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/* -*- mia-c++ -*-
*
* This file is part of MIA - a toolbox for medical image analysis
* Copyright (c) Leipzig, Madrid 1999-2017 Gert Wollny
*
* MIA is free software; you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation; either version 3 of the License, or
* (at your option) any later version.
*
* This program 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 General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with MIA; if not, see <http://www.gnu.org/licenses/>.
*
*/
#define VSTREAM_DOMAIN "NiftiImageIOtest"
#include <mia/internal/autotest.hh>
#include <boost/mpl/vector.hpp>
#include <nifti/niftiimage.hh>
#include <unistd.h>
using namespace mia;
using namespace std;
using namespace niftiimage;
namespace bmpl = boost::mpl;
typedef bmpl::vector<int8_t,
uint8_t,
int16_t,
uint16_t,
int32_t,
uint32_t,
int64_t,
uint64_t,
float,
double
> test_types;
BOOST_AUTO_TEST_CASE_TEMPLATE( test_simple_write_read_with_qform, T, test_types )
{
C3DBounds size(2, 3, 4);
T3DImage<T> *image = new T3DImage<T>(size);
P3DImage pimage(image);
C3DFVector voxel(2.0, 3.0, 4.0);
C3DFVector origin(10, 20, 30);
Quaternion rot(0.5, 0.1, 0.5, 0.7);
auto iv = image->begin();
auto ev = image->end();
int i = 0;
while (iv != ev)
*iv++ = i++;
pimage->set_voxel_size(voxel);
pimage->set_origin(origin);
pimage->set_rotation(rot);
pimage->set_attribute("nifti-qform-code", 1);
CNifti3DImageIOPlugin io;
CNifti3DImageIOPlugin::Data images;
images.push_back(pimage);
stringstream filename;
filename << "testimage-sform-" << __type_descr<T>::value << ".nii";
cvdebug() << "test with " << filename.str() << "\n";
BOOST_REQUIRE(io.save(filename.str(), images));
auto loaded = io.load(filename.str());
BOOST_REQUIRE(loaded);
BOOST_REQUIRE(loaded->size() == 1u);
const auto& ploaded = dynamic_cast<const T3DImage<T>&>(*(*loaded)[0]);
iv = image->begin();
auto il = ploaded.begin();
while (iv != ev) {
BOOST_CHECK_EQUAL(*il, *iv);
++iv;
++il;
}
BOOST_CHECK_EQUAL(ploaded.get_voxel_size(), voxel);
BOOST_CHECK_CLOSE(ploaded.get_origin().x, origin.x, 0.001);
BOOST_CHECK_CLOSE(ploaded.get_origin().y, origin.y, 0.001);
BOOST_CHECK_CLOSE(ploaded.get_origin().z, origin.z, 0.001);
auto qloaded = ploaded.get_rotation().as_quaternion();
BOOST_CHECK_CLOSE(qloaded.x(), rot.x(), 0.001);
BOOST_CHECK_CLOSE(qloaded.y(), rot.y(), 0.001);
BOOST_CHECK_CLOSE(qloaded.z(), rot.z(), 0.001);
BOOST_CHECK_CLOSE(qloaded.w(), rot.w(), 0.001);
unlink(filename.str().c_str());
}
BOOST_AUTO_TEST_CASE_TEMPLATE( test_simple_write_read_write_with_sform, T, test_types )
{
C3DBounds size(2, 3, 4);
T3DImage<T> *image = new T3DImage<T>(size);
P3DImage pimage(image);
C3DFVector voxel(2.0, 3.0, 4.0);
C3DFVector origin(10, 20, 30);
Quaternion rot(0.5, 0.1, 0.5, 0.7);
auto iv = image->begin();
auto ev = image->end();
int i = 0;
while (iv != ev)
*iv++ = i++;
pimage->set_voxel_size(voxel);
pimage->set_origin(origin);
pimage->set_rotation(rot);
pimage->set_attribute("nifti-sform-code", 1);
vector<float> am = {1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15};
pimage->set_attribute("nifti-sform", am);
CNifti3DImageIOPlugin io;
CNifti3DImageIOPlugin::Data images;
images.push_back(pimage);
stringstream filename;
filename << "testimage-" << __type_descr<T>::value << ".nii";
cvdebug() << "test with " << filename.str() << "\n";
BOOST_REQUIRE(io.save(filename.str(), images));
auto loaded = io.load(filename.str());
BOOST_REQUIRE(loaded);
BOOST_REQUIRE(loaded->size() == 1u);
const auto& ploaded = dynamic_cast<const T3DImage<T>&>(*(*loaded)[0]);
iv = image->begin();
auto il = ploaded.begin();
while (iv != ev) {
BOOST_CHECK_EQUAL(*il, *iv);
++iv;
++il;
}
BOOST_CHECK_EQUAL(ploaded.get_voxel_size(), voxel);
BOOST_CHECK_CLOSE(ploaded.get_origin().x, origin.x, 0.001);
BOOST_CHECK_CLOSE(ploaded.get_origin().y, origin.y, 0.001);
BOOST_CHECK_CLOSE(ploaded.get_origin().z, origin.z, 0.001);
auto qloaded = ploaded.get_rotation().as_quaternion();
BOOST_CHECK_CLOSE(qloaded.x(), rot.x(), 0.001);
BOOST_CHECK_CLOSE(qloaded.y(), rot.y(), 0.001);
BOOST_CHECK_CLOSE(qloaded.z(), rot.z(), 0.001);
BOOST_CHECK_CLOSE(qloaded.w(), rot.w(), 0.001);
unlink(filename.str().c_str());
// try saving again to check attribute translation
BOOST_REQUIRE(io.save(filename.str(), *loaded));
unlink(filename.str().c_str());
}
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