volFillInterior.cpp

 
#include <iostream>
#include <DGtal/base/Common.h>
#include <DGtal/io/readers/VolReader.h>
#include <DGtal/io/writers/VolWriter.h>
#include <DGtal/helpers/StdDefs.h>
#include <DGtal/images/Image.h>
#include <DGtal/images/ImageContainerBySTLVector.h>
 
#include "CLI11.hpp"
 
using namespace std;
using namespace DGtal;
using namespace Z3i;
 
void missingParam ( const std::string &param )
{
  trace.error() <<" Parameter: "<<param<<" is required..";
  trace.info() <<std::endl;
  exit ( 1 );
}
 
 
int main(int argc, char**argv)
{
  typedef ImageContainerBySTLVector<Z3i::Domain, unsigned char>  MyImageC;
  
  // parse command line using CLI ----------------------------------------------
  CLI::App app;
  std::string inputFileName;
  std::string outputFileName {"result.vol"};
  MyImageC::Value fillValue = 128;
 
  app.description("Fill the interior of a voxel set by filling the exterior using the 6-adjacency.\nThe exterior is the set of voxels with value zero and the interior voxels have value 128\n Basic usage:\n\tvolFillInterior <volFileName> <volOutputFileName> ");
  
  app.add_option("-i,--input,1", inputFileName, "Input vol file." )
  ->required()
  ->check(CLI::ExistingFile);
  app.add_option("-o,--output,2",outputFileName, "Output filename.");
  app.add_option("-v,--fillValue,3", fillValue, "Set the filling value other than the default value of 128.");
 
  app.get_formatter()->column_width(40);
  CLI11_PARSE(app, argc, argv);
  // END parse command line using CLI ----------------------------------------------
 
  
  trace.beginBlock("Loading");
 
  MyImageC  image = VolReader< MyImageC >::importVol ( inputFileName );
  trace.info() << image << std::endl;
  trace.endBlock();
  
  //Flag image
  ImageContainerBySTLVector<Z3i::Domain, bool>  imageFlag(image.domain());
  for(auto &p: imageFlag.domain())
  {
    if (image(p) != 0)
      imageFlag.setValue(p, true);
  }
  
  std::stack<Z3i::Point> pstack;
  pstack.push(*(image.domain().begin()));
  FATAL_ERROR_MSG(image(pstack.top())==0, "Starting point of the domain must be equal to zero.");
  
  //6-Pencil for the exterior propagation
  std::vector<Z3i::Point> pencil6= { {1,0,0}, {0,1,0}, {0,0,1},{-1,0,0}, {0,-1,0}, {0,0,-1}  };
  
  trace.beginBlock("Filling");
  while (!pstack.empty())
  {
    Z3i::Point p = pstack.top();
    pstack.pop();
    imageFlag.setValue(p, true);
 
    for(auto & delta: pencil6)
      if ((image.domain().isInside(p + delta)) &&
          (imageFlag( p + delta) == false))
        pstack.push( p + delta);
  }
  trace.endBlock();
  
  trace.beginBlock("Complement");
  for(auto &p :  image.domain())
    if ((image(p) == 0) && (!imageFlag(p)))
      image.setValue(p, fillValue);
  trace.endBlock();
  
  trace.beginBlock("Saving");
  bool res =  VolWriter< MyImageC >::exportVol(outputFileName, image);
  trace.endBlock();
  
  if (res) return 0; else return 1;
}