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/************************************************************************
*
* Copyright (C) 2022-2025 IRCAD France
*
* This file is part of Sight.
*
* Sight is free software: you can redistribute it and/or modify it under
* the terms of the GNU Lesser General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* Sight is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public
* License along with Sight. If not, see <https://www.gnu.org/licenses/>.
*
***********************************************************************/
#include "io/itk/nifti_image_reader.hpp"
#include "factory/inr_image_io_factory.hpp"
#include "io/itk/helper/progress_itk_to_fw.hpp"
#include "io/itk/itk.hpp"
#include <core/base.hpp>
#include <core/tools/dispatcher.hpp>
#include <data/image.hpp>
#include <itkImageFileReader.h>
#include <itkNiftiImageIO.h>
#include <filesystem>
namespace sight::io::itk
{
//------------------------------------------------------------------------------
//// get pixel type from Header
static const core::type& get_image_type(const std::string& _image_file_name)
{
typename ::itk::NiftiImageIO::Pointer image_io = ::itk::NiftiImageIO::New();
image_io->SetFileName(_image_file_name.c_str());
image_io->ReadImageInformation();
auto itk_type = image_io->GetComponentType();
return sight::io::itk::ITK_TYPE_CONVERTER.at(itk_type);
}
//------------------------------------------------------------------------------
void nifti_image_reader::read(sight::core::progress::observer::sptr _progress)
{
auto do_read =
[]<class PIXELTYPE>(data::image::sptr _image,
const std::string& _filename,
core::progress::observer::sptr _progress)
{
SIGHT_INFO(
"::io::itk::NiftiImageReader::NiftiLoaderFunctor with PIXELTYPE "
<< core::type::get<PIXELTYPE>().name()
);
// Reader IO (*1*)
typename ::itk::NiftiImageIO::Pointer image_io_read = ::itk::NiftiImageIO::New();
image_io_read->SetFileName(_filename.c_str());
image_io_read->ReadImageInformation();
// the reader
using image_t = ::itk::Image<PIXELTYPE, 3>;
using reader_t = ::itk::ImageFileReader<image_t>;
typename reader_t::Pointer reader = reader_t::New();
progressor progress(reader, _progress);
reader->SetFileName(_filename);
// attach its IO (*3*)
reader->SetImageIO(image_io_read);
reader->Update();
typename image_t::Pointer itkimage = reader->GetOutput();
io::itk::move_from_itk<image_t>(itkimage, *_image);
};
const std::filesystem::path file = get_file();
SIGHT_ASSERT("File: " << file << " doesn't exist", std::filesystem::exists(file));
SIGHT_ASSERT("Object expired", !m_object.expired());
SIGHT_ASSERT("Object null", m_object.lock());
const core::type type = get_image_type(file.string());
using sight::core::tools::dispatcher;
using sight::core::tools::intrinsic_types;
dispatcher<intrinsic_types, decltype(do_read)>::invoke(type, this->get_concrete_object(), file.string(), _progress);
SIGHT_ASSERT("sight::data::image is not well produced", m_object.lock());
// Post Condition image with a pixel type
SIGHT_ASSERT(
"Image has an unspecified type",
get_concrete_object()->type() != core::type::NONE
);
}
//------------------------------------------------------------------------------
} // namespace sight::io::itk
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