1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
|
/************************************************************************
*
* Copyright (C) 2009-2025 IRCAD France
* Copyright (C) 2012-2020 IHU Strasbourg
*
* 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/inr_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 <itkImageIOFactory.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)
{
::itk::ImageIOBase::Pointer image_io = ::itk::ImageIOFactory::CreateImageIO(
_image_file_name.c_str(),
::itk::ImageIOFactory::ReadMode
);
if(image_io == nullptr)
{
const std::string err_msg = "no ImageIOFactory found to read header of file : " + _image_file_name;
throw(std::ios_base::failure(err_msg));
}
image_io->SetFileName(_image_file_name.c_str());
image_io->ReadImageInformation();
auto type = image_io->GetComponentType();
return sight::io::itk::ITK_TYPE_CONVERTER.at(type);
}
//------------------------------------------------------------------------------
void inr_image_reader::read(sight::core::progress::observer::sptr _progress)
{
auto do_read =
[]<class PIXEL_TYPE>(
data::image::sptr _data_image,
std::string _filename,
core::progress::observer::sptr _observer
)
{
SIGHT_INFO(
"::io::itk::InrImageReader::InrLoaderFunctor with PIXELTYPE "
<< core::type::get<PIXEL_TYPE>().name()
);
// Reader IO (*1*)
typename ::itk::ImageIOBase::Pointer image_io_read = ::itk::ImageIOFactory::CreateImageIO(
_filename.c_str(),
::itk::ImageIOFactory::ReadMode
);
// the reader
using image_t = ::itk::Image<PIXEL_TYPE, 3>;
using reader_t = ::itk::ImageFileReader<image_t>;
typename reader_t::Pointer reader = reader_t::New();
progressor progress(reader, _observer);
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, *_data_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()); // verify that data::image is well
// produced
// 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
|
