cgal/Mesh_3/archive/applications/mesh_3D_image.cpp

#include "debug.h"
#include <CGAL/Exact_predicates_inexact_constructions_kernel.h>

#include <CGAL/Mesh_triangulation_3.h>
#include <CGAL/Mesh_complex_3_in_triangulation_3.h>
#include <CGAL/Mesh_criteria_3.h>

#include <CGAL/Labeled_image_mesh_domain_3.h>
#include <CGAL/make_mesh_3.h>
#include <CGAL/Image_3.h>

#include <CGAL/Mesh_3/Mesh_global_optimizer.h>

#include <boost/program_options.hpp>
namespace po = boost::program_options;

// Domain
struct K: public CGAL::Exact_predicates_inexact_constructions_kernel {};
typedef CGAL::Image_3 Image;
typedef CGAL::Labeled_image_mesh_domain_3<Image,K> Mesh_domain;

// Triangulation
typedef CGAL::Mesh_triangulation_3<Mesh_domain>::type Tr;
typedef CGAL::Mesh_complex_3_in_triangulation_3<Tr> C3t3;

// Mesh Criteria
typedef CGAL::Mesh_criteria_3<Tr> Mesh_criteria;
typedef Mesh_criteria::Facet_criteria    Facet_criteria;
typedef Mesh_criteria::Cell_criteria     Cell_criteria;


template <typename T>
T set_arg(const std::string& param_name,
          const std::string& param_string,
          const po::variables_map& vm)
{
  if ( vm.count(param_name) )
  {
    T param_value = vm[param_name].as<T>();
    std::cout << param_string << ": " << param_value << "\n";
    return param_value;
  }
  else
  {
    std::cout << param_string << " ignored.\n";
    return T();
  }
}

// To avoid verbose function and named parameters call
using namespace CGAL::parameters;

int main(int argc, char** argv)
{
  po::options_description generic("Generic options");
  generic.add_options() ("help", "Produce help message");
  generic.add_options()("file", po::value<std::string>(), "Mesh image contained in that file");
  generic.add_options()("raw", po::value<std::string>(), "Image is in raw format. Parameters are given by arg file [rx, ry, rz, vx, vy, vz], one per line");

  po::options_description mesh("Mesh generation parameters");
  mesh.add_options()("facet_angle", po::value<double>(), "Set facet angle bound")
  ("facet_size", po::value<double>(), "Set facet size bound")
  ("facet_error", po::value<double>(), "Set facet approximation error bound")
  ("tet_shape", po::value<double>(), "Set tet radius-edge bound")
  ("tet_size", po::value<double>(), "Set tet size bound");

  po::options_description desc("Options");
  desc.add_options()
  ("exude", po::value<double>(), "Exude mesh after refinement. arg is time_limit.")
  ("perturb", po::value<double>(), "Perturb (sliver removal) mesh after refinement. arg is time_limit")
  ("lloyd", po::value<int>(), "Lloyd-smoothing after refinement. arg is max_iteration_nb")
  ("odt", po::value<int>(), "ODT-smoothing after refinement. arg is max_iteration_nb")
  ("convergence", po::value<double>()->default_value(0.02), "Convergence ratio for smoothing functions")
  ("min_displacement", po::value<double>()->default_value(0.01), "Minimal displacement ratio for smoothing functions (moves that are below that ratio will not be done)")
  ("time_limit", po::value<double>()->default_value(0), "Max time for smoothing functions")
  ("no_label_rebind", "Don't rebind cell labels in medit output")
  ("show_patches", "Show surface patches in medit output");


  po::options_description cmdline_options("Usage",1);
  cmdline_options.add(generic).add(mesh).add(desc);

  po::variables_map vm;
  po::store(po::parse_command_line(argc, argv, cmdline_options), vm);
  po::notify(vm);

  if (vm.count("help") || argc < 2)
  {
    std::cout << cmdline_options << std::endl;
    return 1;
  }

  std::cout << "=========== Params ==========="<< std::endl;

  double facet_angle = set_arg<double>("facet_angle","Facet angle",vm);
  double facet_size = set_arg<double>("facet_size","Facet size",vm);
  double facet_error = set_arg<double>("facet_error","Facet approximation error",vm);

  double tet_shape = set_arg<double>("tet_shape","Tet shape (radius-edge)",vm);
  double tet_size = set_arg<double>("tet_size","Tet size",vm);

  std::cout << std::endl;
  std::string image_filename = set_arg<std::string>("file", "Filename", vm);
  std::string raw_file_params;
  if ( vm.count("raw") )
    raw_file_params = set_arg<std::string>("raw", "Raw parameters file", vm);

  std::cout << "=============================="<< std::endl;
  std::cout << std::endl;

  if ( image_filename.empty() )
  {
    std::cout << "No file selected. Exit.\n";
    return 0;
  }

  // Loads image
  Image image;

  if ( ! vm.count("raw") )
  {
    image.read(image_filename.c_str());
  }
  else
  {
    int rx = 0; int ry = 0; int rz = 0;
    double vx = 0.; double vy = 0.; double vz = 0.;

    std::ifstream raw_file(raw_file_params.c_str());
    raw_file >> rx >> ry >> rz;
    raw_file >> vx >> vy >> vz;

    image.read_raw(image_filename.c_str(),rx,ry,rz,vx,vy,vz);
  }

  // Domain
  Mesh_domain domain(image, 1e-9);

  // Mesh criteria
  Facet_criteria facet_criteria(facet_angle,
                                facet_size,
                                facet_error); // angle, size, approximation
  Cell_criteria cell_criteria(tet_shape,
                              tet_size); // radius-edge ratio, size
  Mesh_criteria criteria(facet_criteria, cell_criteria);

  // Meshing
  C3t3 c3t3 = CGAL::make_mesh_3<C3t3>(domain, criteria, no_exude(), no_perturb());


  // Odt
  if (  vm.count("odt") )
  {
    CGAL::odt_optimize_mesh_3(c3t3, domain,
                              max_iteration_number=vm["odt"].as<int>(),
                              convergence=vm["convergence"].as<double>(),
                              sliver_bound=vm["min_displacement"].as<double>(),
                              time_limit=vm["time_limit"].as<double>());
  }

  // Lloyd
  if ( vm.count("lloyd") )
  {
    CGAL::lloyd_optimize_mesh_3(c3t3, domain,
                                max_iteration_number=vm["lloyd"].as<int>(),
                                convergence=vm["convergence"].as<double>(),
                                sliver_bound=vm["min_displacement"].as<double>(),
                                time_limit=vm["time_limit"].as<double>());
  }

  // Perturbation
  if ( vm.count("perturb") )
  {
    CGAL::perturb_mesh_3(c3t3, domain, time_limit = vm["perturb"].as<double>() );
  }

  // Exudation
  if ( vm.count("exude") )
  {
    CGAL::exude_mesh_3(c3t3, time_limit = vm["exude"].as<double>());
  }

  double min_angle = 181.;
  for ( C3t3::Cell_iterator cit = c3t3.cells_begin() ;
       cit != c3t3.cells_end() ;
       ++cit )
  {
    min_angle = (std::min)(min_angle,
                           CGAL::to_double(CGAL::Mesh_3::minimum_dihedral_angle(c3t3.triangulation().tetrahedron(cit))));
  }

  std::cerr << "Min angle: " << min_angle << std::endl;

  // Output
  std::ofstream medit_file("out.mesh");
  c3t3.output_to_medit(medit_file,!vm.count("no_label_rebind"), vm.count("show_patches"));

  return 0;
}