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SmoothDiscreteMarchingCubes

web-test/Cxx/Modelling/SmoothDiscreteMarchingCubes

Description

Creates surfaces from labeled data. Volume data does not always contain samples of continuous data. A volume may contain discrete integer values, often the result of segmentation. This example smooths the discrete models generated by vtkDiscreteMarchingCubes with vtkWindowedSincPolyDataFilter.

Seealso

DiscreteMarchingCubes produces rough models.

Other languages

See (Python)

Question

If you have a question about this example, please use the VTK Discourse Forum

Code

SmoothDiscreteMarchingCubes.cxx

#include <vtkActor.h>
#include <vtkDiscreteMarchingCubes.h>
#include <vtkImageData.h>
#include <vtkImageMathematics.h>
#include <vtkImageThreshold.h>
#include <vtkLookupTable.h>
#include <vtkMinimalStandardRandomSequence.h>
#include <vtkNamedColors.h>
#include <vtkNew.h>
#include <vtkPolyDataMapper.h>
#include <vtkRenderWindow.h>
#include <vtkRenderWindowInteractor.h>
#include <vtkRenderer.h>
#include <vtkSampleFunction.h>
#include <vtkSmartPointer.h>
#include <vtkSphere.h>
#include <vtkWindowedSincPolyDataFilter.h>

namespace {
vtkSmartPointer<vtkLookupTable> MakeColors(unsigned int n);

vtkSmartPointer<vtkImageData> MakeBlob(int n, double radius);
} // namespace

int main(int /* argc */, char* /* argv */[])
{
  int n = 20;
  double radius = 8;

  vtkSmartPointer<vtkImageData> blob = MakeBlob(n, radius);

  vtkNew<vtkDiscreteMarchingCubes> discrete;
  discrete->SetInputData(blob);
  discrete->GenerateValues(n, 1, n);

  unsigned int smoothingIterations = 15;
  double passBand = 0.001;
  double featureAngle = 120.0;

  vtkNew<vtkWindowedSincPolyDataFilter> smoother;
  smoother->SetInputConnection(discrete->GetOutputPort());
  smoother->SetNumberOfIterations(smoothingIterations);
  smoother->BoundarySmoothingOff();
  smoother->FeatureEdgeSmoothingOff();
  smoother->SetFeatureAngle(featureAngle);
  smoother->SetPassBand(passBand);
  smoother->NonManifoldSmoothingOn();
  smoother->NormalizeCoordinatesOn();
  smoother->Update();

  vtkSmartPointer<vtkLookupTable> lut = MakeColors(n);

  vtkNew<vtkPolyDataMapper> mapper;
  mapper->SetInputConnection(smoother->GetOutputPort());
  mapper->SetLookupTable(lut);
  mapper->SetScalarRange(0, lut->GetNumberOfColors());

  // Create the RenderWindow, Renderer and both Actors
  //
  vtkNew<vtkRenderer> ren1;
  vtkNew<vtkRenderWindow> renWin;
  renWin->AddRenderer(ren1);
  renWin->SetWindowName("SmoothDiscreteMarchingCubes");

  vtkNew<vtkRenderWindowInteractor> iren;
  iren->SetRenderWindow(renWin);

  vtkNew<vtkActor> actor;
  actor->SetMapper(mapper);

  ren1->AddActor(actor);

  vtkNew<vtkNamedColors> colors;
  ren1->SetBackground(colors->GetColor3d("Burlywood").GetData());

  renWin->Render();

  iren->Start();

  return EXIT_SUCCESS;

  return EXIT_SUCCESS;
}

namespace {
vtkSmartPointer<vtkImageData> MakeBlob(int n, double radius)
{
  vtkNew<vtkImageData> blobImage;

  double maxR = 50 - 2.0 * radius;
  vtkNew<vtkMinimalStandardRandomSequence> randomSequence;
  randomSequence->SetSeed(5071);
  for (int i = 0; i < n; ++i)
  {
    vtkNew<vtkSphere> sphere;
    sphere->SetRadius(radius);
    auto x = randomSequence->GetRangeValue(-maxR, maxR);
    randomSequence->Next();
    auto y = randomSequence->GetRangeValue(-maxR, maxR);
    randomSequence->Next();
    auto z = randomSequence->GetRangeValue(-maxR, maxR);
    randomSequence->Next();

    sphere->SetCenter(int(x), int(y), int(z));

    vtkNew<vtkSampleFunction> sampler;
    sampler->SetImplicitFunction(sphere);
    sampler->SetOutputScalarTypeToFloat();
    sampler->SetSampleDimensions(100, 100, 100);
    sampler->SetModelBounds(-50, 50, -50, 50, -50, 50);

    vtkNew<vtkImageThreshold> thres;
    thres->SetInputConnection(sampler->GetOutputPort());
    thres->ThresholdByLower(radius * radius);
    thres->ReplaceInOn();
    thres->ReplaceOutOn();
    thres->SetInValue(i + 1);
    thres->SetOutValue(0);
    thres->Update();
    if (i == 0)
    {
      blobImage->DeepCopy(thres->GetOutput());
    }

    vtkNew<vtkImageMathematics> maxValue;
    maxValue->SetInputData(0, blobImage);
    maxValue->SetInputData(1, thres->GetOutput());
    maxValue->SetOperationToMax();
    maxValue->Modified();
    maxValue->Update();

    blobImage->DeepCopy(maxValue->GetOutput());
  }
  return blobImage;
}

// Generate some random colors
vtkSmartPointer<vtkLookupTable> MakeColors(unsigned int n)
{
  vtkNew<vtkLookupTable> lut;
  lut->SetNumberOfColors(n);
  lut->SetTableRange(0, n - 1);
  lut->SetScaleToLinear();
  lut->Build();
  lut->SetTableValue(0, 0, 0, 0, 1);

  vtkNew<vtkMinimalStandardRandomSequence> randomSequence;
  randomSequence->SetSeed(5071);
  for (int i = 1; i < static_cast<int>(n); ++i)
  {
    auto r = randomSequence->GetRangeValue(0.4, 1);
    randomSequence->Next();
    auto g = randomSequence->GetRangeValue(0.4, 1);
    randomSequence->Next();
    auto b = randomSequence->GetRangeValue(0.4, 1);
    randomSequence->Next();
    lut->SetTableValue(i, r, g, b, 1.0);
  }
  return lut;
}
} // namespace

CMakeLists.txt

cmake_minimum_required(VERSION 3.12 FATAL_ERROR)

project(SmoothDiscreteMarchingCubes)

find_package(VTK COMPONENTS 
  CommonColor
  CommonCore
  CommonDataModel
  FiltersCore
  FiltersGeneral
  ImagingCore
  ImagingHybrid
  ImagingMath
  InteractionStyle
  RenderingContextOpenGL2
  RenderingCore
  RenderingFreeType
  RenderingGL2PSOpenGL2
  RenderingOpenGL2
)

if (NOT VTK_FOUND)
  message(FATAL_ERROR "SmoothDiscreteMarchingCubes: Unable to find the VTK build folder.")
endif()

# Prevent a "command line is too long" failure in Windows.
set(CMAKE_NINJA_FORCE_RESPONSE_FILE "ON" CACHE BOOL "Force Ninja to use response files.")
add_executable(SmoothDiscreteMarchingCubes MACOSX_BUNDLE SmoothDiscreteMarchingCubes.cxx )
  target_link_libraries(SmoothDiscreteMarchingCubes PRIVATE ${VTK_LIBRARIES}
)
# vtk_module_autoinit is needed
vtk_module_autoinit(
  TARGETS SmoothDiscreteMarchingCubes
  MODULES ${VTK_LIBRARIES}
)

Download and Build SmoothDiscreteMarchingCubes

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

cd SmoothDiscreteMarchingCubes/build

If VTK is installed:

cmake ..

If VTK is not installed but compiled on your system, you will need to specify the path to your VTK build:

cmake -DVTK_DIR:PATH=/home/me/vtk_build ..

Build the project:

make

and run it:

./SmoothDiscreteMarchingCubes

WINDOWS USERS

Be sure to add the VTK bin directory to your path. This will resolve the VTK dll's at run time.