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//
//
/// \file molecular.cc
/// \brief Molecular level simulation of DNA

#include "ActionInitialization.hh"
#include "DetectorConstruction.hh"
#include "PhysicsList.hh"

#include "G4DNAChemistryManager.hh"
#include "G4MoleculeGun.hh"
#include "G4RunManagerFactory.hh"
#include "G4UIExecutive.hh"
#include "G4UImanager.hh"
#include "G4VisExecutive.hh"

#include <ctime>

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namespace
{
void PrintUsage()
{
  G4cout << " Usage: " << G4endl;
  G4cout << " molecular [-m macro ] [-t nThreads] [-p PhysicsList] [-v vis]" << G4endl;
  G4cout << "   -p is the G4DNA Physics List option. Default (0) is"
         << " G4EmDNAPhysics" << G4endl;
  G4cout << "   note: -t option is available only for multi-threaded mode." << G4endl;
}
}  // namespace

int main(int argc, char** argv)
{
  if (argc > 10) {
    PrintUsage();
    return 1;
  }

  G4String macro;
  G4int phys_option = 2;
  G4int vis_option = 0;

  G4int nThreads = 2;
  for (G4int ii = 1; ii < argc; ii = ii + 2) {
    if (G4String(argv[ii]) == "-m") {
      macro = argv[ii + 1];
    }
    else if (G4String(argv[ii]) == "-p") {
      phys_option = G4UIcommand::ConvertToInt(argv[ii + 1]);
    }
    else if (G4String(argv[ii]) == "-t") {
      nThreads = G4UIcommand::ConvertToInt(argv[ii + 1]);
    }
    else if (G4String(argv[ii]) == "-v") {
      vis_option = G4UIcommand::ConvertToInt(argv[ii + 1]);
    }
    else {
      PrintUsage();
      return 1;
    }
  }

  G4UIExecutive* ui = nullptr;
  if (!macro.size()) {
    ui = new G4UIExecutive(argc, argv);
  }

  /*
  time_t timeStart;
  time(&timeStart);
  long seed = timeStart;
  G4Random::setTheSeed(seed);
  */

  auto* runManager = G4RunManagerFactory::CreateRunManager();
  if (nThreads > 0) {
    runManager->SetNumberOfThreads(nThreads);
  }

  runManager->SetUserInitialization(new DetectorConstruction(vis_option));
  G4VModularPhysicsList* physicsList = new PhysicsList(phys_option, vis_option);
  runManager->SetUserInitialization(physicsList);
  runManager->SetUserInitialization(new ActionInitialization());
  G4DNAChemistryManager::Instance()->Initialize();

  G4VisExecutive* visManager = nullptr;

  // Get the pointer to the User Interface manager
  G4UImanager* UImanager = G4UImanager::GetUIpointer();
  if (!macro.empty()) {
    // batch mode
    G4String command = "/control/execute ";
    UImanager->ApplyCommand(command + macro);
  }
  else {
    visManager = new G4VisExecutive;
    visManager->Initialize();
    UImanager->ApplyCommand("/control/execute vis.mac");
    ui->SessionStart();
    delete ui;
    delete visManager;
  }
  delete runManager;
  return 0;
}

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