + CLASSES ${classes}) -set(OPENSLIDE_SRCS vtkOpenSlideReader.cxx) - -include_directories(${OPENSLIDE_INCLUDE_DIRS}) - -set(${vtk-module}_SYSTEM_INCLUDE_DIRS - ${OPENSLIDE_INCLUDE_DIRS}) - -vtk_module_library(vtkDomainsMicroscopy ${OPENSLIDE_SRCS}) - -vtk_module_link_libraries(vtkDomainsMicroscopy LINK_PRIVATE ${OPENSLIDE_LIBRARY}) +vtk_module_find_package(PACKAGE OpenSlide) +vtk_module_link(VTK::DomainsMicroscopy + PUBLIC + OpenSlide::OpenSlide) diff --git a/Domains/Microscopy/Testing/CMakeLists.txt b/Domains/Microscopy/Testing/CMakeLists.txt index aabac3feeebccac16370d1198c62a60ceab26bad..eff7e11d460c50a8688fc3cec4460214e011f2cb 100644 --- a/Domains/Microscopy/Testing/CMakeLists.txt +++ b/Domains/Microscopy/Testing/CMakeLists.txt @@ -1,5 +1,12 @@ +vtk_module_test_data( + Data/2LYZ.pdb + Data/Microscopy/small2.ndpi) + add_subdirectory(Cxx) if (VTK_WRAP_PYTHON) + vtk_module_test_data( + Data/RectGrid2.vtk) + add_subdirectory(Python) endif () diff --git a/Domains/Microscopy/Testing/Cxx/CMakeLists.txt b/Domains/Microscopy/Testing/Cxx/CMakeLists.txt index 9c6ec2d63e98d4feee615153cda5c90099d7532e..8f6140f479cfc7dbfbe7689814e72486fb67f15e 100644 --- a/Domains/Microscopy/Testing/Cxx/CMakeLists.txt +++ b/Domains/Microscopy/Testing/Cxx/CMakeLists.txt @@ -3,12 +3,12 @@ vtk_add_test_cxx(vtkDomainsMicroscopyCxxTests tests TestOpenSlideReader.cxx - "DATA{${VTK_TEST_INPUT_DIR}/Microscopy/small2.ndpi}" + "DATA{${_vtk_build_TEST_INPUT_DATA_DIRECTORY}/Data/Microscopy/small2.ndpi}" ) vtk_add_test_cxx(vtkDomainsMicroscopyCxxTests tests TestOpenSlideReaderPartialTIF,TestOpenSlideReaderPartial.cxx - "DATA{${VTK_TEST_INPUT_DIR}/Microscopy/pathology.tif}" + "DATA{${_vtk_build_TEST_INPUT_DATA_DIRECTORY}/Data/Microscopy/pathology.tif}" ) vtk_test_cxx_executable(vtkDomainsMicroscopyCxxTests tests RENDERING_FACTORY) diff --git a/Domains/Microscopy/Testing/Python/testOpenSlideReader.py b/Domains/Microscopy/Testing/Python/testOpenSlideReader.py index 6d74c8a1bd987b3ce560b4eecb08df9da3789b93..8ce6a222956fb06ae2b98e96d272b640588a7e97 100755 --- a/Domains/Microscopy/Testing/Python/testOpenSlideReader.py +++ b/Domains/Microscopy/Testing/Python/testOpenSlideReader.py @@ -1,10 +1,11 @@ #!/usr/bin/env python import vtk +import vtk.test.Testing from vtk.util.misc import vtkGetDataRoot VTK_DATA_ROOT = vtkGetDataRoot() import sys -class TestOpenSlideReader(Testing.vtkTest): +class TestOpenSlideReader(vtk.test.Testing.vtkTest): def testCanReadFile(self): reader = vtk.vtkOpenSlideReader() @@ -15,4 +16,4 @@ class TestOpenSlideReader(Testing.vtkTest): self.assertEqual(reader.CanReadFile(VTK_DATA_ROOT + "/Data/Microscopy/small2.ndpi"), 2) if __name__ == "__main__": - Testing.main([(TestOpenSlideReader, 'test')]) + vtk.test.Testing.main([(TestOpenSlideReader, 'test')]) diff --git a/Domains/Microscopy/module.cmake b/Domains/Microscopy/module.cmake deleted file mode 100644 index 909262bee2f37679a1e5482ebbfe541e4e66ff98..0000000000000000000000000000000000000000 --- a/Domains/Microscopy/module.cmake +++ /dev/null @@ -1,15 +0,0 @@ -vtk_module(vtkDomainsMicroscopy - DESCRIPTION "Readers and writers supporting whole slide images for microscopy domain" - TEST_DEPENDS - vtkTestingCore - vtkTestingRendering - vtkInteractionImage - vtkRenderingContextOpenGL2 - EXCLUDE_FROM_ALL - DEPENDS - vtkIOImage - PRIVATE_DEPENDS - vtkCommonCore - vtkCommonDataModel - vtkCommonExecutionModel - ) diff --git a/Domains/Microscopy/vtk.module b/Domains/Microscopy/vtk.module new file mode 100644 index 0000000000000000000000000000000000000000..d5bbff5c228b653342034152e2f671151dcd8b3e --- /dev/null +++ b/Domains/Microscopy/vtk.module @@ -0,0 +1,17 @@ +NAME + VTK::DomainsMicroscopy +LIBRARY_NAME + vtkDomainsMicroscopy +DESCRIPTION + File readers for microscopy file formats +DEPENDS + VTK::IOImage +PRIVATE_DEPENDS + VTK::CommonCore + VTK::CommonDataModel + VTK::CommonExecutionModel +TEST_DEPENDS + VTK::InteractionImage + VTK::RenderingContextOpenGL2 + VTK::TestingCore + VTK::TestingRendering