ShapeOpeningLabelMapFilter.cxx

#include "itkImage.h"
#include "itkImageFileWriter.h"
#include "itkImageRegionIterator.h"
#include "itkBinaryImageToShapeLabelMapFilter.h"
#include "itkShapeOpeningLabelMapFilter.h"
#include "itkLabelMapToLabelImageFilter.h"
#include "itkScalarToRGBColormapImageFilter.h"
 
typedef itk::Image<unsigned char, 2>  ImageType;
typedef itk::Image<unsigned char, 2>  LabelImageType;
static void CreateImage(ImageType::Pointer image);
 
int main(int, char *[])
{
  ImageType::Pointer image = ImageType::New();
  CreateImage(image);
 
  // Create a ShapeLabelMap from the image
  typedef itk::BinaryImageToShapeLabelMapFilter<ImageType> BinaryImageToShapeLabelMapFilterType;
  BinaryImageToShapeLabelMapFilterType::Pointer binaryImageToShapeLabelMapFilter = BinaryImageToShapeLabelMapFilterType::New();
  binaryImageToShapeLabelMapFilter->SetInput(image);
  binaryImageToShapeLabelMapFilter->Update();
 
  // Remove label objects that have PERIMETER less than 50
  typedef itk::ShapeOpeningLabelMapFilter< BinaryImageToShapeLabelMapFilterType::OutputImageType > ShapeOpeningLabelMapFilterType;
  ShapeOpeningLabelMapFilterType::Pointer shapeOpeningLabelMapFilter = ShapeOpeningLabelMapFilterType::New();
  shapeOpeningLabelMapFilter->SetInput( binaryImageToShapeLabelMapFilter->GetOutput() );
  shapeOpeningLabelMapFilter->SetLambda( 50 );
  shapeOpeningLabelMapFilter->ReverseOrderingOn();
  shapeOpeningLabelMapFilter->SetAttribute( ShapeOpeningLabelMapFilterType::LabelObjectType::PERIMETER);
  shapeOpeningLabelMapFilter->Update();
 
  // Create a label image
  typedef itk::LabelMapToLabelImageFilter<BinaryImageToShapeLabelMapFilterType::OutputImageType, LabelImageType> LabelMapToLabelImageFilterType;
  LabelMapToLabelImageFilterType::Pointer labelMapToLabelImageFilter = LabelMapToLabelImageFilterType::New();
  labelMapToLabelImageFilter->SetInput(shapeOpeningLabelMapFilter->GetOutput());
  labelMapToLabelImageFilter->Update();
 
  typedef itk::RGBPixel<unsigned char>   RGBPixelType;
  typedef itk::Image<RGBPixelType, 2>    RGBImageType;
 
  // Color each label/object a different color
  typedef itk::ScalarToRGBColormapImageFilter<LabelImageType, RGBImageType> RGBFilterType;
  RGBFilterType::Pointer colormapImageFilter = RGBFilterType::New();
  colormapImageFilter->SetInput(labelMapToLabelImageFilter->GetOutput());
  colormapImageFilter->SetColormap( RGBFilterType::Jet );
  colormapImageFilter->Update();
 
  // Write the output
  typedef itk::ImageFileWriter< RGBImageType > WriterType;
  WriterType::Pointer writer = WriterType::New();
  writer->SetInput( colormapImageFilter->GetOutput() );
  writer->SetFileName("output.png");
  writer->Update();
 
  return EXIT_SUCCESS;
}
 
void CreateImage(ImageType::Pointer image)
{
  // Create a black image with three white squares
  ImageType::IndexType start;
  start.Fill(0);
 
  ImageType::SizeType size;
  size.Fill(200);
 
  ImageType::RegionType region;
  region.SetSize(size);
  region.SetIndex(start);
  image->SetRegions(region);
  image->Allocate();
 
  itk::ImageRegionIterator<ImageType> imageIterator(image,image->GetLargestPossibleRegion());
 
  // Make a square
  while(!imageIterator.IsAtEnd())
    {
    if(((imageIterator.GetIndex()[0] > 5 && imageIterator.GetIndex()[0] < 10) &&
      (imageIterator.GetIndex()[1] > 5 && imageIterator.GetIndex()[1] < 10)) ||
      ((imageIterator.GetIndex()[0] > 50 && imageIterator.GetIndex()[0] < 60) &&
      (imageIterator.GetIndex()[1] > 50 && imageIterator.GetIndex()[1] < 60)) ||
      ((imageIterator.GetIndex()[0] > 100 && imageIterator.GetIndex()[0] < 130) &&
      (imageIterator.GetIndex()[1] > 100 && imageIterator.GetIndex()[1] < 130))  )
        {
        imageIterator.Set(255);
        }
      else
        {
        imageIterator.Set(0);
        }
 
    ++imageIterator;
    }
 
  typedef  itk::ImageFileWriter< ImageType  > WriterType;
  WriterType::Pointer writer = WriterType::New();
  writer->SetFileName("input.png");
  writer->SetInput(image);
  writer->Update();
 
}

CMakeLists.txt

cmake_minimum_required(VERSION 2.8)
 
project(ShapeOpeningLabelMapFilter)
 
find_package(ITK REQUIRED)
include(${ITK_USE_FILE})
if (ITKVtkGlue_LOADED)
  find_package(VTK REQUIRED)
  include(${VTK_USE_FILE})
endif()
 
add_executable(ShapeOpeningLabelMapFilter MACOSX_BUNDLE ShapeOpeningLabelMapFilter.cxx)
 
if( "${ITK_VERSION_MAJOR}" LESS 4 )
  target_link_libraries(ShapeOpeningLabelMapFilter ITKReview ${ITK_LIBRARIES})
else( "${ITK_VERSION_MAJOR}" LESS 4 )
  target_link_libraries(ShapeOpeningLabelMapFilter ${ITK_LIBRARIES})
endif( "${ITK_VERSION_MAJOR}" LESS 4 )

Download and Build ShapeOpeningLabelMapFilter

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

cd ShapeOpeningLabelMapFilter/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:

./ShapeOpeningLabelMapFilter

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.