/usr/share/vtk/Medical/Cxx/GenerateModelsFromLabels.cxx is in vtk-examples 5.8.0-14.1ubuntu3.
This file is owned by root:root, with mode 0o644.
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// GenerateModelsFromLabels
// Usage: GenerateModelsFromLabels InputVolume Startlabel Endlabel
// where
// InputVolume is a meta file containing a 3 volume of
// discrete labels.
// StartLabel is the first label to be processed
// EndLabel is the last label to be processed
// NOTE: There can be gaps in the labeling. If a label does
// not exist in the volume, it will be skipped.
//
//
#include <vtkMetaImageReader.h>
#include <vtkImageAccumulate.h>
#include <vtkDiscreteMarchingCubes.h>
#include <vtkWindowedSincPolyDataFilter.h>
#include <vtkMaskFields.h>
#include <vtkThreshold.h>
#include <vtkGeometryFilter.h>
#include <vtkXMLPolyDataWriter.h>
#include <vtkSmartPointer.h>
#include <vtkImageData.h>
#include <vtkPointData.h>
#include <vtkUnstructuredGrid.h>
#include <vtksys/ios/sstream>
int main (int argc, char *argv[])
{
if (argc < 4)
{
cout << "Usage: " << argv[0] << " InputVolume StartLabel EndLabel" << endl;
return EXIT_FAILURE;
}
// Create all of the classes we will need
vtkSmartPointer<vtkMetaImageReader> reader =
vtkSmartPointer<vtkMetaImageReader>::New();
vtkSmartPointer<vtkImageAccumulate> histogram =
vtkSmartPointer<vtkImageAccumulate>::New();
vtkSmartPointer<vtkDiscreteMarchingCubes> discreteCubes =
vtkSmartPointer<vtkDiscreteMarchingCubes>::New();
vtkSmartPointer<vtkWindowedSincPolyDataFilter> smoother =
vtkSmartPointer<vtkWindowedSincPolyDataFilter>::New();
vtkSmartPointer<vtkThreshold> selector =
vtkSmartPointer<vtkThreshold>::New();
vtkSmartPointer<vtkMaskFields> scalarsOff =
vtkSmartPointer<vtkMaskFields>::New();
vtkSmartPointer<vtkGeometryFilter> geometry =
vtkSmartPointer<vtkGeometryFilter>::New();
vtkSmartPointer<vtkXMLPolyDataWriter> writer =
vtkSmartPointer<vtkXMLPolyDataWriter>::New();
// Define all of the variables
unsigned int startLabel = atoi(argv[2]);
unsigned int endLabel = atoi(argv[3]);
vtkstd::string filePrefix = "Label";
unsigned int smoothingIterations = 15;
double passBand = 0.001;
double featureAngle = 120.0;
// Generate models from labels
// 1) Read the meta file
// 2) Generate a histogram of the labels
// 3) Generate models from the labeled volume
// 4) Smooth the models
// 5) Output each model into a separate file
reader->SetFileName(argv[1]);
histogram->SetInput(reader->GetOutput());
histogram->SetComponentExtent(0, endLabel, 0, 0, 0, 0);
histogram->SetComponentOrigin(0, 0, 0);
histogram->SetComponentSpacing(1, 1, 1);
histogram->Update();
discreteCubes->SetInput(reader->GetOutput());
discreteCubes->GenerateValues(
endLabel - startLabel + 1, startLabel, endLabel);
smoother->SetInput(discreteCubes->GetOutput());
smoother->SetNumberOfIterations(smoothingIterations);
smoother->BoundarySmoothingOff();
smoother->FeatureEdgeSmoothingOff();
smoother->SetFeatureAngle(featureAngle);
smoother->SetPassBand(passBand);
smoother->NonManifoldSmoothingOn();
smoother->NormalizeCoordinatesOn();
smoother->Update();
selector->SetInput(smoother->GetOutput());
selector->SetInputArrayToProcess(0, 0, 0,
vtkDataObject::FIELD_ASSOCIATION_CELLS,
vtkDataSetAttributes::SCALARS);
// Strip the scalars from the output
scalarsOff->SetInput(selector->GetOutput());
scalarsOff->CopyAttributeOff(vtkMaskFields::POINT_DATA,
vtkDataSetAttributes::SCALARS);
scalarsOff->CopyAttributeOff(vtkMaskFields::CELL_DATA,
vtkDataSetAttributes::SCALARS);
geometry->SetInput(scalarsOff->GetOutput());
writer->SetInput(geometry->GetOutput());
for (unsigned int i = startLabel; i <= endLabel; i++)
{
// see if the label exists, if not skip it
double frequency =
histogram->GetOutput()->GetPointData()->GetScalars()->GetTuple1(i);
if (frequency == 0.0)
{
continue;
}
// select the cells for a given label
selector->ThresholdBetween(i, i);
// output the polydata
vtksys_stl::stringstream ss;
ss << filePrefix << i << ".vtp";
cout << argv[0] << " writing " << ss.str() << endl;
writer->SetFileName(ss.str().c_str());
writer->Write();
}
return EXIT_SUCCESS;
}
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