int main( int argc, char** argv )
{
if ( argc < 5 )
{
usage( argc, argv );
return 1;
}
std::string inputFilename = argv[ 1 ];
unsigned int minThreshold = atoi( argv[ 2 ] );
unsigned int maxThreshold = atoi( argv[ 3 ] );
bool intAdjacency = atoi( argv[ 4 ] ) == 0;
//! [volMarchingCubes-readVol]
trace.beginBlock( "Reading vol file into an image." );
typedef ImageSelector < Domain, int>::Type Image;
Image image = VolReader<Image>::importVol(inputFilename);
DigitalSet set3d (image.domain());
SetFromImage<DigitalSet>::append<Image>(set3d, image,
minThreshold, maxThreshold);
trace.endBlock();
//! [volMarchingCubes-readVol]
//! [volMarchingCubes-KSpace]
trace.beginBlock( "Construct the Khalimsky space from the image domain." );
KSpace ks;
bool space_ok = ks.init( image.domain().lowerBound(),
image.domain().upperBound(), true );
if (!space_ok)
{
trace.error() << "Error in the Khamisky space construction."<<std::endl;
return 2;
}
trace.endBlock();
//! [volMarchingCubes-KSpace]
//! [volMarchingCubes-SurfelAdjacency]
typedef SurfelAdjacency<KSpace::dimension> MySurfelAdjacency;
MySurfelAdjacency surfAdj( intAdjacency ); // interior in all directions.
//! [volMarchingCubes-SurfelAdjacency]
//! [volMarchingCubes-ExtractingSurface]
trace.beginBlock( "Extracting boundary by scanning the space. " );
typedef KSpace::SurfelSet SurfelSet;
typedef SetOfSurfels< KSpace, SurfelSet > MySetOfSurfels;
typedef DigitalSurface< MySetOfSurfels > MyDigitalSurface;
MySetOfSurfels theSetOfSurfels( ks, surfAdj );
Surfaces<KSpace>::sMakeBoundary( theSetOfSurfels.surfelSet(),
ks, set3d,
image.domain().lowerBound(),
image.domain().upperBound() );
MyDigitalSurface digSurf( theSetOfSurfels );
trace.info() << "Digital surface has " << digSurf.size() << " surfels."
<< std::endl;
trace.endBlock();
//! [volMarchingCubes-ExtractingSurface]
//! [volMarchingCubes-makingOFF]
trace.beginBlock( "Making OFF surface <marching-cube.off>. " );
typedef CanonicEmbedder< Space > MyEmbedder;
typedef
ImageLinearCellEmbedder< KSpace, Image, MyEmbedder > CellEmbedder;
CellEmbedder cellEmbedder;
MyEmbedder trivialEmbedder;
// The +0.5 is to avoid isosurface going exactly through a voxel
// center, especially for binary volumes.
cellEmbedder.init( ks, image, trivialEmbedder,
( (double) minThreshold ) + 0.5 );
ofstream out( "marching-cube.off" );
if ( out.good() )
digSurf.exportEmbeddedSurfaceAs3DOFF( out, cellEmbedder );
out.close();
trace.endBlock();
//! [volMarchingCubes-makingOFF]
return 0;
}
int main( int argc, char** argv )
{
if ( argc < 5 )
{
usage( argc, argv );
return 1;
}
std::string inputFilename = argv[ 1 ];
unsigned int minThreshold = atoi( argv[ 2 ] );
unsigned int maxThreshold = atoi( argv[ 3 ] );
bool intAdjacency = atoi( argv[ 4 ] ) == 0;
typedef ImageSelector < Domain, int>::Type Image;
//! [viewMarchingCubes-readVol]
trace.beginBlock( "Reading vol file into an image." );
Image image = VolReader<Image>::importVol(inputFilename);
DigitalSet set3d (image.domain());
SetFromImage<DigitalSet>::append<Image>(set3d, image,
minThreshold, maxThreshold);
trace.endBlock();
//! [viewMarchingCubes-readVol]
//! [viewMarchingCubes-KSpace]
trace.beginBlock( "Construct the Khalimsky space from the image domain." );
KSpace ks;
bool space_ok = ks.init( image.domain().lowerBound(),
image.domain().upperBound(), true );
if (!space_ok)
{
trace.error() << "Error in the Khamisky space construction."<<std::endl;
return 2;
}
trace.endBlock();
//! [viewMarchingCubes-KSpace]
//! [viewMarchingCubes-SurfelAdjacency]
typedef SurfelAdjacency<KSpace::dimension> MySurfelAdjacency;
MySurfelAdjacency surfAdj( intAdjacency ); // interior in all directions.
//! [viewMarchingCubes-SurfelAdjacency]
//! [viewMarchingCubes-ExtractingSurface]
trace.beginBlock( "Extracting boundary by scanning the space. " );
typedef KSpace::SurfelSet SurfelSet;
typedef SetOfSurfels< KSpace, SurfelSet > MySetOfSurfels;
typedef DigitalSurface< MySetOfSurfels > MyDigitalSurface;
MySetOfSurfels theSetOfSurfels( ks, surfAdj );
Surfaces<KSpace>::sMakeBoundary( theSetOfSurfels.surfelSet(),
ks, set3d,
image.domain().lowerBound(),
image.domain().upperBound() );
MyDigitalSurface digSurf( theSetOfSurfels );
trace.info() << "Digital surface has " << digSurf.size() << " surfels."
<< std::endl;
trace.endBlock();
//! [viewMarchingCubes-ExtractingSurface]
//! [viewMarchingCubes-makingMesh]
trace.beginBlock( "Making triangulated surface. " );
typedef CanonicEmbedder< Space > TrivialEmbedder;
typedef ImageLinearCellEmbedder< KSpace, Image, TrivialEmbedder > CellEmbedder;
typedef CellEmbedder::Value RealPoint;
typedef TriangulatedSurface< RealPoint > TriMesh;
typedef Mesh< RealPoint > ViewMesh;
typedef std::map< MyDigitalSurface::Vertex, TriMesh::Index > VertexMap;
TriMesh trimesh;
ViewMesh viewmesh;
TrivialEmbedder trivialEmbedder;
CellEmbedder cellEmbedder;
// The +0.5 is to avoid isosurface going exactly through a voxel
// center, especially for binary volumes.
cellEmbedder.init( ks, image, trivialEmbedder,
( (double) minThreshold ) + 0.5 );
VertexMap vmap; // stores the map Vertex -> Index
MeshHelpers::digitalSurface2DualTriangulatedSurface
( digSurf, cellEmbedder, trimesh, vmap );
trace.info() << "Triangulated surface is " << trimesh << std::endl;
MeshHelpers::triangulatedSurface2Mesh( trimesh, viewmesh );
trace.info() << "Mesh has " << viewmesh.nbVertex()
<< " vertices and " << viewmesh.nbFaces() << " faces." << std::endl;
trace.endBlock();
//! [viewMarchingCubes-makingMesh]
QApplication application(argc,argv);
Viewer3D<> viewer;
viewer.show();
viewer.setLineColor(Color(150,0,0,254));
viewer << viewmesh;
viewer << Viewer3D<>::updateDisplay;
application.exec();
}
int main( int argc, char** argv )
{
//! [3dVolMarchingCubes-parseCommandLine]
// parse command line ----------------------------------------------
po::options_description general_opt("Allowed options are: ");
general_opt.add_options()
("help,h", "display this message")
("input,i", po::value<std::string>(), "the volume file (.vol)" )
("threshold,t", po::value<unsigned int>()->default_value(1), "the value that defines the isosurface in the image (an integer between 0 and 255)." )
("adjacency,a", po::value<unsigned int>()->default_value(0), "0: interior adjacency, 1: exterior adjacency")
("output,o", po::value<std::string>()->default_value( "marching-cubes.off" ), "the output OFF file that represents the geometry of the isosurface") ;
bool parseOK=true;
po::variables_map vm;
try{
po::store(po::parse_command_line(argc, argv, general_opt), vm);
}catch(const std::exception& ex){
parseOK=false;
trace.info()<< "Error checking program options: "<< ex.what()<< std::endl;
}
po::notify(vm);
if ( !parseOK || vm.count("help") || ( argc <= 1 ) )
{
std::cout << "Usage: " << argv[0]
<< " [-i <fileName.vol>] [-t <threshold>] [-a <adjacency>] [-o <output.off>]" << std::endl
<< "Outputs the isosurface of value <threshold> of the volume <fileName.vol> as an OFF file <output.off>. The <adjacency> (0/1) allows to choose between interior (6,18) and exterior (18,6) adjacency." << std::endl
<< general_opt << std::endl;
return 0;
}
if ( ! vm.count("input") )
{
trace.error() << "The input file name was defined." << std::endl;
return 1;
}
std::string inputFilename = vm["input"].as<std::string>();
unsigned int threshold = vm["threshold"].as<unsigned int>();
bool intAdjacency = ( vm["adjacency"].as<unsigned int>() == 0 );
std::string outputFilename = vm["output"].as<std::string>();
//! [3dVolMarchingCubes-parseCommandLine]
//! [3dVolMarchingCubes-readVol]
trace.beginBlock( "Reading vol file into an image." );
typedef ImageSelector < Domain, int>::Type Image;
Image image = VolReader<Image>::importVol(inputFilename);
typedef functors::SimpleThresholdForegroundPredicate<Image> ThresholdedImage;
ThresholdedImage thresholdedImage( image, threshold );
// DigitalSet set3d (image.domain());
// SetFromImage<DigitalSet>::append<Image>(set3d, image,
// threshold, 255 );
trace.endBlock();
//! [3dVolMarchingCubes-readVol]
//! [3dVolMarchingCubes-KSpace]
trace.beginBlock( "Construct the Khalimsky space from the image domain." );
KSpace ks;
bool space_ok = ks.init( image.domain().lowerBound(),
image.domain().upperBound(), true );
if (!space_ok)
{
trace.error() << "Error in the Khamisky space construction."<<std::endl;
return 2;
}
trace.endBlock();
//! [3dVolMarchingCubes-KSpace]
//! [3dVolMarchingCubes-SurfelAdjacency]
typedef SurfelAdjacency<KSpace::dimension> MySurfelAdjacency;
MySurfelAdjacency surfAdj( intAdjacency ); // interior in all directions.
//! [3dVolMarchingCubes-SurfelAdjacency]
//! [3dVolMarchingCubes-ExtractingSurface]
trace.beginBlock( "Extracting boundary by scanning the space. " );
typedef KSpace::SurfelSet SurfelSet;
typedef SetOfSurfels< KSpace, SurfelSet > MySetOfSurfels;
typedef DigitalSurface< MySetOfSurfels > MyDigitalSurface;
MySetOfSurfels theSetOfSurfels( ks, surfAdj );
Surfaces<KSpace>::sMakeBoundary( theSetOfSurfels.surfelSet(),
ks, thresholdedImage,
image.domain().lowerBound(),
image.domain().upperBound() );
MyDigitalSurface digSurf( theSetOfSurfels );
trace.info() << "Digital surface has " << digSurf.size() << " surfels."
<< std::endl;
trace.endBlock();
//! [3dVolMarchingCubes-ExtractingSurface]
//! [3dVolMarchingCubes-makingOFF]
trace.beginBlock( "Making OFF surface. " );
// Describes how voxels are embedded into Euclidean space.
typedef CanonicEmbedder< Space > MyEmbedder;
// Describes how the centroid surface elements is placed in-between embedded voxels.
typedef ImageLinearCellEmbedder< KSpace, Image, MyEmbedder > CellEmbedder;
CellEmbedder cellEmbedder;
MyEmbedder trivialEmbedder;
cellEmbedder.init( ks, image, trivialEmbedder, threshold );
std::ofstream out( outputFilename.c_str() );
if ( out.good() )
digSurf.exportEmbeddedSurfaceAs3DOFF( out, cellEmbedder );
out.close();
trace.endBlock();
//! [3dVolMarchingCubes-makingOFF]
return 0;
}