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/// \file DicomNestedPhantomParameterisation.cc
/// \brief Implementation of the DicomNestedPhantomParameterisation class

#include "DicomNestedPhantomParameterisation.hh"

#include "DicomHandler.hh"

#include "G4Box.hh"
#include "G4LogicalVolume.hh"
#include "G4Material.hh"
#include "G4ThreeVector.hh"
#include "G4VPhysicalVolume.hh"
#include "G4VTouchable.hh"
#include "G4VVisManager.hh"
#include "G4VisAttributes.hh"

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......

G4String DicomNestedPhantomParameterisation::fDefaultColorFile =
  DicomHandler::GetDicomDataPath() + "/ColourMap.dat";

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
DicomNestedPhantomParameterisation::DicomNestedPhantomParameterisation(
  const G4ThreeVector& voxelSize, std::vector<G4Material*>& mat, G4int fnZ_, G4int fnY_, G4int fnX_,
  G4String colorfile)
  :  // G4VNestedParameterisation(),
    fdX(voxelSize.x()),
    fdY(voxelSize.y()),
    fdZ(voxelSize.z()),
    fnX(fnX_),
    fnY(fnY_),
    fnZ(fnZ_),
    fMaterials(mat),
    fMaterialIndices(0)
{
  ReadColourData(colorfile);
}

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
DicomNestedPhantomParameterisation::~DicomNestedPhantomParameterisation() {}

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
void DicomNestedPhantomParameterisation::ReadColourData(G4String colourFile)
{
  //----- Add a G4VisAttributes for materials not defined in file;
  G4VisAttributes* blankAtt = new G4VisAttributes;
  blankAtt->SetVisibility(FALSE);
  fColours["Default"] = blankAtt;

  std::ifstream fin(colourFile.c_str());
  G4int nMate;
  G4String mateName;
  G4double cred, cgreen, cblue, copacity;
  fin >> nMate;
  for (G4int ii = 0; ii < nMate; ii++) {
    fin >> mateName;
    if (fin.eof()) break;
    fin >> cred >> cgreen >> cblue >> copacity;
    G4Colour colour(cred, cgreen, cblue, copacity);
    G4VisAttributes* visAtt = new G4VisAttributes(colour);
    visAtt->SetVisibility(true);
    fColours[mateName] = visAtt;
    fColours2[ii] = new G4VisAttributes(*visAtt);
  }
}

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
void DicomNestedPhantomParameterisation::SetNoVoxels(unsigned int nx, unsigned int ny,
                                                     unsigned int nz)
{
  fnX = nx;
  fnY = ny;
  fnZ = nz;
}

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
G4Material* DicomNestedPhantomParameterisation::ComputeMaterial(G4VPhysicalVolume* physVol,
                                                                const G4int iz,
                                                                const G4VTouchable* parentTouch)
{
  // protection for initialization and vis at idle state
  //
  if (parentTouch == nullptr) return fMaterials[0];

  // Copy number of voxels.
  // Copy number of X and Y are obtained from replication number.
  // Copy nymber of Z is the copy number of current voxel.
  G4int ix = parentTouch->GetReplicaNumber(0);
  G4int iy = parentTouch->GetReplicaNumber(1);

  G4int copyID = ix + fnX * iy + fnX * fnY * iz;

  std::size_t matIndex = GetMaterialIndex(copyID);
  G4Material* mate = fMaterials[matIndex];

  if (G4VVisManager::GetConcreteInstance() && physVol) {
    G4String mateName = fMaterials.at(matIndex)->GetName();
    std::string::size_type iuu = mateName.find("__");
    if (iuu != std::string::npos) mateName = mateName.substr(0, iuu);

    if (0 < fColours.count(mateName))
      physVol->GetLogicalVolume()->SetVisAttributes(fColours.find(mateName)->second);
    else {
      bool found = false;
      for (const auto& itr : fColours) {
        G4String mat_color = itr.first;
        auto len = mat_color.length();
        if (mateName.find(mat_color) == 0 && mateName.length() > len && mateName[len] == '_') {
          physVol->GetLogicalVolume()->SetVisAttributes(fColours.find(mat_color)->second);
          found = true;
        }
        if (found) break;
      }
      if (!found) {
        static uintmax_t n = 0;
        if (n++ < 100)
          G4cout << "Unknown material name " << mateName << " for index " << matIndex << G4endl;
        if (fColours2.find(matIndex) != fColours2.end())
          physVol->GetLogicalVolume()->SetVisAttributes(fColours2.find(matIndex)->second);
        else
          physVol->GetLogicalVolume()->SetVisAttributes(fColours.begin()->second);
      }
    }
    physVol->GetLogicalVolume()->SetMaterial(mate);
  }

  return mate;
}

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
unsigned int DicomNestedPhantomParameterisation::GetMaterialIndex(unsigned int copyNo) const
{
  // return *(fMaterialIndices+copyNo);
  return unsigned(fMaterialIndices[copyNo]);
}

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
// Number of Materials
// Material scanner is required for preparing physics tables and so on before
// starting simulation, so that G4 has to know number of materials.
//
G4int DicomNestedPhantomParameterisation::GetNumberOfMaterials() const
{
  return G4int(fMaterials.size());
}

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
//
// GetMaterial
//  This is needed for material scanner and realizing geometry.
//
G4Material* DicomNestedPhantomParameterisation::GetMaterial(G4int i) const
{
  return fMaterials[i];
}

//
// Transformation of voxels.
//
void DicomNestedPhantomParameterisation::ComputeTransformation(const G4int copyNo,
                                                               G4VPhysicalVolume* physVol) const
{
  // Position of voxels.
  // x and y positions are already defined in DetectorConstruction by using
  // replicated volume. Here only we need to define is z positions of voxels.
  physVol->SetTranslation(
    G4ThreeVector(0., 0., (2. * static_cast<double>(copyNo) + 1.) * fdZ - fdZ * fnZ));
}

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
//
// Dimensions are always same in this RE02 example.
//
void DicomNestedPhantomParameterisation::ComputeDimensions(G4Box& box, const G4int,
                                                           const G4VPhysicalVolume*) const
{
  box.SetXHalfLength(fdX);
  box.SetYHalfLength(fdY);
  box.SetZHalfLength(fdZ);
}
