ITK/Examples/Broken/Statistics/ImageToHistogramFilter: Difference between revisions

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Line 1: Line 1:
Iterator not increasing over the second two components?
Pending some bug fixes:
 
http://public.kitware.com/Bug/view.php?id=11481
Output is
http://public.kitware.com/Bug/view.php?id=11480
<source lang="text">
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Index = [32.6719, 0, 0]Frequency = 0
Index = [98.0156, 0, 0]Frequency = 0
Index = [163.359, 0, 0]Frequency = 0
Index = [228.703, 0, 0]Frequency = 0
Frequency = 0
</source>


==ImageToHistogramFilter.cxx==
==ImageToHistogramFilter.cxx==
Line 76: Line 9:
#include "itkRGBPixel.h"
#include "itkRGBPixel.h"
#include "itkImageRegionIteratorWithIndex.h"
#include "itkImageRegionIteratorWithIndex.h"
 
#include <fstream>
#include <fstream>
 
typedef itk::RGBPixel<unsigned char> RGBPixelType;
typedef itk::RGBPixel<unsigned char> RGBPixelType;
typedef itk::Image< RGBPixelType, 2> RGBImageType;
typedef itk::Image< RGBPixelType, 2> RGBImageType;
 
void CreateImage(RGBImageType::Pointer image);
void CreateImage(RGBImageType::Pointer image);
 
int main(int, char *[])
int main(int, char *[])
{
{
   const unsigned int MeasurementVectorSize = 3; // RGB
   const unsigned int MeasurementVectorSize = 3; // RGB
 
   RGBImageType::Pointer image = RGBImageType::New();
   RGBImageType::Pointer image = RGBImageType::New();
   CreateImage(image);
   CreateImage(image);
 
   typedef itk::Statistics::ImageToHistogramFilter< RGBImageType >        HistogramFilterType;
   typedef itk::Statistics::ImageToHistogramFilter< RGBImageType >        HistogramFilterType;
   typedef HistogramFilterType::HistogramMeasurementVectorType            HistogramMeasurementVectorType;
   typedef HistogramFilterType::HistogramMeasurementVectorType            HistogramMeasurementVectorType;
   typedef HistogramFilterType::HistogramSizeType                          HistogramSizeType;
   typedef HistogramFilterType::HistogramSizeType                          HistogramSizeType;
   typedef HistogramFilterType::HistogramType                              HistogramType;
   typedef HistogramFilterType::HistogramType                              HistogramType;
 
   HistogramFilterType::Pointer filter = HistogramFilterType::New();
   HistogramFilterType::Pointer filter = HistogramFilterType::New();
   filter->SetInput(image);
   filter->SetInput(image);
   filter->SetAutoMinimumMaximum(true);
   filter->SetAutoMinimumMaximum(true);
 
   HistogramSizeType histogramSize( MeasurementVectorSize );
   HistogramSizeType histogramSize( MeasurementVectorSize );
 
   histogramSize[0] = 4;  // number of bins for the Red  channel
   histogramSize[0] = 2;  // number of bins for the Red  channel
   histogramSize[1] = 4;  // number of bins for the Green channel
   histogramSize[1] = 2;  // number of bins for the Green channel
   histogramSize[2] = 4;  // number of bins for the Blue  channel
   histogramSize[2] = 2;  // number of bins for the Blue  channel
 
   filter->SetHistogramSize(histogramSize);
   filter->SetHistogramSize(histogramSize);
   filter->SetMarginalScale(10); // Required (could this be set in the filter?)
   filter->SetMarginalScale(10); // Required (could this be set in the filter?)
   filter->Update();
   filter->Update();
 
   const HistogramType * histogram = filter->GetOutput();
   const HistogramType * histogram = filter->GetOutput();
 
   HistogramType::ConstIterator histogramIterator = histogram->Begin();
   HistogramType::ConstIterator histogramIterator = histogram->Begin();
 
  //std::string filename = "/home/doriad/histogram.txt";
  //std::ofstream fout(filename.c_str());
 
   while( histogramIterator  != histogram->End() )
   while( histogramIterator  != histogram->End() )
     {
     {
     std::cout << "Index = " << histogramIterator.GetMeasurementVector() << "Frequency = " << histogramIterator.GetFrequency() << std::endl;
     std::cout << "Index = " << histogram->GetIndex(histogramIterator.GetMeasurementVector())
    //fout << "Index = " << histogram->GetIndex(histogramItr.GetMeasurementVector()) << "Frequency = " << histogramItr.GetFrequency() << std::endl;
      << " Histogram cell center = " << histogramIterator.GetMeasurementVector()  
      << " Frequency = " << histogramIterator.GetFrequency() << std::endl;
 
     ++histogramIterator ;
     ++histogramIterator ;
     }
     }
  //fout.close();
 
   HistogramType::MeasurementVectorType mv(3);
   HistogramType::MeasurementVectorType mv(3);
   mv[0] = 255;
   mv[0] = 255;
Line 132: Line 63:
   return EXIT_SUCCESS;
   return EXIT_SUCCESS;
}
}
 
void CreateImage(RGBImageType::Pointer image)
void CreateImage(RGBImageType::Pointer image)
{
{
Line 140: Line 71:
   size[0] = 3;
   size[0] = 3;
   size[1] = 3;
   size[1] = 3;
 
   RGBImageType::IndexType  start;
   RGBImageType::IndexType  start;
   start[0] = 0;
   start[0] = 0;
   start[1] = 0;
   start[1] = 0;
 
   RGBImageType::RegionType region;
   RGBImageType::RegionType region;
   region.SetIndex(start);
   region.SetIndex(start);
   region.SetSize(size);
   region.SetSize(size);
 
   image->SetRegions(region);
   image->SetRegions(region);
   image->Allocate();
   image->Allocate();
 
   itk::ImageRegionIteratorWithIndex< RGBImageType > iterator( image, image->GetLargestPossibleRegion() );
   itk::ImageRegionIteratorWithIndex< RGBImageType > iterator( image, image->GetLargestPossibleRegion() );
   iterator.GoToBegin();
   iterator.GoToBegin();
 
   RGBPixelType redPixel;
   RGBPixelType redPixel;
   redPixel.SetRed(255);
   redPixel.SetRed(255);
   redPixel.SetGreen(0);
   redPixel.SetGreen(0);
   redPixel.SetBlue(0);
   redPixel.SetBlue(0);
 
   RGBPixelType blackPixel;
   RGBPixelType blackPixel;
   blackPixel.SetRed(0);
   blackPixel.SetRed(0);
   blackPixel.SetGreen(0);
   blackPixel.SetGreen(0);
   blackPixel.SetBlue(0);
   blackPixel.SetBlue(0);
 
   itk::ImageRegionIterator<RGBImageType> imageIterator(image,region);
   itk::ImageRegionIterator<RGBImageType> imageIterator(image,region);
 
   while(!imageIterator.IsAtEnd())
   while(!imageIterator.IsAtEnd())
     {
     {
Line 172: Line 103:
     ++imageIterator;
     ++imageIterator;
     }
     }
 
   RGBImageType::IndexType index;
   RGBImageType::IndexType index;
   index[0] = 0; index[1] = 0;
   index[0] = 0; index[1] = 0;
   image->SetPixel(index, redPixel);
   image->SetPixel(index, redPixel);
 
   index[0] = 1; index[1] = 0;
   index[0] = 1; index[1] = 0;
   image->SetPixel(index, redPixel);   
   image->SetPixel(index, redPixel);   
Line 182: Line 113:
</source>
</source>


==CMakeLists.txt==
{{ITKCMakeLists|{{SUBPAGENAME}}}}
<source lang="cmake">
cmake_minimum_required(VERSION 2.6)
 
PROJECT(ImageToHistogramFilter)
 
FIND_PACKAGE(ITK REQUIRED)
INCLUDE(${ITK_USE_FILE})
 
ADD_EXECUTABLE(ImageToHistogramFilter ImageToHistogramFilter.cxx)
TARGET_LINK_LIBRARIES(ImageToHistogramFilter
ITKBasicFilters ITKCommon ITKIO ITKStatistics)
 
</source>

Latest revision as of 22:26, 23 December 2012

Pending some bug fixes: http://public.kitware.com/Bug/view.php?id=11481 http://public.kitware.com/Bug/view.php?id=11480

ImageToHistogramFilter.cxx

<source lang="cpp">

  1. include "itkImageToHistogramFilter.h"
  2. include "itkImage.h"
  3. include "itkRGBPixel.h"
  4. include "itkImageRegionIteratorWithIndex.h"
  1. include <fstream>

typedef itk::RGBPixel<unsigned char> RGBPixelType; typedef itk::Image< RGBPixelType, 2> RGBImageType;

void CreateImage(RGBImageType::Pointer image);

int main(int, char *[]) {

 const unsigned int MeasurementVectorSize = 3; // RGB

 RGBImageType::Pointer image = RGBImageType::New();
 CreateImage(image);

 typedef itk::Statistics::ImageToHistogramFilter< RGBImageType >         HistogramFilterType;
 typedef HistogramFilterType::HistogramMeasurementVectorType             HistogramMeasurementVectorType;
 typedef HistogramFilterType::HistogramSizeType                          HistogramSizeType;
 typedef HistogramFilterType::HistogramType                              HistogramType;

 HistogramFilterType::Pointer filter = HistogramFilterType::New();
 filter->SetInput(image);
 filter->SetAutoMinimumMaximum(true);

 HistogramSizeType histogramSize( MeasurementVectorSize );

 histogramSize[0] = 2;  // number of bins for the Red   channel
 histogramSize[1] = 2;  // number of bins for the Green channel
 histogramSize[2] = 2;  // number of bins for the Blue  channel

 filter->SetHistogramSize(histogramSize);
 filter->SetMarginalScale(10); // Required (could this be set in the filter?)
 filter->Update();

 const HistogramType * histogram = filter->GetOutput();

 HistogramType::ConstIterator histogramIterator = histogram->Begin();

 while( histogramIterator  != histogram->End() )
   {
   std::cout << "Index = " << histogram->GetIndex(histogramIterator.GetMeasurementVector())

<< " Histogram cell center = " << histogramIterator.GetMeasurementVector() << " Frequency = " << histogramIterator.GetFrequency() << std::endl;

   ++histogramIterator ;
   }

 HistogramType::MeasurementVectorType mv(3);
 mv[0] = 255;
 mv[1] = 0;
 mv[2] = 0;
 std::cout << "Frequency = " << histogram->GetFrequency(histogram->GetIndex(mv)) << std::endl;
 return EXIT_SUCCESS;

}

void CreateImage(RGBImageType::Pointer image) {

 // Create a black image with a red square and a green square.
 // This should produce a histogram with very strong spikes.
 RGBImageType::SizeType   size;
 size[0] = 3;
 size[1] = 3;

 RGBImageType::IndexType  start;
 start[0] = 0;
 start[1] = 0;

 RGBImageType::RegionType region;
 region.SetIndex(start);
 region.SetSize(size);

 image->SetRegions(region);
 image->Allocate();

 itk::ImageRegionIteratorWithIndex< RGBImageType > iterator( image, image->GetLargestPossibleRegion() );
 iterator.GoToBegin();

 RGBPixelType redPixel;
 redPixel.SetRed(255);
 redPixel.SetGreen(0);
 redPixel.SetBlue(0);

 RGBPixelType blackPixel;
 blackPixel.SetRed(0);
 blackPixel.SetGreen(0);
 blackPixel.SetBlue(0);

 itk::ImageRegionIterator<RGBImageType> imageIterator(image,region);

 while(!imageIterator.IsAtEnd())
   {
   imageIterator.Set(blackPixel);
   ++imageIterator;
   }

 RGBImageType::IndexType index;
 index[0] = 0; index[1] = 0;
 image->SetPixel(index, redPixel);

 index[0] = 1; index[1] = 0;
 image->SetPixel(index, redPixel);  

} </source>

CMakeLists.txt

<syntaxhighlight lang="cmake"> cmake_minimum_required(VERSION 3.9.5)

project(ImageToHistogramFilter)

find_package(ITK REQUIRED) include(${ITK_USE_FILE}) if (ITKVtkGlue_LOADED)

 find_package(VTK REQUIRED)
 include(${VTK_USE_FILE})

endif()

add_executable(ImageToHistogramFilter MACOSX_BUNDLE ImageToHistogramFilter.cxx)

if( "${ITK_VERSION_MAJOR}" LESS 4 )

 target_link_libraries(ImageToHistogramFilter ITKReview ${ITK_LIBRARIES})

else( "${ITK_VERSION_MAJOR}" LESS 4 )

 target_link_libraries(ImageToHistogramFilter ${ITK_LIBRARIES})

endif( "${ITK_VERSION_MAJOR}" LESS 4 )

</syntaxhighlight>

Download and Build ImageToHistogramFilter

Click here to download ImageToHistogramFilter and its CMakeLists.txt file. Once the tarball ImageToHistogramFilter.tar has been downloaded and extracted,

cd ImageToHistogramFilter/build
  • If ITK is installed:
cmake ..
  • If ITK is not installed but compiled on your system, you will need to specify the path to your ITK build:
cmake -DITK_DIR:PATH=/home/me/itk_build ..

Build the project:

make

and run it:

./ImageToHistogramFilter

WINDOWS USERS PLEASE NOTE: Be sure to add the ITK bin directory to your path. This will resolve the ITK dll's at run time.

Building All of the Examples

Many of the examples in the ITK Wiki Examples Collection require VTK. You can build all of the the examples by following these instructions. If you are a new VTK user, you may want to try the Superbuild which will build a proper ITK and VTK.

ItkVtkGlue

ITK >= 4

For examples that use QuickView (which depends on VTK), you must have built ITK with Module_ITKVtkGlue=ON.

ITK < 4

Some of the ITK Examples require VTK to display the images. If you download the entire ITK Wiki Examples Collection, the ItkVtkGlue directory will be included and configured. If you wish to just build a few examples, then you will need to download ItkVtkGlue and build it. When you run cmake it will ask you to specify the location of the ItkVtkGlue binary directory.