ITK/Examples/IO/ReadUnknownImageType

ReadUnknownImageType.cxx

<source lang="cpp">

1. include "itkImage.h"
2. include "itkImageFileReader.h"

template<typename TImageType> static void ReadFile(std::string filename, typename TImageType::Pointer image);

int main(int argc, char *argv[]) {

 if(argc < 2)
   {
   std::cerr << "Required: filename" << std::endl;

   return EXIT_FAILURE;
   }
 std::string inputFilename = argv[1];

 typedef itk::ImageIOBase::IOComponentType ScalarPixelType;

 itk::ImageIOBase::Pointer imageIO =
       itk::ImageIOFactory::CreateImageIO(
           inputFilename.c_str(), itk::ImageIOFactory::ReadMode);

 imageIO->SetFileName(inputFilename);
 imageIO->ReadImageInformation();
 const ScalarPixelType pixelType = imageIO->GetComponentType();
 std::cout << "Pixel Type is " << imageIO->GetComponentTypeAsString(pixelType) // 'double'
           << std::endl;
 const size_t numDimensions =  imageIO->GetNumberOfDimensions();
 std::cout << "numDimensions: " << numDimensions << std::endl; // '2'

 std::cout << "component size: " << imageIO->GetComponentSize() << std::endl; // '8'
 std::cout << "pixel type (string): " << imageIO->GetPixelTypeAsString(imageIO->GetPixelType()) << std::endl; // 'vector'
 std::cout << "pixel type: " << imageIO->GetPixelType() << std::endl; // '5'

 /*
 switch (pixelType)
 {
   case itk::ImageIOBase::COVARIANTVECTOR:
     typedef itk::Image<unsigned char, 2> ImageType;
     ImageType::Pointer image = ImageType::New();
     ReadFile<ImageType>(inputFilename, image);
     break;
   
     typedef itk::Image<unsigned char, 2> ImageType;
     ImageType::Pointer image = ImageType::New();
     ReadFile<ImageType>(inputFilename, image);
     break;

   default:
     std::cerr << "Pixel Type ("
               << imageIO->GetComponentTypeAsString(pixelType)
               << ") not supported. Exiting." << std::endl;
     return -1;
 }
 */

 return EXIT_SUCCESS;

}

template<typename TImageType> void ReadFile(std::string filename, typename TImageType::Pointer image) {

 typedef itk::ImageFileReader<TImageType> ReaderType;
 typename ReaderType::Pointer reader = ReaderType::New();

 reader->SetFileName(filename);
 reader->Update();

 image->Graft(reader->GetOutput());

} </source>

CreateImages.cxx

<source lang="cpp">

1. include "itkImage.h"
2. include "itkImageFileWriter.h"
3. include <itkCovariantVector.h>

1. include <string>

template<typename TImageType> void WriteFile(typename TImageType::Pointer image, std::string filename);

int main(int, char *[]) {

 typedef itk::Image< itk::CovariantVector<double, 4> , 2>  ImageType4;
 ImageType4::Pointer image4 = ImageType4::New();
 WriteFile<ImageType4>(image4, std::string("image4.mhd"));

 typedef itk::Image< itk::CovariantVector<double, 5> , 2>  ImageType5;
 ImageType5::Pointer image5 = ImageType5::New();
 WriteFile<ImageType5>(image5, std::string("image5.mhd"));

 return EXIT_SUCCESS;

}

template<typename TImageType> void WriteFile(typename TImageType::Pointer image, std::string filename) {

 // Create image
 typename TImageType::IndexType start;
 start[0] = 0;
 start[1] = 0;

 typename TImageType::SizeType size;
 size[0] = 20;
 size[1] = 30;

 typename TImageType::RegionType region;
 region.SetSize(size);
 region.SetIndex(start);

 image->SetRegions(region);
 image->Allocate();
 
 typedef typename itk::ImageFileWriter<TImageType> WriterType;
 typename WriterType::Pointer writer = WriterType::New();
 writer->SetInput(image);
 writer->SetFileName(filename);
 writer->Update();
 

}

template void WriteFile<itk::Image< itk::CovariantVector<double, 4> , 2> >(itk::Image< itk::CovariantVector<double, 4> , 2>::Pointer, std::string); template void WriteFile<itk::Image< itk::CovariantVector<double, 5> , 2> >(itk::Image< itk::CovariantVector<double, 5> , 2>::Pointer, std::string); </source>

CMakeLists.txt

<syntaxhighlight lang="cmake"> cmake_minimum_required(VERSION 3.9.5)

project(ReadUnknownImageType)

find_package(ITK REQUIRED) include(${ITK_USE_FILE}) if (ITKVtkGlue_LOADED)

 find_package(VTK REQUIRED)
 include(${VTK_USE_FILE})

endif()

add_executable(ReadUnknownImageType MACOSX_BUNDLE ReadUnknownImageType.cxx)

if( "${ITK_VERSION_MAJOR}" LESS 4 )

 target_link_libraries(ReadUnknownImageType ITKReview ${ITK_LIBRARIES})

else( "${ITK_VERSION_MAJOR}" LESS 4 )

 target_link_libraries(ReadUnknownImageType ${ITK_LIBRARIES})

endif( "${ITK_VERSION_MAJOR}" LESS 4 )

</syntaxhighlight>

Download and Build ReadUnknownImageType

Click here to download ReadUnknownImageType and its CMakeLists.txt file. Once the tarball ReadUnknownImageType.tar has been downloaded and extracted,

cd ReadUnknownImageType/build

• If ITK is installed:

cmake ..

• If ITK is not installed but compiled on your system, you will need to specify the path to your ITK build:

cmake -DITK_DIR:PATH=/home/me/itk_build ..

Build the project:

make

and run it:

./ReadUnknownImageType

WINDOWS USERS PLEASE NOTE: Be sure to add the ITK bin directory to your path. This will resolve the ITK dll's at run time.

Building All of the Examples

Many of the examples in the ITK Wiki Examples Collection require VTK. You can build all of the the examples by following these instructions. If you are a new VTK user, you may want to try the Superbuild which will build a proper ITK and VTK.

ItkVtkGlue

ITK >= 4

For examples that use QuickView (which depends on VTK), you must have built ITK with Module_ITKVtkGlue=ON.

ITK < 4

Some of the ITK Examples require VTK to display the images. If you download the entire ITK Wiki Examples Collection, the ItkVtkGlue directory will be included and configured. If you wish to just build a few examples, then you will need to download ItkVtkGlue and build it. When you run cmake it will ask you to specify the location of the ItkVtkGlue binary directory.