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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.
*
*=========================================================================*/
#include "itkGTest.h"
#include "itkImage.h"
#include "itkLabelImageToStatisticsLabelMapFilter.h"
#include "itkImageRegionIterator.h"
#include <algorithm>
namespace
{
class StatisticsLabelMapFixture : public ::testing::Test
{
public:
StatisticsLabelMapFixture() = default;
~StatisticsLabelMapFixture() override = default;
protected:
void
SetUp() override
{}
void
TearDown() override
{}
template <unsigned int D, typename TPixelType = unsigned short>
struct FixtureUtilities
{
static const unsigned int Dimension = D;
using PixelType = TPixelType;
using ImageType = itk::Image<PixelType, Dimension>;
using LabelPixelType = unsigned char;
using LabelImageType = itk::Image<LabelPixelType, Dimension>;
using LabelObjectType = itk::StatisticsLabelObject<LabelPixelType, Dimension>;
using StatisticsLabelMapType = itk::LabelMap<LabelObjectType>;
static typename ImageType::Pointer
CreateImage()
{
auto image = ImageType::New();
typename ImageType::SizeType imageSize;
imageSize.Fill(25);
image->SetRegions(typename ImageType::RegionType(imageSize));
image->Allocate();
image->FillBuffer(0);
return image;
}
static typename ImageType::Pointer
CreateImageRandom(PixelType randMax = 500, unsigned int randSeed = 0)
{
auto image = ImageType::New();
typename ImageType::SizeType imageSize;
imageSize.Fill(25);
image->SetRegions(typename ImageType::RegionType(imageSize));
image->Allocate();
image->FillBuffer(0);
srand(randSeed);
itk::ImageRegionIterator<ImageType> it(image, image->GetLargestPossibleRegion());
while (!it.IsAtEnd())
{
it.Set(rand() % randMax);
++it;
}
return image;
}
static typename LabelImageType::Pointer
CreateLabelImage()
{
auto image = LabelImageType::New();
typename LabelImageType::SizeType imageSize;
imageSize.Fill(25);
image->SetRegions(typename ImageType::RegionType(imageSize));
image->Allocate();
image->FillBuffer(0);
return image;
}
static typename LabelObjectType::ConstPointer
ComputeLabelObject(const LabelImageType * labelImage,
const ImageType * image,
const PixelType label = 1,
const size_t numberOfBins = 0)
{
auto l2s = itk::LabelImageToStatisticsLabelMapFilter<LabelImageType, ImageType>::New();
l2s->SetInput1(labelImage);
l2s->SetFeatureImage(image);
l2s->ComputeFeretDiameterOn();
l2s->ComputePerimeterOn();
// l2s->ComputeOrientedBoundingBoxOn();
l2s->ComputeHistogramOn();
if (numberOfBins != 0)
{
l2s->SetNumberOfBins(numberOfBins);
}
l2s->Update();
return l2s->GetOutput()->GetLabelObject(label);
}
static double
ComputeExactMedian(const LabelObjectType * labelObject, const ImageType * image)
{
std::vector<PixelType> values;
typename LabelObjectType::ConstIndexIterator it(labelObject);
while (!it.IsAtEnd())
{
const typename ImageType::IndexType & idx = it.GetIndex();
values.push_back(image->GetPixel(idx));
++it;
}
std::sort(values.begin(), values.end());
assert(!values.empty());
auto n1 = values.size() / 2;
if (values.size() % 2 == 0)
{
return 0.5 * (static_cast<double>(values[n1]) + static_cast<double>(values[n1 - 1]));
}
return values[n1];
}
};
};
} // namespace
TEST_F(StatisticsLabelMapFixture, 2D_zero)
{
using Utils = FixtureUtilities<2, unsigned char>;
using namespace itk::GTest::TypedefsAndConstructors::Dimension2;
auto image = Utils::CreateImage();
auto labelImage = Utils ::CreateLabelImage();
Utils::LabelPixelType label = 1;
labelImage->FillBuffer(label);
Utils::LabelObjectType::ConstPointer labelObject = Utils::ComputeLabelObject(labelImage, image, 1, 1 << 8);
ASSERT_GT(labelObject->Size(), 0);
EXPECT_NEAR(0.0, labelObject->GetMinimum(), 1e-12);
EXPECT_NEAR(0.0, labelObject->GetMaximum(), 1e-12);
EXPECT_NEAR(Utils::ComputeExactMedian(labelObject, image), labelObject->GetMedian(), 1e-12);
EXPECT_NEAR(0.0, labelObject->GetSum(), 1e-12);
EXPECT_NEAR(0.0, labelObject->GetVariance(), 1e-12);
EXPECT_NEAR(0.0, labelObject->GetStandardDeviation(), 0.5);
if (::testing::Test::HasFailure())
{
labelObject->Print(std::cout);
}
}
TEST_F(StatisticsLabelMapFixture, 2D_ones_with_outliers)
{
using Utils = FixtureUtilities<2, short>;
using namespace itk::GTest::TypedefsAndConstructors::Dimension2;
auto image = Utils::CreateImage();
Utils::PixelType value = 1;
image->FillBuffer(value);
// Test with outliers outside the label.
image->SetPixel(itk::MakeIndex(0, 0), 32000);
image->SetPixel(itk::MakeIndex(0, 1), -32000);
auto labelImage = Utils ::CreateLabelImage();
Utils::LabelPixelType label = 1;
labelImage->FillBuffer(label);
labelImage->SetPixel(itk::MakeIndex(0, 0), 0);
labelImage->SetPixel(itk::MakeIndex(0, 1), 0);
Utils::LabelObjectType::ConstPointer labelObject = Utils::ComputeLabelObject(labelImage, image, label, 1 << 16);
ASSERT_GT(labelObject->Size(), 0);
EXPECT_NEAR(value, labelObject->GetMinimum(), 1e-12);
EXPECT_NEAR(value, labelObject->GetMaximum(), 1e-12);
EXPECT_NEAR(Utils::ComputeExactMedian(labelObject, image), labelObject->GetMedian(), 1e-12);
EXPECT_NEAR(25 * 25 - 2, labelObject->GetSum(), 1e-12);
EXPECT_NEAR(0.0, labelObject->GetVariance(), 1e-12);
EXPECT_NEAR(0.0, labelObject->GetStandardDeviation(), 1e-12);
if (::testing::Test::HasFailure())
{
labelObject->Print(std::cout);
}
}
TEST_F(StatisticsLabelMapFixture, 2D_rand_with_outliers)
{
using Utils = FixtureUtilities<2, short>;
using namespace itk::GTest::TypedefsAndConstructors::Dimension2;
auto image = Utils::CreateImageRandom(500, 0);
auto labelImage = Utils ::CreateLabelImage();
// Test with outliers outside the label.
image->SetPixel(itk::MakeIndex(0, 0), 32000);
image->SetPixel(itk::MakeIndex(0, 1), -2000);
// Set min/max in label
image->SetPixel(itk::MakeIndex(0, 2), 0);
image->SetPixel(itk::MakeIndex(0, 3), 500);
Utils::LabelPixelType label = 1;
labelImage->FillBuffer(label);
labelImage->SetPixel(itk::MakeIndex(0, 0), 0);
labelImage->SetPixel(itk::MakeIndex(0, 1), 0);
Utils::LabelObjectType::ConstPointer labelObject = Utils::ComputeLabelObject(labelImage, image, label, 1 << 16);
ASSERT_GT(labelObject->Size(), 0);
EXPECT_NEAR(0.0, labelObject->GetMinimum(), 1e-12);
EXPECT_NEAR(500.0, labelObject->GetMaximum(), 1e-12);
EXPECT_NEAR(Utils::ComputeExactMedian(labelObject, image), labelObject->GetMedian(), 1e-12);
if (::testing::Test::HasFailure())
{
labelObject->Print(std::cout);
}
}
TEST_F(StatisticsLabelMapFixture, 2D_even)
{
using Utils = FixtureUtilities<2, unsigned char>;
using namespace itk::GTest::TypedefsAndConstructors::Dimension2;
auto image = Utils::CreateImage();
auto labelImage = Utils ::CreateLabelImage();
// Set label with two elements far apart, the median should be average
image->SetPixel(itk::MakeIndex(0, 0), 10);
image->SetPixel(itk::MakeIndex(0, 1), 100);
image->SetPixel(itk::MakeIndex(0, 2), 1);
image->SetPixel(itk::MakeIndex(0, 3), 200);
Utils::LabelPixelType label = 1;
labelImage->SetPixel(itk::MakeIndex(0, 0), label);
labelImage->SetPixel(itk::MakeIndex(0, 1), label);
labelImage->SetPixel(itk::MakeIndex(0, 2), label);
labelImage->SetPixel(itk::MakeIndex(0, 3), label);
Utils::LabelObjectType::ConstPointer labelObject = Utils::ComputeLabelObject(labelImage, image, label, 1 << 8);
ASSERT_GT(labelObject->Size(), 0);
EXPECT_NEAR(1.0, labelObject->GetMinimum(), 1e-12);
EXPECT_NEAR(200.0, labelObject->GetMaximum(), 1e-12);
EXPECT_NEAR(Utils::ComputeExactMedian(labelObject, image), labelObject->GetMedian(), 1e-12);
EXPECT_NEAR(311.0, labelObject->GetSum(), 1e-12);
EXPECT_NEAR(8640.25, labelObject->GetVariance(), 1e-10);
EXPECT_NEAR(92.95294, labelObject->GetStandardDeviation(), 1e-5);
if (::testing::Test::HasFailure())
{
labelObject->Print(std::cout);
}
}
TEST_F(StatisticsLabelMapFixture, 2D_three)
{
using Utils = FixtureUtilities<2, unsigned char>;
using namespace itk::GTest::TypedefsAndConstructors::Dimension2;
auto image = Utils::CreateImage();
auto labelImage = Utils ::CreateLabelImage();
// Set label with two elements far apart, the median should be average
image->SetPixel(itk::MakeIndex(0, 0), 1);
image->SetPixel(itk::MakeIndex(0, 1), 3);
image->SetPixel(itk::MakeIndex(0, 2), 10);
Utils::LabelPixelType label = 1;
labelImage->SetPixel(itk::MakeIndex(0, 0), label);
labelImage->SetPixel(itk::MakeIndex(0, 1), label);
labelImage->SetPixel(itk::MakeIndex(0, 2), label);
Utils::LabelObjectType::ConstPointer labelObject = Utils::ComputeLabelObject(labelImage, image, label, 1 << 8);
ASSERT_GT(labelObject->Size(), 0);
EXPECT_NEAR(1.0, labelObject->GetMinimum(), 1e-12);
EXPECT_NEAR(10.0, labelObject->GetMaximum(), 1e-12);
EXPECT_NEAR(Utils::ComputeExactMedian(labelObject, image), labelObject->GetMedian(), 1e-12);
EXPECT_NEAR(14.0, labelObject->GetSum(), 1e-12);
EXPECT_NEAR(22.33333, labelObject->GetVariance(), 1e-5);
EXPECT_NEAR(4.725815, labelObject->GetStandardDeviation(), 1e-5);
if (::testing::Test::HasFailure())
{
labelObject->Print(std::cout);
}
}
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