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/*=========================================================================
*
* Copyright NumFOCUS
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* https://www.apache.org/licenses/LICENSE-2.0.txt
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*
*=========================================================================*/
#ifndef itkIOTestHelper_h
#define itkIOTestHelper_h
#include "ITKIOImageBaseExport.h"
#include <string>
#include "itksys/SystemTools.hxx"
#include "itkImageFileWriter.h"
#include "itkImageFileReader.h"
#include "vnl/vnl_random.h"
namespace itk
{
class IOTestHelper
{
public:
template <typename TImage>
static typename TImage::Pointer
ReadImage(const std::string & fileName,
const bool zeroOrigin = false,
typename ImageIOBase::Pointer imageio = nullptr)
{
using ReaderType = itk::ImageFileReader<TImage>;
auto reader = ReaderType::New();
{
if (imageio)
{
reader->SetImageIO(imageio);
}
reader->SetFileName(fileName.c_str());
try
{
reader->Update();
}
catch (const itk::ExceptionObject & err)
{
std::cout << "Caught an exception: " << std::endl;
std::cout << err << ' ' << __FILE__ << ' ' << __LINE__ << std::endl;
throw;
}
catch (...)
{
std::cout << "Error while reading in image for patient " << fileName << std::endl;
throw;
}
}
typename TImage::Pointer image = reader->GetOutput();
if (zeroOrigin)
{
double origin[TImage::ImageDimension];
for (unsigned int i = 0; i < TImage::ImageDimension; ++i)
{
origin[i] = 0;
}
image->SetOrigin(origin);
}
return image;
}
template <typename ImageType, typename ImageIOType>
static void
WriteImage(typename ImageType::Pointer image,
const std::string & filename,
typename ImageIOType::Pointer imageio = nullptr)
{
const bool create_local_io_object{ imageio.IsNull() };
using WriterType = itk::ImageFileWriter<ImageType>;
{ // Test valid filename writing
if (create_local_io_object)
{
imageio = ImageIOType::New();
}
auto writer = WriterType::New();
writer->SetImageIO(imageio);
writer->SetFileName(filename);
writer->SetInput(image);
try
{
writer->Update();
}
catch (const itk::ExceptionObject & err)
{
std::cerr << "Exception Object caught: " << std::endl << err << std::endl;
throw;
}
}
{ // Test if writing to an invalid location causes exception to be thrown:
imageio = imageio->Clone(); // A new io object is needed because the HDF5 io object is single use. A new IO
// object is needed to re-initialize the internal state.
const std::string bad_root_path{ "/a_blatantly_obvious/bad_file_path/that/should/never/exist/on/the/computer/" };
const std::string bad_filename{ bad_root_path + filename };
bool exception_correctly_caught = false;
auto writer = WriterType::New();
writer->SetImageIO(imageio);
writer->SetFileName(bad_filename);
writer->SetInput(image);
try
{
writer->Update();
}
catch (const itk::ExceptionObject & /* err */)
{
// This is the correct behavior
std::cout << "Correctly caught exception for attempting to write to an invalid file." << std::endl;
exception_correctly_caught = true;
}
catch (...)
{
itkGenericExceptionMacro("IO library exception not converted to an itk::ExceptionObject.");
}
if (!exception_correctly_caught)
{
itkGenericExceptionMacro("Invalid file writing path did not throw an exception: " << bad_filename << " with "
<< imageio->GetNameOfClass());
}
}
}
//
// generate random pixels of various types
static void
RandomPix(vnl_random & randgen, itk::RGBPixel<unsigned char> & pix)
{
for (unsigned int i = 0; i < 3; ++i)
{
pix[i] = randgen.lrand32(itk::NumericTraits<unsigned char>::max());
}
}
template <typename TPixel>
static void
RandomPix(vnl_random & randgen, TPixel & pix)
{
pix = randgen.lrand32(itk::NumericTraits<TPixel>::max());
}
static void
RandomPix(vnl_random & randgen, long long & pix)
{
pix = randgen.lrand32(itk::NumericTraits<int>::max());
pix = (pix << 32) | randgen.lrand32();
}
static void
RandomPix(vnl_random & randgen, unsigned long long & pix)
{
pix = randgen.lrand32();
pix = (pix << 32) | randgen.lrand32();
}
static void
RandomPix(vnl_random & randgen, double & pix)
{
pix = randgen.drand64(itk::NumericTraits<double>::max());
}
static void
RandomPix(vnl_random & randgen, float & pix)
{
pix = randgen.drand64(itk::NumericTraits<float>::max());
}
static int
Remove(const char * fname)
{
return static_cast<bool>(itksys::SystemTools::RemoveFile(fname));
}
template <typename ImageType>
static void
SetIdentityDirection(typename ImageType::Pointer & im)
{
typename ImageType::DirectionType dir;
dir.SetIdentity();
im->SetDirection(dir);
}
template <typename ImageType>
static typename ImageType::Pointer
AllocateImageFromRegionAndSpacing(const typename ImageType::RegionType & region,
const typename ImageType::SpacingType & spacing)
{
auto rval = ImageType::New();
SetIdentityDirection<ImageType>(rval);
rval->SetSpacing(spacing);
rval->SetRegions(region);
rval->Allocate();
return rval;
}
template <typename ImageType>
static typename ImageType::Pointer
AllocateImageFromRegionAndSpacing(const typename ImageType::RegionType & region,
const typename ImageType::SpacingType & spacing,
int vecLength)
{
auto rval = ImageType::New();
rval->SetSpacing(spacing);
rval->SetRegions(region);
rval->SetVectorLength(vecLength);
rval->Allocate();
return rval;
}
};
} // namespace itk
#endif // itkIOTestHelper_h
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