From 5d22317a72ab90a8856dfd51c60595efcf512b5e Mon Sep 17 00:00:00 2001
From: Rashad Kanavath <mohammed.rashad-km@cnes.fr>
Date: Sun, 4 May 2014 21:21:22 -0400
Subject: [PATCH] ENH: Add dissimilarity texture in to advanced haralick
textures
---
.../otbHaralickTextureExtraction.cxx | 3 +-
.../otbScalarImageToAdvancedTexturesFilter.h | 5 ++
...otbScalarImageToAdvancedTexturesFilter.txx | 81 +++++++++++++------
3 files changed, 61 insertions(+), 28 deletions(-)
diff --git a/Applications/FeatureExtraction/otbHaralickTextureExtraction.cxx b/Applications/FeatureExtraction/otbHaralickTextureExtraction.cxx
index 21c4bd282e..d7664f249c 100644
--- a/Applications/FeatureExtraction/otbHaralickTextureExtraction.cxx
+++ b/Applications/FeatureExtraction/otbHaralickTextureExtraction.cxx
@@ -28,8 +28,6 @@
#include "otbImageList.h"
#include "otbImageListToVectorImageFilter.h"
-#include "itkTimeProbe.h"
-
namespace otb
{
namespace Wrapper
@@ -239,6 +237,7 @@ void DoExecute()
m_AdvTexFilter->SetNumberOfBinsPerAxis(GetParameterInt("parameters.nbbin"));
m_AdvImageList->PushBack(m_AdvTexFilter->GetMeanOutput());
m_AdvImageList->PushBack(m_AdvTexFilter->GetVarianceOutput());
+ m_AdvImageList->PushBack(m_AdvTexFilter->GetDissimilarityOutput());
m_AdvImageList->PushBack(m_AdvTexFilter->GetSumAverageOutput());
m_AdvImageList->PushBack(m_AdvTexFilter->GetSumVarianceOutput());
m_AdvImageList->PushBack(m_AdvTexFilter->GetSumEntropyOutput());
diff --git a/Code/FeatureExtraction/otbScalarImageToAdvancedTexturesFilter.h b/Code/FeatureExtraction/otbScalarImageToAdvancedTexturesFilter.h
index 7b91d5d0e1..c7b6571e50 100644
--- a/Code/FeatureExtraction/otbScalarImageToAdvancedTexturesFilter.h
+++ b/Code/FeatureExtraction/otbScalarImageToAdvancedTexturesFilter.h
@@ -36,6 +36,8 @@ namespace otb
*
* "Sum of squares: Variance" \f$ = f_4 = \sum_{i, j}(i - \mu)^2 g(i, j) \f$
*
+ * "Dissimilarity" \f$ = f_5 = \sum_{i, j}(i - j) g(i, j)^2 \f$
+ *
* "Sum average" \f$ = f_6 = -\sum_{i}i g_{x+y}(i)
*
* "Sum Variance" \f$ = f_7 = \sum_{i}(i - f_8)^2 g_{x+y}(i) \f$
@@ -178,6 +180,9 @@ public:
/** Get the variance output image */
OutputImageType * GetVarianceOutput();
+ /** Get the dissimilarity output image */
+ OutputImageType * GetDissimilarityOutput();
+
/** Get the sum average output image */
OutputImageType * GetSumAverageOutput();
diff --git a/Code/FeatureExtraction/otbScalarImageToAdvancedTexturesFilter.txx b/Code/FeatureExtraction/otbScalarImageToAdvancedTexturesFilter.txx
index c2866ef261..0593b93754 100644
--- a/Code/FeatureExtraction/otbScalarImageToAdvancedTexturesFilter.txx
+++ b/Code/FeatureExtraction/otbScalarImageToAdvancedTexturesFilter.txx
@@ -37,10 +37,10 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
m_InputImageMinimum(0),
m_InputImageMaximum(255)
{
- // There are 9 outputs corresponding to the 8 textures indices
- this->SetNumberOfRequiredOutputs(9);
+ // There are 10 outputs corresponding to the 9 textures indices
+ this->SetNumberOfRequiredOutputs(10);
- // Create the 9 outputs
+ // Create the 10 outputs
this->SetNthOutput(0, OutputImageType::New());
this->SetNthOutput(1, OutputImageType::New());
this->SetNthOutput(2, OutputImageType::New());
@@ -50,18 +50,18 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
this->SetNthOutput(6, OutputImageType::New());
this->SetNthOutput(7, OutputImageType::New());
this->SetNthOutput(8, OutputImageType::New());
+ this->SetNthOutput(9, OutputImageType::New());
}
template <class TInputImage, class TOutputImage>
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::~ScalarImageToAdvancedTexturesFilter()
{}
-
template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetVarianceOutput()
+::GetMeanOutput()
{
if (this->GetNumberOfOutputs() < 1)
{
@@ -74,7 +74,7 @@ template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetSumAverageOutput()
+::GetVarianceOutput()
{
if (this->GetNumberOfOutputs() < 2)
{
@@ -87,7 +87,7 @@ template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetSumVarianceOutput()
+::GetDissimilarityOutput()
{
if (this->GetNumberOfOutputs() < 3)
{
@@ -100,7 +100,7 @@ template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetSumEntropyOutput()
+::GetSumAverageOutput()
{
if (this->GetNumberOfOutputs() < 4)
{
@@ -113,7 +113,7 @@ template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetDifferenceEntropyOutput()
+::GetSumVarianceOutput()
{
if (this->GetNumberOfOutputs() < 5)
{
@@ -126,7 +126,7 @@ template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetDifferenceVarianceOutput()
+::GetSumEntropyOutput()
{
if (this->GetNumberOfOutputs() < 6)
{
@@ -139,7 +139,7 @@ template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetIC1Output()
+::GetDifferenceEntropyOutput()
{
if (this->GetNumberOfOutputs() < 7)
{
@@ -152,7 +152,7 @@ template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetIC2Output()
+::GetDifferenceVarianceOutput()
{
if (this->GetNumberOfOutputs() < 8)
{
@@ -165,15 +165,28 @@ template <class TInputImage, class TOutputImage>
typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
::OutputImageType *
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
-::GetMeanOutput()
+::GetIC1Output()
{
- if (this->GetNumberOfOutputs() < 1)
+ if (this->GetNumberOfOutputs() < 9)
{
return 0;
}
return static_cast<OutputImageType *>(this->GetOutput(8));
}
+template <class TInputImage, class TOutputImage>
+typename ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
+::OutputImageType *
+ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
+::GetIC2Output()
+{
+ if (this->GetNumberOfOutputs() < 10)
+ {
+ return 0;
+ }
+ return static_cast<OutputImageType *>(this->GetOutput(9));
+}
+
template <class TInputImage, class TOutputImage>
void
ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
@@ -275,6 +288,7 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
InputImagePointerType inputPtr = const_cast<InputImageType *>(this->GetInput());
OutputImagePointerType meanPtr = this->GetMeanOutput();
OutputImagePointerType variancePtr = this->GetVarianceOutput();
+ OutputImagePointerType dissimilarityPtr = this->GetDissimilarityOutput();
OutputImagePointerType sumAveragePtr = this->GetSumAverageOutput();
OutputImagePointerType sumVariancePtr = this->GetSumVarianceOutput();
OutputImagePointerType sumEntropytPtr = this->GetSumEntropyOutput();
@@ -286,6 +300,7 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
// Build output iterators
itk::ImageRegionIteratorWithIndex<OutputImageType> varianceIt(variancePtr, outputRegionForThread);
itk::ImageRegionIterator<OutputImageType> meanIt(meanPtr, outputRegionForThread);
+ itk::ImageRegionIterator<OutputImageType> dissimilarityIt(dissimilarityPtr, outputRegionForThread);
itk::ImageRegionIterator<OutputImageType> sumAverageIt(sumAveragePtr, outputRegionForThread);
itk::ImageRegionIterator<OutputImageType> sumVarianceIt(sumVariancePtr, outputRegionForThread);
itk::ImageRegionIterator<OutputImageType> sumEntropytIt(sumEntropytPtr, outputRegionForThread);
@@ -297,6 +312,7 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
// Go to begin
varianceIt.GoToBegin();
meanIt.GoToBegin();
+ dissimilarityIt.GoToBegin();
sumAverageIt.GoToBegin();
sumVarianceIt.GoToBegin();
sumEntropytIt.GoToBegin();
@@ -313,6 +329,7 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
// Iterate on outputs to compute textures
while (!varianceIt.IsAtEnd()
&& !meanIt.IsAtEnd()
+ && !dissimilarityIt.IsAtEnd()
&& !sumAverageIt.IsAtEnd()
&& !sumVarianceIt.IsAtEnd()
&& !sumEntropytIt.IsAtEnd()
@@ -350,6 +367,8 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
GreyLevelCooccurrenceListType glcList;
TotalAbsoluteFrequencyType totalFrequency = 0;
+ const double minSizeHist = std::min (m_Histogram->GetSize()[0], m_Histogram->GetSize()[1]);
+
neighborIt = NeighborhoodIteratorType(m_NeighborhoodRadius, inputPtr, inputRegion);
for ( neighborIt.GoToBegin(); !neighborIt.IsAtEnd(); ++neighborIt )
{
@@ -423,14 +442,15 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
totalFrequency = totalFrequency + 2;
}
- MeasurementType m_Mean = itk::NumericTraits< MeasurementType >::Zero;
- MeasurementType m_Variance = itk::NumericTraits< MeasurementType >::Zero;
- MeasurementType m_SumAverage = itk::NumericTraits< MeasurementType >::Zero;
- MeasurementType m_SumEntropy = itk::NumericTraits< MeasurementType >::Zero;
- MeasurementType m_SumVariance = itk::NumericTraits< MeasurementType >::Zero;
+ MeasurementType m_Mean = itk::NumericTraits< MeasurementType >::Zero;
+ MeasurementType m_Variance = itk::NumericTraits< MeasurementType >::Zero;
+ MeasurementType m_Dissimilarity = itk::NumericTraits< MeasurementType >::Zero;
+ MeasurementType m_SumAverage = itk::NumericTraits< MeasurementType >::Zero;
+ MeasurementType m_SumEntropy = itk::NumericTraits< MeasurementType >::Zero;
+ MeasurementType m_SumVariance = itk::NumericTraits< MeasurementType >::Zero;
MeasurementType m_DifferenceEntropy = itk::NumericTraits< MeasurementType >::Zero;
MeasurementType m_DifferenceVariance = itk::NumericTraits< MeasurementType >::Zero;
- MeasurementType m_IC1 = itk::NumericTraits< MeasurementType >::Zero;
+ MeasurementType m_IC1 = itk::NumericTraits< MeasurementType >::Zero;
MeasurementType m_IC2 = itk::NumericTraits< MeasurementType >::Zero;
double Entropy = 0;
@@ -488,8 +508,6 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
++vectorIt;
}
- double minSizeHist = std::min (m_Histogram->GetSize()[0], m_Histogram->GetSize()[1]);
-
//second pass over normalized co-occurrence list to find variance and pipj.
//pipj is needed to calculate f11
vectorIt = glcList.begin();
@@ -539,14 +557,23 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
/* pipj computed below is totally different from earlier one which was used
* to compute hxy1. This need to force an iterator over entire histogram.
- Processing time is propotional to the m_NumberOfBins */
+ Processing time is propotional to the histogram bin size */
double hxy2 = 0;
- for(long unsigned int i = 0; i < histSize; ++i)
+ for(int i = 0; i < histSize; ++i)
{
- for(long unsigned int j = 0; j < histSize; ++j)
+ for(int j = 0; j < histSize; ++j)
{
double pipj = hx[j] * hy[i];
hxy2 -= (pipj > 0.0001) ? pipj * vcl_log(pipj) : 0.;
+ double frequency = 0;
+ int instanceId = i * m_Histogram->GetSize()[0] + j;
+ if (instanceId < lookupArray.size())
+ {
+ int findex = lookupArray[instanceId];
+ if(findex > -1 )
+ frequency = glcList[findex].frequency;
+ }
+ m_Dissimilarity+= ( j - i ) * (frequency * frequency);
}
}
@@ -556,8 +583,9 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
m_IC2 = (m_IC2 >= 0) ? vcl_sqrt (m_IC2) : 0;
// Fill outputs
- varianceIt.Set(m_Variance);
meanIt.Set(m_Mean);
+ varianceIt.Set(m_Variance);
+ dissimilarityIt.Set(m_Dissimilarity);
sumAverageIt.Set(m_SumAverage);
sumVarianceIt.Set(m_SumVariance);
sumEntropytIt.Set(m_SumEntropy);
@@ -572,6 +600,7 @@ ScalarImageToAdvancedTexturesFilter<TInputImage, TOutputImage>
// Increment iterators
++varianceIt;
++meanIt;
+ ++dissimilarityIt;
++sumAverageIt;
++sumVarianceIt;
++sumEntropytIt;
--
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