CD_DischargeInceptionStepperImplem.H

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#ifndef CD_DischargeInceptionStepperImplem_H
#define CD_DischargeInceptionStepperImplem_H
 
// Std includes
#include <iostream>
#include <fstream>
 
// Chombo includes
#include <CH_Timer.H>
 
// Our includes
#include <CD_Units.H>
#include <CD_OpenMP.H>
#include <CD_DischargeInceptionSpecies.H>
#include <CD_DischargeInceptionStepper.H>
#include <CD_PolyUtils.H>
#include <CD_NamespaceHeader.H>
 
using namespace Physics::DischargeInception;
 
template <typename P, typename F, typename C>
DischargeInceptionStepper<P, F, C>::DischargeInceptionStepper()
{
  CH_TIME("DischargeInceptionStepper::DischargeInceptionStepper");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::DischargeInceptionStepper" << endl;
  }
 
  // Default settings.
  m_verbosity           = -1;
  m_realm               = Realm::Primal;
  m_phase               = phase::gas;
  m_mode                = Mode::Stationary;
  m_transportAlgorithm  = TransportAlgorithm::ImExCTU;
  m_timeStepRestriction = TimeStepRestriction::Unknown;
  m_profile             = false;
  m_debug               = false;
  m_fullIntegration     = false;
  m_evaluateTownsend    = false;
  m_relativeDeltaU      = 1 + 0.05;
  m_deltaK              = 1.0;
  m_maxKLimit           = 15.0;
 
  this->parseOptions();
 
  m_rho = [](const RealVect x) -> Real {
    return 0.0;
  };
 
  m_sigma = [](const RealVect x) -> Real {
    return 0.0;
  };
 
  m_alpha = [](const Real E, const RealVect x) -> Real {
    return 0.0;
  };
 
  m_eta = [](const Real E, const RealVect x) -> Real {
    return 0.0;
  };
 
  m_voltageCurve = [](const Real a_time) -> Real {
    return 1.0;
  };
 
  m_backgroundRate = [](const Real E, const RealVect x) -> Real {
    return 0.0;
  };
 
  m_detachmentRate = [](const Real E, const RealVect x) -> Real {
    return 0.0;
  };
 
  m_fieldEmission = [](const Real E, const RealVect x) -> Real {
    return 0.0;
  };
 
  m_secondaryEmission = [](const Real E, const RealVect x) -> Real {
    return 0.0;
  };
 
  m_initialIonDensity = [](const RealVect x) -> Real {
    return 0.0;
  };
 
  m_ionMobility = [](const Real E) -> Real {
    return 0.0;
  };
 
  m_ionDiffusion = [](const Real E) -> Real {
    return 0.0;
  };
}
 
template <typename P, typename F, typename C>
DischargeInceptionStepper<P, F, C>::~DischargeInceptionStepper()
{
  CH_TIME("DischargeInceptionStepper::~DischargeInceptionStepper");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::~DischargeInceptionStepper" << endl;
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setupSolvers()
{
  CH_TIME("DischargeInceptionStepper::setupSolvers");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setupSolvers" << endl;
  }
 
  // Always solve for the field using a voltage of one (and then scale up/down later on)
  auto voltage = [](const Real a_time) -> Real {
    return 1.0;
  };
 
  // Instantiate the field solver.
  m_fieldSolver = RefCountedPtr<FieldSolver>(new F());
  m_fieldSolver->setVerbosity(m_verbosity);
  m_fieldSolver->parseOptions();
  m_fieldSolver->setAmr(m_amr);
  m_fieldSolver->setComputationalGeometry(m_computationalGeometry);
  m_fieldSolver->setVoltage(voltage);
  m_fieldSolver->setRealm(m_realm);
  m_fieldSolver->setTime(0, 0.0, 0.0);
 
  // Instantiate the tracer particle solver.
  m_tracerParticleSolver = RefCountedPtr<TracerParticleSolver<P>>(new TracerParticleSolver<P>());
  m_tracerParticleSolver->parseOptions();
  m_tracerParticleSolver->setAmr(m_amr);
  m_tracerParticleSolver->setComputationalGeometry(m_computationalGeometry);
  m_tracerParticleSolver->setRealm(m_realm);
  m_tracerParticleSolver->setPhase(m_phase);
  m_tracerParticleSolver->setTime(0, 0.0, 0.0);
  m_tracerParticleSolver->setName("Tracer particle solver");
  m_tracerParticleSolver->setVolumeScale(true);
  m_tracerParticleSolver->setDeposition(DepositionType::NGP);
 
  // Instantiate the ion solver.
  m_ionSolver = RefCountedPtr<CdrSolver>(new C());
 
  m_ionSolver->parseOptions();
  m_ionSolver->setPhase(m_phase);
  m_ionSolver->setAmr(m_amr);
  m_ionSolver->setComputationalGeometry(m_computationalGeometry);
  m_ionSolver->setRealm(m_realm);
 
  auto species = RefCountedPtr<CdrSpecies>(new DischargeInceptionSpecies(m_initialIonDensity, true, true));
 
  m_ionSolver->setSpecies(species);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::allocate()
{
  CH_TIME("DischargeInceptionStepper::allocate");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::allocate" << endl;
  }
 
  m_fieldSolver->allocate();
  m_tracerParticleSolver->allocate();
  m_ionSolver->allocate();
 
  // Needed for all modes.
  m_amr->allocate(m_potential, m_realm, 1);
  m_amr->allocate(m_potentialHomo, m_realm, 1);
  m_amr->allocate(m_potentialInho, m_realm, 1);
 
  m_amr->allocate(m_electricField, m_realm, SpaceDim);
  m_amr->allocate(m_electricFieldHomo, m_realm, SpaceDim);
  m_amr->allocate(m_electricFieldInho, m_realm, SpaceDim);
 
  m_amr->allocate(m_gradAlpha, m_realm, m_phase, SpaceDim);
 
  DataOps::setValue(m_potentialHomo, 0.0);
  DataOps::setValue(m_potentialInho, 0.0);
 
  switch (m_mode) {
  case Mode::Stationary: {
    m_amr->allocate(m_inceptionVoltagePlus, m_realm, m_phase, 1);
    m_amr->allocate(m_inceptionVoltageMinu, m_realm, m_phase, 1);
    m_amr->allocate(m_streamerInceptionVoltagePlus, m_realm, m_phase, 1);
    m_amr->allocate(m_streamerInceptionVoltageMinu, m_realm, m_phase, 1);
    m_amr->allocate(m_townsendInceptionVoltagePlus, m_realm, m_phase, 1);
    m_amr->allocate(m_townsendInceptionVoltageMinu, m_realm, m_phase, 1);
 
    DataOps::setValue(m_inceptionVoltagePlus, 0.0);
    DataOps::setValue(m_inceptionVoltageMinu, 0.0);
    DataOps::setValue(m_streamerInceptionVoltagePlus, 0.0);
    DataOps::setValue(m_streamerInceptionVoltageMinu, 0.0);
    DataOps::setValue(m_townsendInceptionVoltagePlus, 0.0);
    DataOps::setValue(m_townsendInceptionVoltageMinu, 0.0);
 
    break;
  }
  case Mode::Transient: {
    m_amr->allocate(m_inceptionIntegral, m_realm, m_phase, 1);
    m_amr->allocate(m_townsendCriterion, m_realm, m_phase, 1);
    m_amr->allocate(m_emissionRate, m_realm, m_phase, 1);
    m_amr->allocate(m_backgroundIonization, m_realm, m_phase, 1);
    m_amr->allocate(m_detachment, m_realm, m_phase, 1);
 
    DataOps::setValue(m_inceptionIntegral, 0.0);
    DataOps::setValue(m_townsendCriterion, 0.0);
    DataOps::setValue(m_emissionRate, 0.0);
    DataOps::setValue(m_backgroundIonization, 0.0);
    DataOps::setValue(m_detachment, 0.0);
 
    break;
  }
  default: {
    break;
  }
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::initialData()
{
  CH_TIME("DischargeInceptionStepper::initialData");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::initialData" << endl;
  }
 
  this->solvePoisson();
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::solvePoisson() noexcept
{
  CH_TIME("DischargeInceptionStepper::solvePoisson");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::solvePoisson" << endl;
  }
 
  // Solve for the inhomogeneous part
  m_fieldSolver->setRho(m_rho);
  m_fieldSolver->setSigma(m_sigma);
  m_fieldSolver->setVoltage([](const Real& a_time) {
    return 0.0;
  });
 
  // Solve using our m_potentialInho as an initial guess.
  DataOps::copy(m_fieldSolver->getPotential(), m_potentialInho);
  const bool convergedInho = m_fieldSolver->solve(m_fieldSolver->getPotential(),
                                                  m_fieldSolver->getRho(),
                                                  m_fieldSolver->getSigma(),
                                                  false);
 
  if (!convergedInho) {
    MayDay::Warning("DischargeInceptionStepper::solvePoisson -- could not solve the inhomogeneous Poisson equation. ");
  }
 
  DataOps::copy(m_potentialInho, m_fieldSolver->getPotential());
  DataOps::copy(m_electricFieldInho, m_fieldSolver->getElectricField());
 
  // Solve for the homogeneous part
  m_fieldSolver->setRho([](const RealVect& a_pos) {
    return 0.0;
  });
  m_fieldSolver->setSigma([](const RealVect& a_pos) {
    return 0.0;
  });
  m_fieldSolver->setVoltage([](const Real& a_time) {
    return 1.0;
  });
 
  DataOps::copy(m_fieldSolver->getPotential(), m_potentialHomo);
  const bool convergedHomo = m_fieldSolver->solve(m_fieldSolver->getPotential(),
                                                  m_fieldSolver->getRho(),
                                                  m_fieldSolver->getSigma(),
                                                  false);
 
  if (!convergedHomo) {
    MayDay::Warning("DischargeInceptionStepper::solvePoisson -- could not solve the homogeneous Poisson equation. ");
  }
 
  DataOps::copy(m_potentialHomo, m_fieldSolver->getPotential());
  DataOps::copy(m_electricFieldHomo, m_fieldSolver->getElectricField());
 
  // Alias the field to send to the cell tagger
  m_homogeneousFieldGas = m_amr->alias(phase::gas, m_electricFieldHomo);
 
  if (m_debug) {
 
    // Do a dummy check if the homogeneous and inhomogeneous solutions with a potential of one, and check that the
    // difference is "sufficiently small"
    const Real testVoltage = 1.0;
    const Real errorThresh = 1.E-6;
 
    // This is the sum of the two potentials
    DataOps::setValue(m_potential, 0.0);
    DataOps::incr(m_potential, m_potentialHomo, testVoltage);
    DataOps::incr(m_potential, m_potentialInho, 1.0);
 
    // Do a true solution with a test voltage and space/surface charge.
    auto voltage = [V = testVoltage](const Real& a_time) {
      return V;
    };
 
    DataOps::copy(m_fieldSolver->getPotential(), m_potential);
 
    m_fieldSolver->setRho(m_rho);
    m_fieldSolver->setSigma(m_sigma);
    m_fieldSolver->setVoltage(voltage);
    m_fieldSolver->solve(m_fieldSolver->getPotential(), m_fieldSolver->getRho(), m_fieldSolver->getSigma(), false);
 
    // Do the difference between the two potentials and figure out the max error. It should be < 1.E-6 * testVoltage
    DataOps::incr(m_potential, m_fieldSolver->getPotential(), -1.0);
 
    EBAMRCellData phiGas = m_amr->alias(phase::gas, m_potential);
 
    Real max;
    Real min;
 
    DataOps::getMaxMin(max, min, phiGas, 0);
 
    if (std::max(std::abs(max), std::abs(min)) > errorThresh * testVoltage) {
      MayDay::Error("DischargeInceptionStepper::solvePoisson - debug test failed. Check your BCs!");
    }
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::registerRealms()
{
  CH_TIME("DischargeInceptionStepper::registerRealms");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::registerRealms" << endl;
  }
 
  m_amr->registerRealm(m_realm);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::registerOperators()
{
  CH_TIME("DischargeInceptionStepper::registerOperators");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::registerOperators" << endl;
  }
 
  m_fieldSolver->registerOperators();
  m_tracerParticleSolver->registerOperators();
  m_ionSolver->registerOperators();
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parseOptions()
{
  CH_TIME("DischargeInceptionStepper::parseOptions");
 
  this->parseVerbosity();
  this->parseMode();
  this->parseVoltages();
  this->parseOutput();
  this->parsePlotVariables();
  this->parseInceptionAlgorithm();
  this->parseTransportAlgorithm();
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parseRuntimeOptions()
{
  CH_TIME("DischargeInceptionStepper::parseRuntimeOptions");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::parseRuntimeOptions" << endl;
  }
 
  this->parseVerbosity();
  this->parsePlotVariables();
  this->parseInceptionAlgorithm();
  this->parseTransportAlgorithm();
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parseVerbosity() noexcept
{
  CH_TIME("DischargeInceptionStepper::parseVerbosity");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::parseVerbosity" << endl;
  }
 
  ParmParse pp("DischargeInceptionStepper");
  pp.get("verbosity", m_verbosity);
  pp.get("profile", m_profile);
  pp.query("debug", m_debug);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parseMode() noexcept
{
  CH_TIME("DischargeInceptionStepper::parseMode");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::parseMode" << endl;
  }
 
  ParmParse pp("DischargeInceptionStepper");
 
  std::string str;
 
  pp.get("mode", str);
  if (str == "stationary") {
    m_mode = Mode::Stationary;
  }
  else if (str == "transient") {
    m_mode = Mode::Transient;
  }
  else {
    MayDay::Error("Expected 'none', 'stationary', or 'transient' for 'DischargeInceptionStepper.mode'");
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parseVoltages() noexcept
{
  CH_TIME("DischargeInceptionStepper::parseVoltages");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::parseVoltages" << endl;
  }
 
  ParmParse pp("DischargeInceptionStepper");
 
  pp.get("rel_step_dU", m_relativeDeltaU);
  pp.get("step_dK", m_deltaK);
  pp.get("limit_max_K", m_maxKLimit);
  pp.get("K_inception", m_inceptionK);
  pp.get("eval_townsend", m_evaluateTownsend);
 
  m_relativeDeltaU = 1.0 + m_relativeDeltaU;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parseOutput() noexcept
{
  CH_TIME("DischargeInceptionStepper::parseOutput");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::parseOutput" << endl;
  }
 
  ParmParse pp("DischargeInceptionStepper");
 
  pp.get("output_file", m_outputFile);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parseInceptionAlgorithm() noexcept
{
  CH_TIME("DischargeInceptionStepper::parseInceptionAlgorithm");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::parseInceptionAlgorithm" << endl;
  }
 
  ParmParse pp("DischargeInceptionStepper");
 
  std::string str;
 
  // Get the inception algorithm
  pp.get("full_integration", m_fullIntegration);
  pp.get("inception_alg", str);
  if (str == "euler") {
    m_inceptionAlgorithm = IntegrationAlgorithm::Euler;
  }
  else if (str == "trapz") {
    m_inceptionAlgorithm = IntegrationAlgorithm::Trapezoidal;
  }
  else {
    MayDay::Error("Expected 'euler' or 'trapz' for 'DischargeInceptionStepper.inception_alg'");
  }
 
  pp.get("min_phys_dx", m_minPhysDx);
  pp.get("max_phys_dx", m_maxPhysDx);
  pp.get("min_grid_dx", m_minGridDx);
  pp.get("max_grid_dx", m_maxGridDx);
  pp.get("alpha_dx", m_alphaDx);
  pp.get("grad_alpha_dx", m_gradAlphaDx);
  pp.get("townsend_grid_dx", m_townsendGridDx);
 
  if (m_minPhysDx <= 0.0) {
    MayDay::Abort("DischargeInceptionStepper.min_phys_dx must be > 0.0");
  }
  if (m_maxPhysDx <= 0.0) {
    MayDay::Abort("DischargeInceptionStepper.max_phys_dx must be > 0.0");
  }
  if (m_minGridDx <= 0.0) {
    MayDay::Abort("DischargeInceptionStepper.min_grid_dx must be > 0.0");
  }
  if (m_maxGridDx <= 0.0) {
    MayDay::Abort("DischargeInceptionStepper.max_grid_dx must be > 0.0");
  }
  if (m_alphaDx <= 0.0) {
    MayDay::Abort("DischargeInceptionStepper.alpha_dx must be > 0.0");
  }
  if (m_gradAlphaDx <= 0.0) {
    MayDay::Abort("DischargeInceptionStepper.grad_alpha_dx must be > 0.0");
  }
  if (m_townsendGridDx <= 0.0) {
    MayDay::Abort("DischargeInceptionStepper.townsend_grid_dx must be > 0.0");
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parseTransportAlgorithm() noexcept
{
  CH_TIME("DischargeInceptionStepper::parseTransportAlgorithm");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::parseTransportAlgorithm" << endl;
  }
 
  ParmParse pp("DischargeInceptionStepper");
 
  std::string str;
 
  pp.get("transport_alg", str);
  pp.get("ion_transport", m_ionTransport);
  pp.get("cfl", m_cfl);
  pp.get("first_dt", m_firstDt);
  pp.get("min_dt", m_minDt);
  pp.get("max_dt", m_maxDt);
  pp.get("max_dt_growth", m_maxDtGrowth);
  pp.get("voltage_eps", m_epsVoltage);
 
  CH_assert(m_minDt >= 0.0);
  CH_assert(m_maxDt >= 0.0);
  CH_assert(m_firstDt > 0.0);
 
  if (str == "euler") {
    m_transportAlgorithm = TransportAlgorithm::Euler;
  }
  else if (str == "heun") {
    m_transportAlgorithm = TransportAlgorithm::Heun;
  }
  else if (str == "imex") {
    m_transportAlgorithm = TransportAlgorithm::ImExCTU;
  }
  else {
    MayDay::Error("Expected 'euler', 'heun', or 'imex' for 'DischargeInceptionStepper.transport_alg'");
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::parsePlotVariables() noexcept
{
  CH_TIME("DischargeInceptionStepper::parsePlotVariables");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::parsePlotVariables" << endl;
  }
 
  m_plotField                = false;
  m_plotPoisson              = false;
  m_plotTracer               = false;
  m_plotNegativeIons         = false;
  m_plotInceptionIntegral    = false;
  m_plotInceptionVoltage     = false;
  m_plotBackgroundIonization = false;
  m_plotDetachment           = false;
  m_plotFieldEmission        = false;
  m_plotAlpha                = false;
  m_plotEta                  = false;
  m_plotTownsend             = false;
 
  ParmParse pp("DischargeInceptionStepper");
 
  // Get plot variables.
  const int num = pp.countval("plt_vars");
  if (num > 0) {
    Vector<std::string> plotVars(num);
    pp.getarr("plt_vars", plotVars, 0, num);
 
    for (int i = 0; i < num; i++) {
      if (plotVars[i] == "field") {
        m_plotField = true;
      }
      else if (plotVars[i] == "poisson") {
        m_plotPoisson = true;
      }
      else if (plotVars[i] == "tracer") {
        m_plotTracer = true;
      }
      else if (plotVars[i] == "ions") {
        m_plotNegativeIons = true;
      }
      else if (plotVars[i] == "K") {
        m_plotInceptionIntegral = true;
      }
      else if (plotVars[i] == "Uinc") {
        m_plotInceptionVoltage = true;
      }
      else if (plotVars[i] == "bg_rate") {
        m_plotBackgroundIonization = true;
      }
      else if (plotVars[i] == "detachment") {
        m_plotDetachment = true;
      }
      else if (plotVars[i] == "emission") {
        m_plotFieldEmission = true;
      }
      else if (plotVars[i] == "alpha") {
        m_plotAlpha = true;
      }
      else if (plotVars[i] == "eta") {
        m_plotEta = true;
      }
      else if (plotVars[i] == "T") {
        m_plotTownsend = true;
      }
    }
  }
}
 
#ifdef CH_USE_HDF5
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::writeCheckpointData(HDF5Handle& a_handle, const int a_lvl) const
{
  CH_TIME("DischargeInceptionStepper::writeCheckpointData");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::writeCheckpointData" << endl;
  }
}
#endif
 
#ifdef CH_USE_HDF5
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::readCheckpointData(HDF5Handle& a_handle, const int a_lvl)
{
  CH_TIME("DischargeInceptionStepper::readCheckpointData");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::readCheckpointData" << endl;
  }
 
  MayDay::Error("DischargeInceptionStepper::readCheckpointData -- restart not supported. Use Driver.restart=0");
}
#endif
 
template <typename P, typename F, typename C>
int
DischargeInceptionStepper<P, F, C>::getNumberOfPlotVariables() const
{
  CH_TIME("DischargeInceptionStepper::getNumberOfPlotVariables");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::getNumberOfPlotVariables" << endl;
  }
 
  int ncomp = 0;
 
  if (m_plotPoisson) {
    ncomp += m_fieldSolver->getNumberOfPlotVariables();
  }
  if (m_plotTracer) {
    ncomp += m_tracerParticleSolver->getNumberOfPlotVariables();
  }
  if (m_plotNegativeIons) {
    ncomp += m_ionSolver->getNumberOfPlotVariables();
  }
 
  switch (m_mode) {
  case Mode::Stationary: {
 
    if (m_plotField) {
      // Electric potential for each voltage
      ncomp += 2 * m_voltageSweeps.size();
 
      // Electric field magnitude
      ncomp += 2 * m_voltageSweeps.size();
 
      // All the electric field components
      ncomp += 2 * SpaceDim * m_voltageSweeps.size();
 
      // Surface and space charge densities
      ncomp += 2;
    }
 
    // K-values
    if (m_plotInceptionIntegral) {
      ncomp += 2 * m_voltageSweeps.size();
    }
 
    // Inception voltage.
    if (m_plotInceptionVoltage) {
      ncomp += 6;
    }
 
    // Background ionization rates
    if (m_plotBackgroundIonization) {
      ncomp += m_voltageSweeps.size();
    }
 
    // Detachment rates
    if (m_plotDetachment) {
      ncomp += m_voltageSweeps.size();
    }
 
    // Field emission rates
    if (m_plotFieldEmission) {
      ncomp += 2 * m_voltageSweeps.size();
    }
 
    // Plotting alpha
    if (m_plotAlpha) {
      ncomp += m_voltageSweeps.size();
    }
 
    // Plotting eta
    if (m_plotEta) {
      ncomp += m_voltageSweeps.size();
    }
 
    // When plotting both, add the effective ionization coefficient
    if (m_plotAlpha && m_plotEta) {
      ncomp += m_voltageSweeps.size();
    }
 
    // Plotting gamma coefficient
    if (m_plotTownsend) {
      ncomp += 2 * m_voltageSweeps.size();
    }
 
    break;
  }
  case Mode::Transient: {
 
    if (m_plotField) {
 
      // Potential
      ncomp += 1;
 
      // Field magnitude
      ncomp += 1;
 
      // Field components
      ncomp += SpaceDim;
 
      // Space and surface charge
      ncomp += 2;
    }
 
    if (m_plotInceptionIntegral) {
      ncomp += 1;
    }
    if (m_plotTownsend) {
      ncomp += 1;
    }
    if (m_plotBackgroundIonization) {
      ncomp += 1;
    }
    if (m_plotDetachment) {
      ncomp += 1;
    }
    if (m_plotFieldEmission) {
      ncomp += 1;
    }
    if (m_plotAlpha) {
      ncomp += 1;
    }
    if (m_plotEta) {
      ncomp += 1;
    }
    if (m_plotAlpha && m_plotEta) {
      ncomp += 1;
    }
 
    break;
  }
  default: {
    break;
  }
  }
 
  return ncomp;
}
 
template <typename P, typename F, typename C>
Vector<std::string>
DischargeInceptionStepper<P, F, C>::getPlotVariableNames() const
{
  CH_TIME("DischargeInceptionStepper::getPlotVariableNames");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::getPlotVariableNames" << endl;
  }
 
  Vector<std::string> plotVars;
 
  if (m_plotPoisson) {
    Vector<std::string> poissonVars = m_fieldSolver->getPlotVariableNames();
    for (int i = 0; i < poissonVars.size(); i++) {
      poissonVars[i] = "Poisson/" + poissonVars[i];
    }
    plotVars.append(poissonVars);
  }
 
  if (m_plotTracer) {
    Vector<std::string> tracerVars = m_tracerParticleSolver->getPlotVariableNames();
    for (int i = 0; i < tracerVars.size(); i++) {
      tracerVars[i] = "Tracer/" + tracerVars[i];
    }
    plotVars.append(tracerVars);
  }
 
  if (m_plotNegativeIons) {
    Vector<std::string> cdrVars = m_ionSolver->getPlotVariableNames();
    for (int i = 0; i < cdrVars.size(); i++) {
      cdrVars[i] = "CDR/" + cdrVars[i];
    }
    plotVars.append(cdrVars);
  }
 
  switch (m_mode) {
  case Mode::Stationary: {
    plotVars.append(this->getStationaryPlotVariableNames());
 
    break;
  }
  case Mode::Transient: {
    plotVars.append(this->getTransientPlotVariableNames());
 
    break;
  }
  default: {
    MayDay::Error("DischargeInceptionStepper::getPlotVariableNames - logic bust");
 
    break;
  }
  }
 
  return plotVars;
}
 
template <typename P, typename F, typename C>
Vector<std::string>
DischargeInceptionStepper<P, F, C>::getStationaryPlotVariableNames() const noexcept
{
  CH_TIME("DischargeInceptionStepper::getStationaryPlotVariableNames");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::getStationaryPlotVariableNames" << endl;
  }
 
  Vector<std::string> plotVars;
 
  const std::string prefix = "DischargeInceptionStepper/";
 
  // Always plotted.
  if (m_plotField) {
    for (const Real& V : m_voltageSweeps) {
      plotVars.push_back(prefix + "Potential/+/ V = +" + std::to_string(V));
      plotVars.push_back(prefix + "Potential/-/ V = -" + std::to_string(V));
    }
 
    for (const Real& V : m_voltageSweeps) {
      plotVars.push_back(prefix + "E/+/ V = +" + std::to_string(V));
      plotVars.push_back(prefix + "x-E/+/ V= +" + std::to_string(V));
      plotVars.push_back(prefix + "y-E/+/ V= +" + std::to_string(V));
      if (SpaceDim == 3) {
        plotVars.push_back(prefix + "z-E/+/ V= +" + std::to_string(V));
      }
 
      plotVars.push_back(prefix + "E/-/ V = -" + std::to_string(V));
      plotVars.push_back(prefix + "x-E/-/ V = -" + std::to_string(V));
      plotVars.push_back(prefix + "y-E/-/ V = -" + std::to_string(V));
      if (SpaceDim == 3) {
        plotVars.push_back(prefix + "z-E/-/ V= -" + std::to_string(V));
      }
    }
 
    // Surface charge
    plotVars.push_back(prefix + "Space charge density");
    plotVars.push_back(prefix + "Surface charge density");
  }
 
  if (m_plotInceptionVoltage) {
    plotVars.push_back(prefix + "Minimum inception voltage +");
    plotVars.push_back(prefix + "Minimum inception voltage -");
    plotVars.push_back(prefix + "Streamer inception voltage +");
    plotVars.push_back(prefix + "Streamer inception voltage -");
    plotVars.push_back(prefix + "Townsend inception voltage +");
    plotVars.push_back(prefix + "Townsend inception voltage -");
  }
 
  if (m_plotInceptionIntegral) {
    std::string varName;
 
    for (const Real& V : m_voltageSweeps) {
      varName = prefix + "K-value/+/ V = +" + std::to_string(V);
      plotVars.push_back(varName);
    }
 
    for (const Real& V : m_voltageSweeps) {
      varName = prefix + "K-value/-/ V = -" + std::to_string(V);
      plotVars.push_back(varName);
    }
  }
 
  // Secondary emission coefficient for initiatory ions
  if (m_plotTownsend) {
    for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
      const std::string varName = prefix + "T-value/+/ V = +" + std::to_string(m_voltageSweeps[i]);
 
      plotVars.push_back(varName);
    }
 
    for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
      const std::string varName = prefix + "T-value/-/ V = -" + std::to_string(m_voltageSweeps[i]);
 
      plotVars.push_back(varName);
    }
  }
 
  // Write the background ionization rates
  if (m_plotBackgroundIonization) {
    std::string varName;
 
    for (const Real& V : m_voltageSweeps) {
      varName = prefix + "Background ionization rate/ V =  " + std::to_string(V);
      plotVars.push_back(varName);
    }
  }
 
  // Write detachment rates
  if (m_plotDetachment) {
    std::string varName;
 
    for (const Real& V : m_voltageSweeps) {
      varName = prefix + "Detachment rate/ V =  " + std::to_string(V);
      plotVars.push_back(varName);
    }
  }
 
  // Write field emission rates
  if (m_plotFieldEmission) {
    std::string varName;
 
    for (const Real& V : m_voltageSweeps) {
      varName = prefix + "Field emission rate/+/ V = +" + std::to_string(V);
      plotVars.push_back(varName);
    }
 
    for (const Real& V : m_voltageSweeps) {
      varName = prefix + "Field emission rate/-/ V = -" + std::to_string(V);
      plotVars.push_back(varName);
    }
  }
 
  // Alpha value
  if (m_plotAlpha) {
    for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
 
      const std::string varName = prefix + "Alpha coefficient/ V = " + std::to_string(m_voltageSweeps[i]);
 
      plotVars.push_back(varName);
    }
  }
 
  // Eta
  if (m_plotEta) {
    for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
      const std::string varName = prefix + "Eta coefficient/ V = " + std::to_string(m_voltageSweeps[i]);
 
      plotVars.push_back(varName);
    }
  }
 
  // Effective alpha coefficient
  if (m_plotAlpha && m_plotEta) {
    for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
      const std::string varName = prefix + "Alpha_eff/ V = " + std::to_string(m_voltageSweeps[i]);
 
      plotVars.push_back(varName);
    }
  }
 
  return plotVars;
}
 
template <typename P, typename F, typename C>
Vector<std::string>
DischargeInceptionStepper<P, F, C>::getTransientPlotVariableNames() const noexcept
{
  CH_TIME("DischargeInceptionStepper::getTransientPlotVariableNames");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::getTransientPlotVariableNames" << endl;
  }
 
  Vector<std::string> plotVars;
 
  if (m_plotField) {
    // Add potential and electric field to output
    plotVars.push_back("Electric potential");
    plotVars.push_back("E");
    plotVars.push_back("x-E");
    plotVars.push_back("y-E");
    if (SpaceDim == 3) {
      plotVars.push_back("z-E");
    }
 
    // Space and surface charge
    plotVars.push_back("Space charge density");
    plotVars.push_back("Surface charge density");
  }
 
  if (m_plotInceptionIntegral) {
    plotVars.push_back("Inception integral");
  }
 
  if (m_plotTownsend) {
    plotVars.push_back("Townsend criterion");
  }
 
  if (m_plotBackgroundIonization) {
    plotVars.push_back("Background rate");
  }
 
  if (m_plotDetachment) {
    plotVars.push_back("Detachment rate");
  }
 
  if (m_plotFieldEmission) {
    plotVars.push_back("Field emission");
  }
 
  if (m_plotAlpha) {
    plotVars.push_back("Townsend alpha coefficient");
  }
 
  if (m_plotEta) {
    plotVars.push_back("Townsend eta coefficient");
  }
 
  if (m_plotAlpha && m_plotEta) {
    plotVars.push_back("Effective Townsend coefficient");
  }
 
  for (int i = 0; i < plotVars.size(); i++) {
    plotVars[i] = "DischargeInceptionStepper/" + plotVars[i];
  }
 
  return plotVars;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::writePlotData(LevelData<EBCellFAB>& a_output,
                                                  int&                  a_icomp,
                                                  const std::string     a_outputRealm,
                                                  const int             a_level) const
{
  CH_TIME("DischargeInceptionStepper::writePlotData");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::writePlotData" << endl;
  }
 
  if (m_plotPoisson) {
    m_fieldSolver->writePlotData(a_output, a_icomp, a_outputRealm, a_level);
  }
 
  if (m_plotTracer) {
    m_tracerParticleSolver->writePlotData(a_output, a_icomp, a_outputRealm, a_level);
  }
 
  if (m_plotNegativeIons) {
    m_ionSolver->writePlotData(a_output, a_icomp, a_outputRealm, a_level);
  }
 
  // Write internal data -- this differs between the 'stationary' and 'transient' modes
  switch (m_mode) {
  case Mode::Stationary: {
    this->writePlotDataStationary(a_output, a_icomp, a_outputRealm, a_level);
 
    break;
  }
  case Mode::Transient:
    this->writePlotDataTransient(a_output, a_icomp, a_outputRealm, a_level);
 
    break;
  default: {
    MayDay::Error("DischargeInceptionStepper::writePlotData - logic bust");
 
    break;
  }
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::writePlotDataStationary(LevelData<EBCellFAB>& a_output,
                                                            int&                  a_icomp,
                                                            const std::string     a_outputRealm,
                                                            const int             a_level) const noexcept
{
  CH_TIME("DischargeInceptionStepper::writePlotDataStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::writePlotDataStationary" << endl;
  }
 
  const std::string prefix = "DischargeInceptionStepper/";
 
  if (m_plotField) {
    MFAMRCellData scratch;
    EBAMRIVData   scratchSurf;
 
    m_amr->allocate(scratch, m_realm, 1);
    m_amr->allocate(scratchSurf, m_realm, phase::gas, 1);
 
    for (const auto& V : m_voltageSweeps) {
 
      // Potential for positive applied voltage
      DataOps::setValue(m_potential, 0.0);
      DataOps::incr(m_potential, m_potentialHomo, Real(V));
      DataOps::incr(m_potential, m_potentialInho, 1.0);
      m_fieldSolver->writeMultifluidData(a_output, a_icomp, m_potential, phase::gas, a_outputRealm, a_level, true);
 
      // Potential for negative applied voltage
      DataOps::setValue(m_potential, 0.0);
      DataOps::incr(m_potential, m_potentialHomo, -Real(V));
      DataOps::incr(m_potential, m_potentialInho, 1.0);
      m_fieldSolver->writeMultifluidData(a_output, a_icomp, m_potential, phase::gas, a_outputRealm, a_level, true);
    }
 
    for (const auto& V : m_voltageSweeps) {
      // Field magnitude for positive applied field
      DataOps::setValue(m_electricField, 0.0);
      DataOps::incr(m_electricField, m_electricFieldHomo, Real(V));
      DataOps::incr(m_electricField, m_electricFieldInho, 1.0);
      DataOps::dotProduct(scratch, m_electricField, m_electricField);
      DataOps::squareRoot(scratch);
      m_fieldSolver->writeMultifluidData(a_output, a_icomp, scratch, phase::gas, a_outputRealm, a_level, true);
      m_fieldSolver->writeMultifluidData(a_output, a_icomp, m_electricField, phase::gas, a_outputRealm, a_level, true);
 
      // Field magnitude for positive applied field
      DataOps::setValue(m_electricField, 0.0);
      DataOps::incr(m_electricField, m_electricFieldHomo, -Real(V));
      DataOps::incr(m_electricField, m_electricFieldInho, 1.0);
      DataOps::dotProduct(scratch, m_electricField, m_electricField);
      DataOps::squareRoot(scratch);
      m_fieldSolver->writeMultifluidData(a_output, a_icomp, scratch, phase::gas, a_outputRealm, a_level, true);
      m_fieldSolver->writeMultifluidData(a_output, a_icomp, m_electricField, phase::gas, a_outputRealm, a_level, true);
    }
 
    // Write the space charge density
    DataOps::setValue(scratch, m_rho, m_amr->getProbLo(), m_amr->getDx(), 0);
    m_amr->arithmeticAverage(scratch, m_realm);
    m_amr->interpGhostPwl(scratch, m_realm);
    m_fieldSolver->writeMultifluidData(a_output, a_icomp, scratch, phase::gas, a_outputRealm, a_level, true);
 
    DataOps::setValue(scratchSurf, m_sigma, m_amr->getProbLo(), m_amr->getDx(), 0);
    m_fieldSolver->writeSurfaceData(a_output, a_icomp, *scratchSurf[a_level], a_outputRealm, a_level);
  }
 
  if (m_plotInceptionVoltage) {
    this->writeData(a_output, a_icomp, m_inceptionVoltagePlus, a_outputRealm, a_level, false, true);
    this->writeData(a_output, a_icomp, m_inceptionVoltageMinu, a_outputRealm, a_level, false, true);
    this->writeData(a_output, a_icomp, m_streamerInceptionVoltagePlus, a_outputRealm, a_level, false, true);
    this->writeData(a_output, a_icomp, m_streamerInceptionVoltageMinu, a_outputRealm, a_level, false, true);
    this->writeData(a_output, a_icomp, m_townsendInceptionVoltagePlus, a_outputRealm, a_level, false, true);
    this->writeData(a_output, a_icomp, m_townsendInceptionVoltageMinu, a_outputRealm, a_level, false, true);
  }
 
  const int numVoltages = m_voltageSweeps.size();
 
  if (m_plotInceptionIntegral) {
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      this->writeData(a_output, a_icomp, m_inceptionIntegralPlus[i], a_outputRealm, a_level, false, true);
    }
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      this->writeData(a_output, a_icomp, m_inceptionIntegralMinu[i], a_outputRealm, a_level, false, true);
    }
  }
 
  if (m_plotTownsend) {
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      this->writeData(a_output, a_icomp, m_townsendCriterionPlus[i], a_outputRealm, a_level, false, true);
    }
 
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      this->writeData(a_output, a_icomp, m_townsendCriterionMinu[i], a_outputRealm, a_level, false, true);
    }
  }
 
  if (m_plotBackgroundIonization) {
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      this->writeData(a_output, a_icomp, m_backgroundIonizationStationary[i], a_outputRealm, a_level, false, true);
    }
  }
 
  if (m_plotDetachment) {
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      this->writeData(a_output, a_icomp, m_detachmentStationary[i], a_outputRealm, a_level, false, true);
    }
  }
 
  if (m_plotFieldEmission) {
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      this->writeData(a_output, a_icomp, m_emissionRatesPlus[i], a_outputRealm, a_level, false, true);
    }
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      this->writeData(a_output, a_icomp, m_emissionRatesMinu[i], a_outputRealm, a_level, false, true);
    }
  }
 
  if (m_plotAlpha) {
    LevelData<EBCellFAB> alpha;
    LevelData<EBCellFAB> alphaCoar;
 
    m_amr->allocate(alpha, m_realm, m_phase, a_level, 1);
    if (a_level > 0) {
      m_amr->allocate(alphaCoar, m_realm, m_phase, a_level - 1, 1);
    }
 
    for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
      this->evaluateFunction(alpha, m_voltageSweeps[i], m_alpha, a_level);
      if (a_level > 0) {
        this->evaluateFunction(alphaCoar, m_voltageSweeps[i], m_alpha, a_level - 1);
        m_amr->interpGhost(alpha, alphaCoar, a_level, m_realm, m_phase);
      }
      else {
        alpha.exchange();
      }
 
      m_amr->copyData(a_output, alpha, a_level, a_outputRealm, m_realm, Interval(a_icomp, a_icomp), Interval(0, 0));
 
      a_icomp++;
    }
  }
 
  if (m_plotEta) {
    LevelData<EBCellFAB> eta;
    LevelData<EBCellFAB> etaCoar;
 
    m_amr->allocate(eta, m_realm, m_phase, a_level, 1);
    if (a_level > 0) {
      m_amr->allocate(etaCoar, m_realm, m_phase, a_level - 1, 1);
    }
 
    for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
      this->evaluateFunction(eta, m_voltageSweeps[i], m_eta, a_level);
      if (a_level > 0) {
        this->evaluateFunction(etaCoar, m_voltageSweeps[i], m_eta, a_level - 1);
        m_amr->interpGhost(eta, etaCoar, a_level, m_realm, m_phase);
      }
      else {
        eta.exchange();
      }
 
      m_amr->copyData(a_output, eta, a_level, a_outputRealm, m_realm, Interval(a_icomp, a_icomp), Interval(0, 0));
 
      a_icomp++;
    }
  }
 
  if (m_plotAlpha && m_plotEta) {
    LevelData<EBCellFAB> alphaEff;
    LevelData<EBCellFAB> alphaEffCoar;
 
    m_amr->allocate(alphaEff, m_realm, m_phase, a_level, 1);
    if (a_level > 0) {
      m_amr->allocate(alphaEffCoar, m_realm, m_phase, a_level - 1, 1);
    }
 
    auto alphaFunc = [alpha = this->m_alpha, eta = this->m_eta](const Real E, const RealVect x) -> Real {
      return alpha(E, x) - eta(E, x);
    };
 
    for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
      this->evaluateFunction(alphaEff, m_voltageSweeps[i], alphaFunc, a_level);
      if (a_level > 0) {
        this->evaluateFunction(alphaEffCoar, m_voltageSweeps[i], alphaFunc, a_level - 1);
        m_amr->interpGhost(alphaEff, alphaEffCoar, a_level, m_realm, m_phase);
      }
      else {
        alphaEff.exchange();
      }
 
      // Do a copy, but note that this does not include ghost cells across the CF interface since
      // we are only computing for a single grid level.
      m_amr->copyData(a_output, alphaEff, a_level, a_outputRealm, m_realm, Interval(a_icomp, a_icomp), Interval(0, 0));
 
      a_icomp++;
    }
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::writePlotDataTransient(LevelData<EBCellFAB>& a_output,
                                                           int&                  a_icomp,
                                                           const std::string     a_outputRealm,
                                                           const int             a_level) const noexcept
{
  CH_TIME("DischargeInceptionStepper::writePlotDataTransient");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::writePlotDataTransient" << endl;
  }
 
  CH_assert(a_level >= 0);
  CH_assert(a_level <= m_amr->getFinestLevel());
 
  // Add potential and electric field to output. Note that we need to scale appropriately.
  if (m_plotField) {
 
    // Holds the field magnitude
    MFAMRCellData scratch;
    EBAMRIVData   scratchSurf;
 
    m_amr->allocate(scratch, m_realm, 1);
    m_amr->allocate(scratchSurf, m_realm, phase::gas, 1);
 
    DataOps::dotProduct(scratch, m_electricField, m_electricField);
    DataOps::squareRoot(scratch);
    m_amr->arithmeticAverage(scratch, m_realm);
    m_amr->interpGhostPwl(scratch, m_realm);
 
    m_fieldSolver->writeMultifluidData(a_output, a_icomp, m_potential, phase::gas, a_outputRealm, a_level, true);
    m_fieldSolver->writeMultifluidData(a_output, a_icomp, scratch, phase::gas, a_outputRealm, a_level, true);
    m_fieldSolver->writeMultifluidData(a_output, a_icomp, m_electricField, phase::gas, a_outputRealm, a_level, true);
 
    // Write the space charge density
    DataOps::setValue(scratch, m_rho, m_amr->getProbLo(), m_amr->getDx(), 0);
    m_amr->arithmeticAverage(scratch, m_realm);
    m_amr->interpGhostPwl(scratch, m_realm);
    m_fieldSolver->writeMultifluidData(a_output, a_icomp, scratch, phase::gas, a_outputRealm, a_level, true);
 
    DataOps::setValue(scratchSurf, m_sigma, m_amr->getProbLo(), m_amr->getDx(), 0);
    m_fieldSolver->writeSurfaceData(a_output, a_icomp, *scratchSurf[a_level], a_outputRealm, a_level);
  }
 
  if (m_plotInceptionIntegral) {
    this->writeData(a_output, a_icomp, m_inceptionIntegral, a_outputRealm, a_level, false, true);
  }
 
  if (m_plotTownsend) {
    this->writeData(a_output, a_icomp, m_townsendCriterion, a_outputRealm, a_level, false, true);
  }
 
  if (m_plotBackgroundIonization) {
    LevelData<EBCellFAB> bgIonization;
    m_amr->allocate(bgIonization, m_realm, m_phase, a_level, 1);
 
    this->evaluateFunction(bgIonization, m_voltageCurve(m_time), m_backgroundRate, a_level);
 
    // Do a copy, but note that this does not include ghost cells across the CF interface since
    // we are only computing for a single grid level.
    m_amr
      ->copyData(a_output, bgIonization, a_level, a_outputRealm, m_realm, Interval(a_icomp, a_icomp), Interval(0, 0));
 
    a_icomp++;
  }
 
  if (m_plotDetachment) {
    LevelData<EBCellFAB> detachRate;
    LevelData<EBCellFAB> detachRateCoar;
 
    m_amr->allocate(detachRate, m_realm, m_phase, a_level, 1);
    if (a_level > 0) {
      m_amr->allocate(detachRateCoar, m_realm, m_phase, a_level - 1, 1);
    }
 
    this->evaluateFunction(detachRate, m_voltageCurve(m_time), m_detachmentRate, a_level);
    if (a_level > 0) {
      this->evaluateFunction(detachRateCoar, m_voltageCurve(m_time), m_detachmentRate, a_level - 1);
      m_amr->interpGhost(detachRate, detachRateCoar, a_level, m_realm, m_phase);
    }
 
    m_amr->copyData(a_output, detachRate, a_level, a_outputRealm, m_realm, Interval(a_icomp, a_icomp), Interval(0, 0));
 
    a_icomp++;
  }
 
  if (m_plotFieldEmission) {
    this->writeData(a_output, a_icomp, m_emissionRate, a_outputRealm, a_level, false, false);
  }
 
  if (m_plotAlpha) {
    LevelData<EBCellFAB> alpha;
    LevelData<EBCellFAB> alphaCoar;
 
    m_amr->allocate(alpha, m_realm, m_phase, a_level, 1);
    if (a_level > 0) {
      m_amr->allocate(alphaCoar, m_realm, m_phase, a_level - 1, 1);
    }
 
    this->evaluateFunction(alpha, m_voltageCurve(m_time), m_alpha, a_level);
    if (a_level > 0) {
      this->evaluateFunction(alphaCoar, m_voltageCurve(m_time), m_alpha, a_level - 1);
      m_amr->interpGhost(alpha, alphaCoar, a_level, m_realm, m_phase);
    }
    else {
      alpha.exchange();
    }
 
    // Do a copy, but note that this does not include ghost cells across the CF interface since
    // we are only computing for a single grid level.
    m_amr->copyData(a_output, alpha, a_level, a_outputRealm, m_realm, Interval(a_icomp, a_icomp), Interval(0, 0));
 
    a_icomp++;
  }
 
  if (m_plotEta) {
    LevelData<EBCellFAB> eta;
    LevelData<EBCellFAB> etaCoar;
 
    m_amr->allocate(eta, m_realm, m_phase, a_level, 1);
    if (a_level > 0) {
      m_amr->allocate(etaCoar, m_realm, m_phase, a_level - 1, 1);
    }
 
    this->evaluateFunction(eta, m_voltageCurve(m_time), m_eta, a_level);
    if (a_level > 0) {
      this->evaluateFunction(etaCoar, m_voltageCurve(m_time), m_eta, a_level - 1);
      m_amr->interpGhost(eta, etaCoar, a_level, m_realm, m_phase);
    }
    else {
      eta.exchange();
    }
 
    // Do a copy, but note that this does not include ghost cells across the CF interface since
    // we are only computing for a single grid level.
    m_amr->copyData(a_output, eta, a_level, a_outputRealm, m_realm, Interval(a_icomp, a_icomp), Interval(0, 0));
 
    a_icomp++;
  }
 
  if (m_plotAlpha && m_plotEta) {
    LevelData<EBCellFAB> alphaEff;
    LevelData<EBCellFAB> alphaEffCoar;
 
    m_amr->allocate(alphaEff, m_realm, m_phase, a_level, 1);
    if (a_level > 0) {
      m_amr->allocate(alphaEffCoar, m_realm, m_phase, a_level - 1, 1);
    }
 
    auto alphaFunc = [alpha = this->m_alpha, eta = this->m_eta](const Real E, const RealVect x) -> Real {
      return alpha(E, x) - eta(E, x);
    };
 
    this->evaluateFunction(alphaEff, m_voltageCurve(m_time), alphaFunc, a_level);
    if (a_level > 0) {
      this->evaluateFunction(alphaEffCoar, m_voltageCurve(m_time), alphaFunc, a_level - 1);
      m_amr->interpGhost(alphaEff, alphaEffCoar, a_level, m_realm, m_phase);
    }
    else {
      alphaEff.exchange();
    }
 
    // Do a copy, but note that this does not include ghost cells across the CF interface since
    // we are only computing for a single grid level.
    m_amr->copyData(a_output, alphaEff, a_level, a_outputRealm, m_realm, Interval(a_icomp, a_icomp), Interval(0, 0));
 
    a_icomp++;
  }
}
 
template <typename P, typename F, typename C>
Real
DischargeInceptionStepper<P, F, C>::computeDt()
{
  CH_TIME("DischargeInceptionStepper::computeDt");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeDt" << endl;
  }
 
  Real dt = std::numeric_limits<Real>::max();
 
  if (m_mode == Mode::Transient) {
 
    // Compute time step from ion solver.
    m_timeStepRestriction = TimeStepRestriction::Unknown;
 
    // Restrict by ion solver
    if (m_ionTransport) {
      Real ionDt = std::numeric_limits<Real>::infinity();
      switch (m_transportAlgorithm) {
      case TransportAlgorithm::Euler: {
        ionDt = m_cfl * m_ionSolver->computeAdvectionDiffusionDt();
 
        break;
      }
      case TransportAlgorithm::Heun: {
        ionDt = m_cfl * m_ionSolver->computeAdvectionDiffusionDt();
 
        break;
      }
      case TransportAlgorithm::ImExCTU: {
        ionDt = m_cfl * m_ionSolver->computeAdvectionDt();
 
        break;
      }
      default: {
        MayDay::Error("DischargeInceptionStepper::computDt -- logic bust");
 
        break;
      }
      }
 
      if (ionDt < dt) {
        dt                    = ionDt;
        m_timeStepRestriction = TimeStepRestriction::CDR;
      }
    }
 
    // Restrict by voltage curve.
    Real curveDt = std::numeric_limits<Real>::max();
    if (m_timeStep == 0) {
      curveDt = m_firstDt;
    }
    else {
      const Real preU = m_voltageCurve(m_time - m_dt);
      const Real curU = m_voltageCurve(m_time);
      const Real dVdt = std::abs(curU - preU) / dt;
 
      if (dVdt > std::numeric_limits<Real>::epsilon()) {
        curveDt = m_epsVoltage * std::abs(curU) / dVdt;
      }
 
      // Do not grow too fast.
      curveDt = std::min(m_dt * (1.0 + m_maxDtGrowth), curveDt);
      curveDt = std::max(m_dt * (1.0 - m_maxDtGrowth), curveDt);
    }
 
    if (curveDt < dt) {
      dt                    = curveDt;
      m_timeStepRestriction = TimeStepRestriction::VoltageCurve;
    }
 
    // Restrict by hardcaps
    if (dt > m_maxDt) {
      dt                    = m_maxDt;
      m_timeStepRestriction = TimeStepRestriction::MaxHardcap;
    }
 
    if (dt < m_minDt) {
      dt                    = m_minDt;
      m_timeStepRestriction = TimeStepRestriction::MinHardcap;
    }
  }
 
  return dt;
}
 
template <typename P, typename F, typename C>
Real
DischargeInceptionStepper<P, F, C>::advance(const Real a_dt)
{
  CH_TIME("DischargeInceptionStepper::advance");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::advance" << endl;
  }
 
  if (m_mode == Mode::Transient) {
    Timer timer("DischargeInceptionStepper::advance");
 
    const Real curTime    = m_time + a_dt;
    const Real curVoltage = m_voltageCurve(curTime);
 
    // Compute the electric potential and field at the current time step -- these are used in the output routines
    DataOps::setValue(m_potential, 0.0);
    DataOps::incr(m_potential, m_potentialHomo, curVoltage);
    DataOps::incr(m_potential, m_potentialInho, 1.0);
 
    m_amr->arithmeticAverage(m_potential, m_realm);
    m_amr->interpGhostPwl(m_potential, m_realm);
 
    DataOps::setValue(m_electricField, 0.0);
    DataOps::incr(m_electricField, m_electricFieldHomo, curVoltage);
    DataOps::incr(m_electricField, m_electricFieldInho, 1.0);
 
    m_amr->arithmeticAverage(m_electricField, m_realm);
    m_amr->interpGhostPwl(m_electricField, m_realm);
 
    // Move the negative ions -- still want this for the time step.
    timer.startEvent("Ion advance");
    if (m_ionTransport) {
      this->computeIonVelocity(curVoltage);
      this->computeIonDiffusion(curVoltage);
      this->advanceIons(a_dt);
    }
    timer.stopEvent("Ion advance");
 
    // Seed new particles and compute the inception integral.
    timer.startEvent("Inception integral");
    this->seedIonizationParticles(curVoltage);
    this->computeInceptionIntegralTransient(curVoltage);
    timer.stopEvent("Inception integral");
 
    if (m_evaluateTownsend) {
      timer.startEvent("Townsend criterion");
      this->seedIonizationParticles(curVoltage);
      this->computeTownsendCriterionTransient(curVoltage);
      timer.stopEvent("Townsend criterion");
    }
 
    // Compute the critical volume, critical area, the ionization volume and the electron appearance rate.
    timer.startEvent("Compute Vcr");
    const Real Vcr  = this->computeCriticalVolumeTransient();
    const Real Acr  = this->computeCriticalAreaTransient();
    const Real Vion = this->computeIonizationVolumeTransient(curVoltage);
    const Real Rdot = this->computeRdot(curVoltage);
    timer.stopEvent("Compute Vcr");
 
    m_criticalVolume.emplace_back(curTime, Vcr);
    m_criticalArea.emplace_back(curTime, Acr);
    m_ionizationVolumeTransient.emplace_back(curTime, Vion);
    m_Rdot.emplace_back(curTime, Rdot);
 
    // Compute the inception probability using the trapezoidal rule.
    if (m_Rdot.size() >= 2) {
      Real p = 0.0;
 
      for (size_t i = 0; i < m_Rdot.size() - 1; i++) {
        const Real dt = m_Rdot[i + 1].first - m_Rdot[i].first;
 
        p += 0.5 * dt * (m_Rdot[i + 1].second + m_Rdot[i].second);
      }
 
      m_inceptionProbability.emplace_back(curTime, 1.0 - exp(-p));
    }
 
    // Get the maximum K and T values
    timer.startEvent("Get max/min K");
    Real maxK = -std::numeric_limits<Real>::max();
    Real minK = +std::numeric_limits<Real>::max();
 
    Real maxT = -std::numeric_limits<Real>::max();
    Real minT = +std::numeric_limits<Real>::max();
 
    DataOps::getMaxMin(maxK, minK, m_inceptionIntegral, 0);
    DataOps::getMaxMin(maxT, minT, m_townsendCriterion, 0);
 
    if (!m_fullIntegration) {
      maxK = std::min(maxK, m_inceptionK);
      maxT = std::min(maxT, 1.0);
    }
    m_maxK.emplace_back(m_time + a_dt, maxK);
    m_maxT.emplace_back(m_time + a_dt, maxT);
    timer.stopEvent("Get max/min K");
 
    timer.startEvent("Write report");
    this->writeReportTransient();
    timer.stopEvent("Write report");
 
    if (m_profile) {
      timer.eventReport(pout(), false);
    }
  }
  else {
    MayDay::Error("DischargeInceptionStepper::advance -- must have 'DischargeInceptionStepper.mode = transient'");
  }
 
  return a_dt;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::advanceIons(const Real a_dt) noexcept
{
  CH_TIME("DischargeInceptionStepper::advanceIons");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::advanceIons" << endl;
  }
 
  EBAMRCellData& phi = m_ionSolver->getPhi();
 
  // Use an outflow BC for transport. Note that extrapolateAdvectiveFluxToEB computes
  // -n.(phi * v). Since we compute phi^(k+1) = phi^k - dt*sum(fluxes) this means that a negative
  // flux is an incoming flux.
  EBAMRIVData& ebFlux = m_ionSolver->getEbFlux();
  m_ionSolver->extrapolateAdvectiveFluxToEB(ebFlux);
  DataOps::floor(ebFlux, 0.0);
 
  switch (m_transportAlgorithm) {
  case TransportAlgorithm::Euler: {
    EBAMRCellData divJ;
    m_amr->allocate(divJ, m_realm, m_phase, 1.0);
 
    m_ionSolver->computeDivJ(divJ, phi, 0.0, false, true, false);
 
    DataOps::incr(phi, divJ, -a_dt);
 
    break;
  }
  case TransportAlgorithm::Heun: {
    // Transient storage
    EBAMRCellData yp;
    EBAMRCellData k1;
    EBAMRCellData k2;
 
    m_amr->allocate(yp, m_realm, m_phase, 1);
    m_amr->allocate(k1, m_realm, m_phase, 1);
    m_amr->allocate(k2, m_realm, m_phase, 1);
 
    // Compute k1 coefficient
    m_ionSolver->computeDivJ(k1, phi, 0.0, false, true, false);
    DataOps::copy(yp, phi);
    DataOps::incr(yp, k1, -a_dt);
 
    // Compute k2 coefficient and final state
    m_ionSolver->computeDivJ(k2, yp, 0.0, false, true, false);
    DataOps::incr(phi, k1, -0.5 * a_dt);
    DataOps::incr(phi, k2, -0.5 * a_dt);
 
    break;
  }
  case TransportAlgorithm::ImExCTU: {
    const bool addEbFlux     = true;
    const bool addDomainFlux = true;
 
    // Transient storage
    EBAMRCellData k1;
    EBAMRCellData k2;
 
    m_amr->allocate(k1, m_realm, m_phase, 1);
    m_amr->allocate(k2, m_realm, m_phase, 1);
 
    m_ionSolver->computeDivF(k1, phi, a_dt, false, true, true);
 
    DataOps::kappaScale(k1);
    DataOps::scale(k1, -1.0);
 
    // Use k1 as the old solution.
    DataOps::copy(k2, phi);
 
    // Do the Euler solve.
    m_ionSolver->advanceCrankNicholson(phi, k2, k1, a_dt);
 
    break;
  }
  default: {
    MayDay::Error("DischargeInceptionStepper::advanceIons -- logic bust");
  }
  }
 
  DataOps::floor(phi, 0.0);
 
  m_amr->average(phi, m_realm, m_phase, Average::Conservative);
  m_amr->interpGhost(phi, m_realm, m_phase);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::synchronizeSolverTimes(const int a_step, const Real a_time, const Real a_dt)
{
  CH_TIME("DischargeInceptionStepper::synchronizeSolverTimes");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::synchronizeSolverTimes" << endl;
  }
 
  m_timeStep = a_step;
  m_time     = a_time;
  m_dt       = a_dt;
 
  m_fieldSolver->setTime(a_step, a_time, a_dt);
  m_tracerParticleSolver->setTime(a_step, a_time, a_dt);
  m_ionSolver->setTime(a_step, a_time, a_dt);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::printStepReport()
{
  CH_TIME("DischargeInceptionStepper::printStepReport");
#ifndef NDEBUG
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::printStepReport" << endl;
  }
#endif
 
  std::string timeStepMessage;
  switch (m_timeStepRestriction) {
  case TimeStepRestriction::Unknown: {
    timeStepMessage = "Unknown";
 
    break;
  }
  case TimeStepRestriction::CDR: {
    timeStepMessage = "CFL";
 
    break;
  }
  case TimeStepRestriction::VoltageCurve: {
    timeStepMessage = "Voltage curve";
 
    break;
  }
  case TimeStepRestriction::MinHardcap: {
    timeStepMessage = "Min hardcap";
 
    break;
  }
  case TimeStepRestriction::MaxHardcap: {
    timeStepMessage = "Max hardcap";
 
    break;
  }
  default: {
    MayDay::Warning("DischargeInceptionStepper::printStepReport - logic bust");
 
    break;
  }
  }
 
  // clang-format off
  pout() << "                                ** Voltage                = " << m_voltageCurve(m_time) << endl;
  pout() << "                                ** Crit. volume           = " << m_criticalVolume.back().second << endl;
  pout() << "                                ** Inception probability  = " << m_inceptionProbability.back().second << endl;
  pout() << "                                ** Time step restriction  = " << "'" << timeStepMessage << "'" << endl;
  // clang-format on
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::preRegrid(const int a_lmin, const int a_oldFinestLevel)
{
  CH_TIME("DischargeInceptionStepper::preRegrid");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::preRegrid" << endl;
  }
 
  m_fieldSolver->preRegrid(a_lmin, a_oldFinestLevel);
  m_tracerParticleSolver->preRegrid(a_lmin, a_oldFinestLevel);
  m_ionSolver->preRegrid(a_lmin, a_oldFinestLevel);
 
  m_amr->allocate(m_scratchHomo, m_realm, 1);
  m_amr->allocate(m_scratchInho, m_realm, 1);
 
  m_amr->copyData(m_scratchHomo, m_potentialHomo);
  m_amr->copyData(m_scratchInho, m_potentialInho);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::regrid(const int a_lmin, const int a_oldFinestLevel, const int a_newFinestLevel)
{
  CH_TIME("DischargeInceptionStepper::regrid");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::regrid" << endl;
  }
 
  // Regrid tracer particles and field
  m_fieldSolver->regrid(a_lmin, a_oldFinestLevel, a_newFinestLevel);
  m_tracerParticleSolver->regrid(a_lmin, a_oldFinestLevel, a_newFinestLevel);
  m_ionSolver->regrid(a_lmin, a_oldFinestLevel, a_newFinestLevel);
 
  // Regrid electric field and potentials
  m_amr->reallocate(m_potential, a_lmin);
  m_amr->reallocate(m_potentialHomo, a_lmin);
  m_amr->reallocate(m_potentialInho, a_lmin);
 
  m_amr->reallocate(m_electricField, a_lmin);
  m_amr->reallocate(m_electricFieldHomo, a_lmin);
  m_amr->reallocate(m_electricFieldInho, a_lmin);
 
  m_amr->reallocate(m_gradAlpha, m_phase, a_lmin);
 
  const EBCoarseToFineInterp::Type interpType = EBCoarseToFineInterp::ConservativeMinMod;
 
  m_amr->interpToNewGrids(m_potentialHomo, m_scratchHomo, a_lmin, a_oldFinestLevel, a_newFinestLevel, interpType);
  m_amr->interpToNewGrids(m_potentialInho, m_scratchInho, a_lmin, a_oldFinestLevel, a_newFinestLevel, interpType);
 
  switch (m_mode) {
  case Mode::Stationary: {
    m_amr->reallocate(m_inceptionVoltagePlus, m_phase, a_lmin);
    m_amr->reallocate(m_inceptionVoltageMinu, m_phase, a_lmin);
    m_amr->reallocate(m_streamerInceptionVoltagePlus, m_phase, a_lmin);
    m_amr->reallocate(m_streamerInceptionVoltageMinu, m_phase, a_lmin);
    m_amr->reallocate(m_townsendInceptionVoltagePlus, m_phase, a_lmin);
    m_amr->reallocate(m_townsendInceptionVoltageMinu, m_phase, a_lmin);
 
    break;
  }
  case Mode::Transient: {
    m_amr->reallocate(m_inceptionIntegral, m_phase, a_lmin);
    m_amr->reallocate(m_townsendCriterion, m_phase, a_lmin);
    m_amr->reallocate(m_emissionRate, m_phase, a_lmin);
    m_amr->reallocate(m_backgroundIonization, m_phase, a_lmin);
    m_amr->reallocate(m_detachment, m_phase, a_lmin);
 
    break;
  }
  default: {
    break;
  }
  }
 
  // Solve for the inhomogeneous and homogeneous Poisson fields again
  this->solvePoisson();
 
  // Re-compute the ion velocity and diffusion coefficients
  this->computeIonVelocity(m_voltageCurve(m_time));
  this->computeIonDiffusion(m_voltageCurve(m_time));
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::postRegrid()
{
  CH_TIME("DischargeInceptionStepper::postRegrid");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::postRegrid" << endl;
  }
 
  m_scratchHomo.clear();
  m_scratchInho.clear();
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setVoltageCurve(const std::function<Real(const Real& E)>& a_voltageCurve) noexcept
{
  CH_TIME("DischargeInceptionStepper::setVoltageCurve");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setVoltageCurve" << endl;
  }
 
  m_voltageCurve = a_voltageCurve;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setRho(const std::function<Real(const RealVect& x)>& a_rho) noexcept
{
  CH_TIME("DischargeInceptionStepper::setRho");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setRho" << endl;
  }
 
  m_rho = a_rho;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setSigma(const std::function<Real(const RealVect& x)>& a_sigma) noexcept
{
  CH_TIME("DischargeInceptionStepper::setSigma");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setSigma" << endl;
  }
 
  m_sigma = a_sigma;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setIonDensity(const std::function<Real(const RealVect x)>& a_density) noexcept
{
  CH_TIME("DischargeInceptionStepper::setIonDensity");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setIonDensity" << endl;
  }
 
  m_initialIonDensity = a_density;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setIonMobility(const std::function<Real(const Real x)>& a_mobility) noexcept
{
  CH_TIME("DischargeInceptionStepper::setIonMobility");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setIonMobility" << endl;
  }
 
  m_ionMobility = a_mobility;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setIonDiffusion(const std::function<Real(const Real x)>& a_diffCo) noexcept
{
  CH_TIME("DischargeInceptionStepper::setIonDiffusion");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setIonDiffusion" << endl;
  }
 
  m_ionDiffusion = a_diffCo;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setAlpha(
  const std::function<Real(const Real& E, const RealVect& x)>& a_alpha) noexcept
{
  CH_TIME("DischargeInceptionStepper::setAlpha");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setAlpha" << endl;
  }
 
  m_alpha = a_alpha;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setEta(const std::function<Real(const Real& E, const RealVect& x)>& a_eta) noexcept
{
  CH_TIME("DischargeInceptionStepper::setEta");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setEta" << endl;
  }
 
  m_eta = a_eta;
}
 
template <typename P, typename F, typename C>
const std::function<Real(const Real& E, const RealVect& x)>&
DischargeInceptionStepper<P, F, C>::getAlpha() const noexcept
{
  return m_alpha;
}
 
template <typename P, typename F, typename C>
const std::function<Real(const Real& E, const RealVect& x)>&
DischargeInceptionStepper<P, F, C>::getEta() const noexcept
{
  return m_eta;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setBackgroundRate(
  const std::function<Real(const Real& E, const RealVect& x)>& a_backgroundRate) noexcept
{
  CH_TIME("DischargeInceptionStepper::setBackgroundRate");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setBackgroundRate" << endl;
  }
 
  m_backgroundRate = a_backgroundRate;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setDetachmentRate(
  const std::function<Real(const Real& E, const RealVect& x)>& a_detachmentRate) noexcept
{
  CH_TIME("DischargeInceptionStepper::setDetachmentRate");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setDetachmentRate" << endl;
  }
 
  m_detachmentRate = a_detachmentRate;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setFieldEmission(
  const std::function<Real(const Real& E, const RealVect& x)>& a_currentDensity) noexcept
{
  CH_TIME("DischargeInceptionStepper::setFieldEmission");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setFieldEmission" << endl;
  }
 
  m_fieldEmission = a_currentDensity;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::setSecondaryEmission(
  const std::function<Real(const Real& E, const RealVect& x)>& a_coefficient) noexcept
{
  CH_TIME("DischargeInceptionStepper::setSecondaryEmission");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::setSecondaryEmission" << endl;
  }
 
  m_secondaryEmission = a_coefficient;
}
 
template <typename P, typename F, typename C>
Mode
DischargeInceptionStepper<P, F, C>::getMode() const noexcept
{
  return m_mode;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::seedUniformParticles() noexcept
{
  CH_TIME("DischargeInceptionStepper::seedUniformParticles");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::seedUniformParticles" << endl;
  }
 
  ParticleContainer<P>& amrParticles = m_tracerParticleSolver->getParticles();
  amrParticles.clearParticles();
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit   = dbl.dataIterator();
    const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
 
    const LevelData<BaseFab<bool>>& validCellsLD = *m_amr->getValidCells(m_realm)[lvl];
 
    const Real dx = m_amr->getDx()[lvl];
 
    ParticleData<P>& levelParticles = amrParticles[lvl];
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBISBox&       ebisbox    = ebisl[din];
      const BaseFab<bool>& validCells = validCellsLD[din];
 
      List<P>& particles = levelParticles[din].listItems();
 
      auto regularKernel = [&](const IntVect& iv) -> void {
        if (validCells(iv, 0) && ebisbox.isRegular(iv)) {
          P p;
          p.position() = m_amr->getProbLo() + (0.5 * RealVect::Unit + RealVect(iv)) * dx;
 
          particles.add(p);
        }
      };
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        if (validCells(vof.gridIndex())) {
          P p;
          p.position() = m_amr->getProbLo() + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
 
          particles.add(p);
        }
      };
 
      // Execute kernels over appropriate regions.
      const Box    cellBox = dbl[din];
      VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
      BoxLoops::loop(cellBox, regularKernel);
      BoxLoops::loop(vofit, irregularKernel);
 
      for (ListIterator<P> lit(particles); lit.ok(); ++lit) {
        P& p = lit();
 
        // Set mass to zero and do a backup of the initial position (we need to rewind particles
        // back later on). The scalar<0> flag is the flag we use for start-stop criteria for the
        // particle integration.
        p.weight()           = 0.0;
        p.template vect<0>() = p.position();
      }
    }
  }
 
  // Remove particles inside the EB.
  m_amr->removeCoveredParticlesIF(amrParticles, m_phase);
 
  amrParticles.remap();
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::seedIonizationParticles(const Real a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::seedIonizationParticles");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::seedIonizationParticles" << endl;
  }
 
  ParticleContainer<P>& amrParticles = m_tracerParticleSolver->getParticles();
  amrParticles.clearParticles();
 
  // Scratch storages
  EBAMRCellData scratch;
  EBAMRCellData alphaMesh;
 
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  m_amr->allocate(alphaMesh, m_realm, m_phase, 1);
 
  this->superposition(scratch, a_voltage);
 
  DataOps::setValue(alphaMesh, 0.0);
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit   = dbl.dataIterator();
    const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
 
    const LevelData<BaseFab<bool>>& validCellsLD = *m_amr->getValidCells(m_realm)[lvl];
 
    const Real     dx     = m_amr->getDx()[lvl];
    const RealVect probLo = m_amr->getProbLo();
 
    ParticleData<P>& levelParticles = amrParticles[lvl];
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBISBox&       ebisbox    = ebisl[din];
      const BaseFab<bool>& validCells = validCellsLD[din];
 
      List<P>& particles = levelParticles[din].listItems();
 
      const EBCellFAB& electricField    = (*scratch[lvl])[din];
      const FArrayBox& electricFieldReg = electricField.getFArrayBox();
 
      EBCellFAB& alpha    = (*alphaMesh[lvl])[din];
      FArrayBox& alphaReg = alpha.getFArrayBox();
 
      if (!ebisbox.isAllCovered()) {
 
        auto regularKernel = [&](const IntVect& iv) -> void {
          if (validCells(iv, 0) && ebisbox.isRegular(iv)) {
 
            const RealVect x  = probLo + dx * (0.5 * RealVect::Unit + RealVect(iv));
            const RealVect EE = RealVect(
              D_DECL(electricFieldReg(iv, 0), electricFieldReg(iv, 1), electricFieldReg(iv, 2)));
 
            const Real E        = EE.vectorLength();
            const Real curAlpha = m_alpha(E, x);
            const Real curEta   = m_eta(E, x);
 
            if (curAlpha > curEta) {
              P p;
 
              p.position() = x;
 
              particles.add(p);
 
              alphaReg(iv, 0) = curAlpha - curEta;
            }
          }
        };
 
        auto irregularKernel = [&](const VolIndex& vof) -> void {
          const IntVect iv = vof.gridIndex();
 
          if (validCells(iv, 0) && ebisbox.isIrregular(iv)) {
            const RealVect x  = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
            const RealVect EE = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
            const Real     E  = EE.vectorLength();
 
            const Real curAlpha = m_alpha(E, x);
            const Real curEta   = m_eta(E, x);
 
            if (curAlpha > curEta) {
              P p;
 
              p.position() = x;
 
              particles.add(p);
 
              alpha(vof, 0) = curAlpha - curEta;
            }
          }
        };
 
        // Execute kernels over appropriate regions.
        const Box    cellBox = dbl[din];
        VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
        BoxLoops::loop(cellBox, regularKernel);
        BoxLoops::loop(vofit, irregularKernel);
      }
 
      for (ListIterator<P> lit(particles); lit.ok(); ++lit) {
        P& p = lit();
 
        p.weight()           = 0.0;
        p.template vect<0>() = p.position();
        p.template vect<2>() = RealVect::Zero;
      }
    }
  }
 
  // Update ghost cells
  m_amr->arithmeticAverage(alphaMesh, m_realm, m_phase);
  m_amr->interpGhost(alphaMesh, m_realm, m_phase);
 
  // Compute gradient
  m_amr->computeGradient(m_gradAlpha, alphaMesh, m_realm, m_phase);
 
  // Update ghost cells in the gradient
  m_amr->arithmeticAverage(m_gradAlpha, m_realm, m_phase);
  m_amr->interpGhost(m_gradAlpha, m_realm, m_phase);
  m_amr->interpToCentroids(m_gradAlpha, m_realm, m_phase);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::postInitialize()
{
  CH_TIME("DischargeInceptionStepper::postInitialize");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::postInitialize" << endl;
  }
 
  // Initialize the negative ion solver
  m_ionSolver->initialData();
  this->computeIonVelocity(m_voltageCurve(m_time));
  this->computeIonDiffusion(m_voltageCurve(m_time));
 
  switch (m_mode) {
  case Mode::Stationary: {
    this->computeInceptionIntegralStationary();
    this->computeTownsendCriterionStationary();
    this->computeCriticalVolumeStationary();
    this->computeCriticalAreaStationary();
    this->computeIonizationVolumeStationary();
    this->computeInceptionVoltageVolume();
 
    // Compute background ionization and field emission on the mesh. Mostly for plotting.
    if (m_plotBackgroundIonization) {
      this->computeBackgroundIonizationStationary();
    }
 
    if (m_plotDetachment) {
      this->computeDetachmentStationary();
    }
 
    if (m_plotFieldEmission) {
      this->computeFieldEmissionStationary();
    }
 
    this->writeReportStationary();
 
    break;
  }
  case Mode::Transient: {
 
    // Seed tracer particles and set velocity
    this->seedIonizationParticles(m_voltageCurve(m_time));
    this->computeInceptionIntegralTransient(m_voltageCurve(m_time));
 
    // Evaluate the Townsend criterion if the user asks for it.
    if (m_evaluateTownsend) {
      this->seedIonizationParticles(m_voltageCurve(m_time));
      this->computeTownsendCriterionTransient(m_voltageCurve(m_time));
    }
 
    // Get the maximum K and T values
    Real maxK = -std::numeric_limits<Real>::max();
    Real minK = +std::numeric_limits<Real>::max();
 
    Real maxT = -std::numeric_limits<Real>::max();
    Real minT = +std::numeric_limits<Real>::max();
 
    DataOps::getMaxMin(maxK, minK, m_inceptionIntegral, 0);
    DataOps::getMaxMin(maxT, minT, m_townsendCriterion, 0);
    if (!m_fullIntegration) {
      maxK = std::min(maxK, m_inceptionK);
      maxT = std::min(maxT, 1.0);
    }
 
    m_Rdot.emplace_back(m_time, this->computeRdot(m_voltageCurve(m_time)));
    m_criticalVolume.emplace_back(m_time, this->computeCriticalVolumeTransient());
    m_criticalArea.emplace_back(m_time, this->computeCriticalAreaTransient());
    m_ionizationVolumeTransient.emplace_back(m_time, this->computeIonizationVolumeTransient(m_voltageCurve(m_time)));
    m_inceptionProbability.emplace_back(m_time, 0.0);
    m_maxK.emplace_back(m_time, maxK);
    m_maxT.emplace_back(m_time, maxT);
 
    break;
  }
  default: {
    break;
  }
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::interpolateGradAlphaToParticles() noexcept
{
  CH_TIME("DischargeInceptionStepper::interpolateGradAlphaToParticles");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::interpolateGradAlphaToParticles" << endl;
  }
 
  // Interpolate onto the particle weight structure
  m_amr->interpolateParticles<P, RealVect&, &P::template vect<2>>(m_tracerParticleSolver->getParticles(),
                                                                  m_realm,
                                                                  m_phase,
                                                                  m_gradAlpha,
                                                                  m_tracerParticleSolver->getInterpolationType(),
                                                                  true);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeInceptionIntegral(EBAMRCellData& a_inceptionIntegral,
                                                             const Real     a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::computeInceptionIntegral");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeInceptionIntegral" << endl;
  }
 
  // TLDR: For this integration we compute the value of the inception integral
  //
  //          K = int alpha_eff(E)dl
  //
  //       The integration runs from the start position of the particle and along a field line until either the
  //       particle leaves the domain or alpha < 0.0.
  //
  //       For the Euler rule we get
  //
  //          T += alpha_eff(E(x)) * dx
  //
  //       For the trapezoidal rule we get
  //
  //          T += 0.5 * dx * [alpha_eff(E(x)) + alpha_eff(E(x+dx))]
 
  // Reset the particles used for field line integration
  this->seedIonizationParticles(a_voltage);
  this->resetTracerParticles();
 
  // Switch between algorithms.
  switch (m_inceptionAlgorithm) {
  case IntegrationAlgorithm::Euler: {
    this->inceptionIntegrateEuler(a_voltage);
 
    break;
  }
  case IntegrationAlgorithm::Trapezoidal: {
    this->inceptionIntegrateTrapezoidal(a_voltage);
 
    break;
  }
  default: {
    MayDay::Error("DischargeInceptionStepper::computeInceptionIntegral -- logic bust");
 
    break;
  }
  }
 
  // Deposit the particles on the mesh and get the max/min values.
  m_tracerParticleSolver->deposit(a_inceptionIntegral);
 
  m_amr->conservativeAverage(a_inceptionIntegral, m_realm, m_phase);
  m_amr->interpGhost(a_inceptionIntegral, m_realm, m_phase);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeInceptionIntegralStationary() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeInceptionIntegralStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeInceptionIntegralStationary" << endl;
  }
 
  constexpr int maxIter = 50;
 
  // Get the maximum field (in the gas phase) with the electrodes at 1V
  Real maxField = 0.0;
  Real minField = 0.0;
 
  EBAMRCellData gasField = m_amr->alias(phase::gas, m_electricField);
 
  this->superposition(gasField, 1.0);
 
  DataOps::getMaxMinNorm(maxField, minField, gasField);
 
  // Compute the critical field and the minimum possible inception voltage.
  const Real Ecrit = this->getCriticalField();
 
  Real curVoltage = m_relativeDeltaU * Ecrit / maxField;
  Real curMaxK    = 0.0;
  int  curIter    = 0;
 
  m_inceptionIntegralPlus.resize(0);
  m_inceptionIntegralMinu.resize(0);
 
  // We use K1, K2, U2, U1 to extrapolate to a next voltage.
  Real K1 = 0.0;
  Real K2 = 0.0;
  Real U1 = Ecrit / maxField;
  Real U2 = curVoltage;
 
  while (curMaxK < m_maxKLimit && curIter < maxIter) {
    EBAMRCellData Kplus;
    EBAMRCellData Kminu;
 
    m_amr->allocate(Kplus, m_realm, m_phase, 1);
    m_amr->allocate(Kminu, m_realm, m_phase, 1);
 
    DataOps::setValue(Kplus, 0.0);
    DataOps::setValue(Kminu, 0.0);
 
    m_inceptionIntegralPlus.push_back(Kplus);
    m_inceptionIntegralMinu.push_back(Kminu);
 
    this->computeInceptionIntegral(Kplus, +curVoltage);
    this->computeInceptionIntegral(Kminu, -curVoltage);
 
    // Get the max and min values of K.
    Real maxKPlus = -std::numeric_limits<Real>::max();
    Real maxKMinu = -std::numeric_limits<Real>::max();
 
    RealVect maxKPlusPos = RealVect::Zero;
    RealVect maxKMinuPos = RealVect::Zero;
 
    this->getMaxValueAndLocation(maxKPlus, maxKPlusPos, Kplus);
    this->getMaxValueAndLocation(maxKMinu, maxKMinuPos, Kminu);
 
    // Populate the relevant data containers.
    m_KPlusValues.emplace_back(std::make_tuple(curVoltage, maxKPlus, maxKPlusPos));
    m_KMinuValues.emplace_back(std::make_tuple(curVoltage, maxKMinu, maxKMinuPos));
 
    curMaxK = std::max(maxKPlus, maxKMinu);
 
    // Figure out the next voltage. User linear extrapolation near the first point and log-linear otherwise.
    K2 = curMaxK;
    U2 = curVoltage;
 
    Real nextVoltage;
    if (K1 <= 0.0) {
      const Real dKdU = (K2 - K1) / (U2 - U1);
 
      nextVoltage = U1 + ((K2 - K1) + m_deltaK) / dKdU;
    }
    else {
      const Real dKdU = std::log(K2 / K1) / (U2 - U1);
 
      nextVoltage = U1 + std::log((K2 + m_deltaK) / K1) / dKdU;
    }
 
    K1 = K2;
    U1 = U2;
 
    // Step to next voltage.
    curVoltage = std::min(nextVoltage, curVoltage * m_relativeDeltaU);
    curIter    = curIter + 1;
 
    if (!m_fullIntegration && (std::abs(curMaxK - m_inceptionK) <= 1E-3)) {
      break;
    }
  }
 
  // Populate the voltage sweep table
  m_voltageSweeps.resize(0);
  for (int i = 0; i < m_KPlusValues.size(); i++) {
    m_voltageSweeps.push_back(std::get<0>(m_KPlusValues[i]));
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeInceptionIntegralTransient(const Real& a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::computeInceptionIntegralTransient");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeInceptionIntegralTransient" << endl;
  }
 
  // Compute K-value on each particle using specified algorithm.
  switch (m_inceptionAlgorithm) {
  case IntegrationAlgorithm::Euler: {
    this->inceptionIntegrateEuler(a_voltage);
 
    break;
  }
  case IntegrationAlgorithm::Trapezoidal: {
    this->inceptionIntegrateTrapezoidal(a_voltage);
 
    break;
  }
  default: {
    MayDay::Error("DischargeInceptionStepper::computeInceptionIntegralTransient - logic bust");
 
    break;
  }
  }
 
  // Deposit the particles onto m_inceptionIntegral
  m_tracerParticleSolver->deposit(m_inceptionIntegral);
 
  m_amr->conservativeAverage(m_inceptionIntegral, m_realm, m_phase);
  m_amr->interpGhost(m_inceptionIntegral, m_realm, m_phase);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::inceptionIntegrateEuler(const Real& a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::inceptionIntegrateEuler");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::inceptionIntegrateEuler" << endl;
  }
 
  const RealVect probLo = m_amr->getProbLo();
  const RealVect probHi = m_amr->getProbHi();
 
  // Allocate a data holder for holding the processed particles. This
  // will be faster because then we only have to iterate through the
  // particles that are actually still moving.
  ParticleContainer<P> amrProcessedParticles;
  m_amr->allocate(amrProcessedParticles, m_realm);
 
  ParticleContainer<P>& amrParticles = m_tracerParticleSolver->getParticles();
 
  m_tracerParticleSolver->remap();
 
  size_t particlesBefore = 0;
 
  if (m_debug) {
    particlesBefore = amrParticles.getNumberOfValidParticlesGlobal();
  }
 
  // Allocate something that holds the velocity of the electrons
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
  DataOps::scale(scratch, -1.0);
 
  m_tracerParticleSolver->setVelocity(scratch);
  m_tracerParticleSolver->interpolateVelocities();
 
  while (amrParticles.getNumberOfValidParticlesGlobal() > 0) {
 
    this->interpolateGradAlphaToParticles();
 
    // Euler integration.
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const Real dx = m_amr->getDx()[lvl];
 
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        List<P>& solverParticles    = amrParticles[lvl][din].listItems();
        List<P>& processedParticles = amrProcessedParticles[lvl][din].listItems();
 
        for (ListIterator<P> lit(solverParticles); lit.ok();) {
          P& p = lit();
 
          const RealVect x         = p.position();
          const RealVect vel       = p.velocity();
          const Real     v         = vel.vectorLength();
          const Real     E         = v;
          const Real     alpha     = m_alpha(E, x);
          const Real     eta       = m_eta(E, x);
          const Real     alphaEff  = alpha - eta;
          const Real     tol       = 1E-10;
          const Real     gradAlpha = tol + (p.template vect<2>()).vectorLength();
 
          // Select a step size equal to the avalance length, but never exceed the physical and grid hardcaps
          Real deltaX;
          deltaX = std::min(m_alphaDx / (tol + std::abs(alphaEff)), m_gradAlphaDx * std::abs(alphaEff / gradAlpha));
          deltaX = std::max(deltaX, m_minGridDx * dx);
          deltaX = std::min(deltaX, m_maxGridDx * dx);
          deltaX = std::min(deltaX, m_maxPhysDx);
          deltaX = std::max(deltaX, m_minPhysDx);
 
          const Real     dt     = deltaX / v;
          const RealVect newPos = p.position() + dt * vel;
          const Real     delta  = (newPos - x).vectorLength();
 
          const bool outsideDomain = this->particleOutsideGrid(newPos, probLo, probHi);
          const bool insideEB      = this->particleInsideEB(newPos);
 
          Real s = 0.0;
 
          if (alphaEff < 0.0) {
            processedParticles.transfer(lit);
          }
          else if (insideEB) {
            // If the particle struck the EB or domain we finish off the integration with a partial step
            const RefCountedPtr<BaseIF>& impFunc = m_amr->getBaseImplicitFunction(m_phase);
 
            if (ParticleOps::ebIntersectionBisect(impFunc, x, newPos, m_minGridDx * dx, s)) {
              p.weight() = p.weight() + s * delta * alphaEff;
            }
 
            processedParticles.transfer(lit);
          }
          else if (outsideDomain) {
            if (ParticleOps::domainIntersection(x, newPos, m_amr->getProbLo(), m_amr->getProbHi(), s)) {
              p.weight() = p.weight() + s * delta * alphaEff;
            }
 
            processedParticles.transfer(lit);
          }
          else {
            p.position() = newPos;
            p.weight()   = p.weight() + deltaX * alphaEff;
 
            ++lit;
          }
        }
 
        // Transfer particles that completed their integration.
        if (!m_fullIntegration) {
          for (ListIterator<P> lit(solverParticles); lit.ok();) {
            P& p = lit();
 
            if (p.weight() >= m_inceptionK) {
              processedParticles.transfer(lit);
            }
            else {
              ++lit;
            }
          }
        }
      }
    }
 
    // Update velocities.
    m_tracerParticleSolver->remap();
    m_tracerParticleSolver->interpolateVelocities();
  }
 
  ParticleOps::copyDestructive(amrParticles, amrProcessedParticles);
 
  // Truncate the weights if we didn't run full integration
  if (!m_fullIntegration) {
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        List<P>& solverParticles = amrParticles[lvl][din].listItems();
 
        for (ListIterator<P> lit(solverParticles); lit.ok(); ++lit) {
          lit().weight() = std::min(m_inceptionK, lit().weight());
        }
      }
    }
  }
 
  this->rewindTracerParticles();
 
  size_t particlesAfter = 0;
 
  if (m_debug) {
    particlesAfter = amrParticles.getNumberOfValidParticlesGlobal();
  }
 
  if (particlesBefore != particlesAfter) {
    MayDay::Warning("DischargeInceptionStepper::inceptionIntegrateEuler - lost/gained particles!");
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::inceptionIntegrateTrapezoidal(const Real& a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::inceptionIntegrateTrapezoidal");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::inceptionIntegrateTrapezoidal" << endl;
  }
 
  // TLDR: We move the particle using Heun's method.
  //
  //          p^(k+1) = p^k + 0.5 * dt * [v(p^k) + v(p^l)]
  //
  //       where p^l = p^k + dt * v(p^k). We will set dt = d/|v(p^k)|. Once we have the
  //       particle endpoints we can compute the contribution to the inception integral
  //       by using the trapezoidal (quadrature) rule
  //
  //          T += 0.5 * dx * [alpha_eff(E(p^k)) + alpha_eff(E(p^(k+1)))],
  //
  //       where dx = |p^(k+1) - p^k|.
 
  const RealVect probLo = m_amr->getProbLo();
  const RealVect probHi = m_amr->getProbHi();
 
  // Allocate a data holder for holding the processed particles. This
  // will be faster because then we only have to iterate through the
  // particles that are actually still moving.
  ParticleContainer<P> amrProcessedParticles;
  m_amr->allocate(amrProcessedParticles, m_realm);
 
  ParticleContainer<P>& amrParticles = m_tracerParticleSolver->getParticles();
 
  m_tracerParticleSolver->remap();
 
  size_t particlesBefore = 0;
 
  if (m_debug) {
    particlesBefore = amrParticles.getNumberOfValidParticlesGlobal();
  }
 
  // Allocate something that holds the velocity of the electrons
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
  DataOps::scale(scratch, -1.0);
 
  m_tracerParticleSolver->setVelocity(scratch);
  m_tracerParticleSolver->interpolateVelocities();
 
  while (amrParticles.getNumberOfValidParticlesGlobal() > 0) {
 
    this->interpolateGradAlphaToParticles();
 
    // Euler stage.
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const Real dx = m_amr->getDx()[lvl];
 
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        List<P>& solverParticles    = amrParticles[lvl][din].listItems();
        List<P>& processedParticles = amrProcessedParticles[lvl][din].listItems();
 
        for (ListIterator<P> lit(solverParticles); lit.ok();) {
          P& p = lit();
 
          const RealVect x         = p.position();
          const RealVect vel       = p.velocity();
          const Real     v         = vel.vectorLength();
          const Real     E         = v;
          const Real     alpha     = m_alpha(E, x);
          const Real     eta       = m_eta(E, x);
          const Real     alphaEff  = alpha - eta;
          const Real     tol       = 1E-10;
          const Real     gradAlpha = tol + (p.template vect<2>()).vectorLength();
 
          // Select a step size equal to the avalance length, but never exceed the physical and grid hardcaps
          Real deltaX;
          deltaX = std::min(m_alphaDx / (tol + std::abs(alphaEff)), m_gradAlphaDx * std::abs(alphaEff / gradAlpha));
          deltaX = std::max(deltaX, m_minGridDx * dx);
          deltaX = std::min(deltaX, m_maxGridDx * dx);
          deltaX = std::min(deltaX, m_maxPhysDx);
          deltaX = std::max(deltaX, m_minPhysDx);
 
          const Real     dt     = deltaX / v;
          const RealVect newPos = p.position() + dt * vel;
          const Real     delta  = (newPos - x).vectorLength();
 
          const bool outsideDomain = this->particleOutsideGrid(newPos, probLo, probHi);
          const bool insideEB      = this->particleInsideEB(newPos);
 
          // If particle hit the EB or domain we finish off with a partial Euler step
          Real s = 0.0;
 
          if (alphaEff < 0.0) {
            processedParticles.transfer(lit);
          }
          else if (insideEB) {
            const RefCountedPtr<BaseIF>& impFunc = m_amr->getBaseImplicitFunction(m_phase);
 
            if (ParticleOps::ebIntersectionBisect(impFunc, x, newPos, m_minGridDx * dx, s)) {
              p.weight() = p.weight() + s * delta * alphaEff;
            }
 
            processedParticles.transfer(lit);
          }
          else if (outsideDomain) {
            if (ParticleOps::domainIntersection(x, newPos, m_amr->getProbLo(), m_amr->getProbHi(), s)) {
              p.weight() = p.weight() + s * delta * alphaEff;
            }
 
            processedParticles.transfer(lit);
          }
          else {
            // Do an Euler step, storaging alpha(p^k), v(p^k), and the time step size.
            p.template real<0>() = alphaEff;
            p.template real<1>() = dt;
            p.template vect<1>() = vel;
 
            p.position() = newPos;
 
            ++lit;
          }
        }
      }
    }
 
    // Remap and update velocities.
    m_tracerParticleSolver->remap();
    m_tracerParticleSolver->interpolateVelocities();
 
    // Second stage.
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const Real dx = m_amr->getDx()[lvl];
 
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        List<P>& solverParticles    = amrParticles[lvl][din].listItems();
        List<P>& processedParticles = amrProcessedParticles[lvl][din].listItems();
 
        for (ListIterator<P> lit(solverParticles); lit.ok();) {
 
          P& p = lit();
 
          const Real     dt  = p.template real<1>();
          const RealVect vk  = p.template vect<1>();
          const RealVect vk1 = p.velocity();
          const RealVect x   = p.position();
          const Real     E   = vk1.vectorLength();
 
          // Note the weird subtraction since p.position() was updated
          // to p^k + dt * v^k.
          const RealVect oldPos = p.position() - dt * vk;
          const RealVect newPos = oldPos + 0.5 * dt * (vk + vk1);
 
          // Compute new alpha.
          const Real alphak  = p.template real<0>();
          const Real alphak1 = m_alpha(E, x) - m_eta(E, x);
          const Real delta   = (newPos - oldPos).vectorLength();
 
          // Stop integration for particles that move into regions alpha < 0.0,
          // inside the EB or outside of the domain.
          const bool negativeAlpha = (alphak + alphak1) < 0.0;
          const bool outsideDomain = this->particleOutsideGrid(newPos, probLo, probHi);
          const bool insideEB      = this->particleInsideEB(newPos);
 
          // If the particle wound up inside the EB we finish off the integration with a partial Euler step
          Real s = 0.0;
 
          if (negativeAlpha) {
            processedParticles.transfer(lit);
          }
          else if (insideEB) {
            const RefCountedPtr<BaseIF>& impFunc = m_amr->getBaseImplicitFunction(m_phase);
 
            if (ParticleOps::ebIntersectionBisect(impFunc, oldPos, newPos, m_minGridDx * dx, s)) {
              p.weight() = p.weight() + s * delta * alphak;
            }
 
            processedParticles.transfer(lit);
          }
          else if (outsideDomain) {
            if (ParticleOps::domainIntersection(oldPos, newPos, m_amr->getProbLo(), m_amr->getProbHi(), s)) {
              p.weight() = p.weight() + s * delta * alphak;
            }
 
            processedParticles.transfer(lit);
          }
          else {
            p.position() = newPos;
            p.weight()   = p.weight() + 0.5 * delta * (alphak + alphak1);
 
            ++lit;
          }
        }
 
        // Transfer particles that completed their integration (if we're doing partial integration)
        if (!m_fullIntegration) {
          for (ListIterator<P> lit(solverParticles); lit.ok();) {
            P& p = lit();
 
            if (p.weight() >= m_inceptionK) {
              processedParticles.transfer(lit);
            }
            else {
              ++lit;
            }
          }
        }
      }
    }
 
    // Remap and update velocities.
    m_tracerParticleSolver->remap();
    m_tracerParticleSolver->interpolateVelocities();
  }
 
  // Copy processed particles over to the solver particles.
  ParticleOps::copyDestructive(amrParticles, amrProcessedParticles);
 
  // Truncate the weights if we didn't run full integration
  if (!m_fullIntegration) {
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        List<P>& solverParticles = amrParticles[lvl][din].listItems();
 
        for (ListIterator<P> lit(solverParticles); lit.ok(); ++lit) {
          lit().weight() = std::min(m_inceptionK, lit().weight());
        }
      }
    }
  }
 
  this->rewindTracerParticles();
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeTownsendCriterionStationary() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeTownsendCriterionStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeTownsendCriterionStationary" << endl;
  }
 
  CH_assert(m_inceptionIntegralPlus.size() == m_inceptionIntegralMinu.size());
 
  m_townsendCriterionPlus.resize(0);
  m_townsendCriterionMinu.resize(0);
 
  for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
    const Real voltage = m_voltageSweeps[i];
 
    const EBAMRCellData KPlus = m_inceptionIntegralPlus[i];
    const EBAMRCellData KMinu = m_inceptionIntegralMinu[i];
 
    EBAMRCellData townsendCriterionPlus;
    EBAMRCellData townsendCriterionMinu;
 
    EBAMRCellData expKPlus;
    EBAMRCellData expKMinu;
 
    m_amr->allocate(townsendCriterionPlus, m_realm, m_phase, 1);
    m_amr->allocate(townsendCriterionMinu, m_realm, m_phase, 1);
 
    m_amr->allocate(expKPlus, m_realm, m_phase, 1);
    m_amr->allocate(expKMinu, m_realm, m_phase, 1);
 
    DataOps::setValue(townsendCriterionPlus, 0.0);
    DataOps::setValue(townsendCriterionMinu, 0.0);
 
    DataOps::setValue(expKPlus, 0.0);
    DataOps::setValue(expKMinu, 0.0);
 
    Real maxTPlus = 0.0;
    Real maxTMinu = 0.0;
 
    RealVect maxTPlusPos = RealVect::Zero;
    RealVect maxTMinuPos = RealVect::Zero;
 
    if (m_evaluateTownsend) {
 
      // Positive polarity.
      this->resetTracerParticles();
 
      switch (m_inceptionAlgorithm) {
      case IntegrationAlgorithm::Euler: {
        this->townsendTrackEuler(voltage);
 
        break;
      }
      case IntegrationAlgorithm::Trapezoidal: {
        this->townsendTrackTrapezoidal(voltage);
 
        break;
      }
      default: {
        MayDay::Error("DischargeInceptionStepper::computeTownsendCriterionStationary -- logic bust");
 
        break;
      }
      }
 
      m_tracerParticleSolver->deposit(townsendCriterionPlus);
 
      m_amr->conservativeAverage(townsendCriterionPlus, m_realm, m_phase);
      m_amr->interpGhost(townsendCriterionPlus, m_realm, m_phase);
 
      // Negative polarity.
      this->resetTracerParticles();
 
      switch (m_inceptionAlgorithm) {
      case IntegrationAlgorithm::Euler: {
        this->townsendTrackEuler(-voltage);
 
        break;
      }
      case IntegrationAlgorithm::Trapezoidal: {
        this->townsendTrackTrapezoidal(-voltage);
 
        break;
      }
      default: {
        MayDay::Error("DischargeInceptionStepper::computeTownsendCriterionStationary -- logic bust");
 
        break;
      }
      }
 
      m_tracerParticleSolver->deposit(townsendCriterionMinu);
 
      m_amr->conservativeAverage(townsendCriterionMinu, m_realm, m_phase);
      m_amr->interpGhost(townsendCriterionMinu, m_realm, m_phase);
 
      // For turning K into exp(K) - 1
      auto exponentiate = [](const Real x) -> Real {
        return x > 0.0 ? exp(x) - 1 : 0.0;
      };
 
      DataOps::copy(expKPlus, KPlus);
      DataOps::copy(expKMinu, KMinu);
 
      DataOps::compute(expKPlus, exponentiate);
      DataOps::compute(expKMinu, exponentiate);
 
      DataOps::multiply(townsendCriterionPlus, expKPlus);
      DataOps::multiply(townsendCriterionMinu, expKMinu);
 
      this->getMaxValueAndLocation(maxTPlus, maxTPlusPos, townsendCriterionPlus);
      this->getMaxValueAndLocation(maxTMinu, maxTMinuPos, townsendCriterionMinu);
 
      // If we're not doing full integration we truncate the Townsend value to 1.
      if (!m_fullIntegration) {
        auto truncate = [](const Real x) -> Real {
          return std::min(x, 1.0);
        };
 
        DataOps::compute(townsendCriterionPlus, truncate);
        DataOps::compute(townsendCriterionMinu, truncate);
      }
    }
 
    m_townsendCriterionPlus.push_back(townsendCriterionPlus);
    m_townsendCriterionMinu.push_back(townsendCriterionMinu);
 
    m_TPlusValues.emplace_back(std::make_tuple(voltage, maxTPlus, maxTPlusPos));
    m_TMinuValues.emplace_back(std::make_tuple(voltage, maxTMinu, maxTMinuPos));
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeTownsendCriterionTransient(const Real& a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::computeTownsendCriterionTransient");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeTownsendCriterionTransient" << endl;
  }
 
  // Compute T-value on each particle using specified algorithm.
  switch (m_inceptionAlgorithm) {
  case IntegrationAlgorithm::Euler: {
    this->townsendTrackEuler(a_voltage);
 
    break;
  }
  case IntegrationAlgorithm::Trapezoidal: {
    this->townsendTrackTrapezoidal(a_voltage);
 
    break;
  }
  default: {
    MayDay::Error("DischargeInceptionStepper::computeTownsendCriterionTransient - logic bust");
 
    break;
  }
  }
 
  // Compute gamma
  EBAMRCellData gamma;
  m_amr->allocate(gamma, m_realm, m_phase, 1);
  DataOps::setValue(gamma, 0.0);
  m_tracerParticleSolver->deposit(gamma);
 
  // Turn K into exp(K)-1
  auto exponentiate = [](const Real x) -> Real {
    return x > 0.0 ? exp(x) - 1 : 0.0;
  };
  DataOps::copy(m_townsendCriterion, m_inceptionIntegral);
  DataOps::compute(m_townsendCriterion, exponentiate);
  DataOps::multiply(m_townsendCriterion, gamma);
 
  // If we're running without full integration we truncate the Townsend value to 1.
  if (!m_fullIntegration) {
    DataOps::compute(m_townsendCriterion, [](const Real x) {
      return std::min(x, 1.0);
    });
  }
 
  m_amr->conservativeAverage(m_townsendCriterion, m_realm, m_phase);
  m_amr->interpGhost(m_townsendCriterion, m_realm, m_phase);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::townsendTrackEuler(const Real& a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::townsendTrackEuler");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::townsendTrackEuler" << endl;
  }
  const RealVect probLo = m_amr->getProbLo();
  const RealVect probHi = m_amr->getProbHi();
 
  // Allocate a data holder for holding the processed particles. This
  // will be faster because then we only have to iterate through the
  // particles that are actually still moving.
  ParticleContainer<P> amrProcessedParticles;
  m_amr->allocate(amrProcessedParticles, m_realm);
 
  ParticleContainer<P>& amrParticles = m_tracerParticleSolver->getParticles();
 
  m_tracerParticleSolver->remap();
 
  size_t particlesBefore = 0;
 
  if (m_debug) {
    particlesBefore = amrParticles.getNumberOfValidParticlesGlobal();
  }
 
  // Allocate something that holds the velocity of the ions
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
 
  m_tracerParticleSolver->setVelocity(scratch);
  m_tracerParticleSolver->interpolateVelocities();
 
  while (amrParticles.getNumberOfValidParticlesGlobal() > 0) {
 
    // Euler integration.
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const Real dx = m_amr->getDx()[lvl];
 
      // Integrate particles until they leave alpha > 0 or strike a cathode surface.
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        List<P>& solverParticles    = amrParticles[lvl][din].listItems();
        List<P>& processedParticles = amrProcessedParticles[lvl][din].listItems();
 
        for (ListIterator<P> lit(solverParticles); lit.ok();) {
          P& p = lit();
 
          const RealVect x      = p.position();
          const RealVect vel    = p.velocity();
          const Real     v      = vel.vectorLength();
          const Real     E      = v;
          const Real     deltaX = m_townsendGridDx * dx;
          const Real     dt     = deltaX / v;
          const RealVect newPos = p.position() + dt * vel;
 
          const bool outsideDomain = this->particleOutsideGrid(newPos, probLo, probHi);
          const bool insideEB      = this->particleInsideEB(newPos);
 
          // Stop integration if avalanche phase is over
          const Real alpha         = m_alpha(E, x);
          const Real eta           = m_eta(E, x);
          const Real alphaEff      = alpha - eta;
          const bool negativeAlpha = alphaEff <= 0.0;
 
          p.weight() = 0.0;
 
          if (insideEB) {
            p.weight() = m_secondaryEmission(E, x);
 
            processedParticles.transfer(lit);
          }
          else if (outsideDomain || negativeAlpha) {
            processedParticles.transfer(lit);
          }
          else {
            p.position() = newPos;
 
            ++lit;
          }
        }
      }
    }
 
    // Update velocities.
    m_tracerParticleSolver->remap();
    m_tracerParticleSolver->interpolateVelocities();
  }
 
  ParticleOps::copyDestructive(amrParticles, amrProcessedParticles);
 
  this->rewindTracerParticles();
 
  size_t particlesAfter = 0;
 
  if (m_debug) {
    particlesAfter = amrParticles.getNumberOfValidParticlesGlobal();
  }
 
  if (particlesBefore != particlesAfter) {
    MayDay::Warning("DischargeInceptionStepper::townsendTrackEuler - lost/gained particles!");
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::townsendTrackTrapezoidal(const Real& a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::townsendTrackTrapezoidal");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::townsendTrackTrapezoidal" << endl;
  }
 
  // TLDR: We move the particle using Heun's method.
  //
  //          p^(k+1) = p^k + 0.5 * dt * [v(p^k) + v(p^l)]
  //
  //       where p^l = p^k + dt * v(p^k). We will set dt = d/|v(p^k)|.
 
  const RealVect probLo = m_amr->getProbLo();
  const RealVect probHi = m_amr->getProbHi();
 
  // Allocate a data holder for holding the processed particles. This
  // will be faster because then we only have to iterate through the
  // particles that are actually still moving.
  ParticleContainer<P> amrProcessedParticles;
  m_amr->allocate(amrProcessedParticles, m_realm);
 
  ParticleContainer<P>& amrParticles = m_tracerParticleSolver->getParticles();
 
  m_tracerParticleSolver->remap();
 
  size_t particlesBefore = 0;
 
  if (m_debug) {
    particlesBefore = amrParticles.getNumberOfValidParticlesGlobal();
  }
 
  // Allocate something that holds the velocity of the ions
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
 
  m_tracerParticleSolver->setVelocity(scratch);
  m_tracerParticleSolver->interpolateVelocities();
 
  while (amrParticles.getNumberOfValidParticlesGlobal() > 0) {
 
    // Euler stage.
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const Real dx = m_amr->getDx()[lvl];
 
      // First stage
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        List<P>& solverParticles    = amrParticles[lvl][din].listItems();
        List<P>& processedParticles = amrProcessedParticles[lvl][din].listItems();
 
        for (ListIterator<P> lit(solverParticles); lit.ok();) {
          P& p = lit();
 
          const RealVect x        = p.position();
          const RealVect vel      = p.velocity();
          const Real     v        = vel.vectorLength();
          const Real     E        = v;
          const Real     alpha    = m_alpha(E, x);
          const Real     eta      = m_eta(E, x);
          const Real     alphaEff = alpha - eta;
 
          // Compute a time step that we will use for the integration.
          const Real     deltaX = m_townsendGridDx * dx;
          const Real     dt     = deltaX / v;
          const RealVect newPos = p.position() + vel * dt;
 
          const bool outsideDomain = this->particleOutsideGrid(newPos, probLo, probHi);
          const bool insideEB      = this->particleInsideEB(newPos);
 
          if (insideEB) {
            p.weight() = m_secondaryEmission(E, x);
 
            processedParticles.transfer(lit);
          }
          else if (alphaEff < 0.0) {
            processedParticles.transfer(lit);
          }
          else if (outsideDomain) {
            processedParticles.transfer(lit);
          }
          else {
            // Do an Euler step, storaging alpha(p^k), v(p^k), and the time step size.
            p.template real<0>() = alphaEff;
            p.template real<1>() = dt;
            p.template vect<1>() = vel;
 
            p.position() = newPos;
 
            ++lit;
          }
        }
      }
    }
 
    // Remap and update velocities.
    m_tracerParticleSolver->remap();
    m_tracerParticleSolver->interpolateVelocities();
 
    // Second stage.
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        List<P>& solverParticles    = amrParticles[lvl][din].listItems();
        List<P>& processedParticles = amrProcessedParticles[lvl][din].listItems();
 
        for (ListIterator<P> lit(solverParticles); lit.ok();) {
 
          P& p = lit();
 
          const Real     dt  = p.template real<1>();
          const RealVect vk  = p.template vect<1>();
          const RealVect vk1 = p.velocity();
          const RealVect x   = p.position();
          const Real     E   = vk1.vectorLength();
 
          // Note the weird subtraction since p.position() was updated
          // to p^k + dt * v^k.
          const RealVect oldPos = p.position() - dt * vk;
          const RealVect newPos = p.position() + 0.5 * dt * (vk1 - vk);
 
          // Compute new alpha.
          const Real alphak  = p.template real<0>();
          const Real alphak1 = m_alpha(E, x) - m_eta(E, x);
 
          // Stop integration for particles that move into regions alpha < 0.0,
          // inside the EB or outside of the domain.
          const bool negativeAlpha = (alphak + alphak1) < 0.0;
          const bool outsideDomain = this->particleOutsideGrid(newPos, probLo, probHi);
          const bool insideEB      = this->particleInsideEB(newPos);
 
          // If the particle wound up inside the EB we finish off the integration with a partial Euler step
          Real s = 0.0;
 
          if (insideEB) {
            p.weight() = m_secondaryEmission(E, oldPos);
 
            processedParticles.transfer(lit);
          }
          else if (outsideDomain) {
            processedParticles.transfer(lit);
          }
          else {
            p.position() = newPos;
 
            ++lit;
          }
        }
      }
    }
 
    // Remap and update velocities.
    m_tracerParticleSolver->remap();
    m_tracerParticleSolver->interpolateVelocities();
  }
 
  // Copy processed particles over to the solver particles.
  ParticleOps::copyDestructive(amrParticles, amrProcessedParticles);
 
  this->rewindTracerParticles();
 
  size_t particlesAfter = 0;
 
  if (m_debug) {
    particlesAfter = amrParticles.getNumberOfValidParticlesGlobal();
  }
 
  if (particlesBefore != particlesAfter) {
    MayDay::Warning("DischargeInceptionStepper::townsendTrackTrapezoidal - lost/gained particles!");
  }
}
 
template <typename P, typename F, typename C>
Real
DischargeInceptionStepper<P, F, C>::computeRdot(const Real& a_voltage) const noexcept
{
  CH_TIME("DischargeInceptionStepper::computeRdot");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeRdot" << endl;
  }
 
  Real Rdot = 0.0;
 
  // TLDR: We are computing the integral of dne/dt * (1-eta/alpha) over the critical volume and integral(j/e * dS) over the "critical surface"
  const RealVect probLo = m_amr->getProbLo();
 
  // Compute the electric field at the input voltage
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit   = dbl.dataIterator();
    const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
    const Real               dx    = m_amr->getDx()[lvl];
 
    const Real vol  = std::pow(dx, SpaceDim);
    const Real area = std::pow(dx, SpaceDim - 1);
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime) reduction(+ : Rdot)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBISBox&       ebisbox    = ebisl[din];
      const BaseFab<bool>& validCells = (*m_amr->getValidCells(m_realm)[lvl])[din];
 
      const EBCellFAB& electricField     = (*scratch[lvl])[din];
      const EBCellFAB& inceptionIntegral = (*m_inceptionIntegral[lvl])[din];
      const EBCellFAB& fieldEmission     = (*m_emissionRate[lvl])[din];
      const EBCellFAB& ionDensity        = (*m_ionSolver->getPhi()[lvl])[din];
 
      const FArrayBox& electricFieldReg     = electricField.getFArrayBox();
      const FArrayBox& inceptionIntegralReg = inceptionIntegral.getFArrayBox();
      const FArrayBox& ionDensityReg        = ionDensity.getFArrayBox();
 
      // Add contribution from background ionization in regular cells.
      auto regularKernel = [&](const IntVect& iv) -> void {
        if (ebisbox.isRegular(iv) && validCells(iv, 0)) {
          if (inceptionIntegralReg(iv, 0) >= m_inceptionK) {
            const RealVect pos = probLo + (0.5 * RealVect::Unit + RealVect(iv)) * dx;
            const RealVect EE  = RealVect(
              D_DECL(electricFieldReg(iv, 0), electricFieldReg(iv, 1), electricFieldReg(iv, 2)));
            const Real E = EE.vectorLength();
 
            const Real alpha = m_alpha(E, pos);
            const Real eta   = m_eta(E, pos);
            const Real k     = m_detachmentRate(E, pos);
            const Real dndt  = m_backgroundRate(E, pos) + k * ionDensityReg(iv, 0);
 
            CH_assert(alpha >= eta);
 
            Rdot += dndt * (1.0 - eta / alpha) * vol;
          }
        }
      };
 
      // Add contribution from background ionization and field emission in cut-cells.
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        const IntVect iv = vof.gridIndex();
        if (ebisbox.isIrregular(iv) && validCells(iv, 0)) {
          if (inceptionIntegral(vof, 0) >= m_inceptionK) {
            const RealVect pos = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
            const RealVect EE  = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
            const Real     E   = EE.vectorLength();
 
            const Real kappa    = ebisbox.volFrac(vof);
            const Real areaFrac = ebisbox.bndryArea(vof);
            const Real alpha    = m_alpha(E, pos);
            const Real eta      = m_eta(E, pos);
            const Real k        = m_detachmentRate(E, pos);
            const Real j        = m_fieldEmission(E, pos);
            const Real dndt     = m_backgroundRate(E, pos) + k * ionDensity(vof, 0);
 
            Rdot += dndt * (1.0 - eta / alpha) * kappa * vol;
            Rdot += j / Units::Qe * areaFrac * area;
          }
        }
      };
 
      // Run the kernels.
      Box          cellBox = dbl[din];
      VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
      BoxLoops::loop(cellBox, regularKernel);
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
 
  return ParallelOps::sum(Rdot);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::rewindTracerParticles() noexcept
{
  CH_TIME("DischargeInceptionStepper::rewindTracerParticles");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::rewindTracerParticles" << endl;
  }
 
  ParticleContainer<P>& amrParticles = m_tracerParticleSolver->getParticles();
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit = dbl.dataIterator();
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      for (ListIterator<P> lit(amrParticles[lvl][din].listItems()); lit.ok(); ++lit) {
        P& p = lit();
 
        p.position() = p.template vect<0>();
      }
    }
  }
 
  amrParticles.remap();
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::resetTracerParticles() noexcept
{
  CH_TIME("DischargeInceptionStepper::resetTracerParticles");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::resetTracerParticles" << endl;
  }
 
  ParticleContainer<P>& amrParticles = m_tracerParticleSolver->getParticles();
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit = dbl.dataIterator();
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      for (ListIterator<P> lit(amrParticles[lvl][din].listItems()); lit.ok(); ++lit) {
        P& p = lit();
 
        p.weight() = 0.0;
      }
    }
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeBackgroundIonizationStationary() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeBackgroundIonizationStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeBackgroundIonizationStationary" << endl;
  }
 
  CH_assert(m_inceptionIntegralPlus.size() == m_inceptionIntegralMinu.size());
  CH_assert(m_inceptionIntegralPlus.size() == m_KPlusValues.size());
  CH_assert(m_inceptionIntegralMinu.size() == m_KMinuValues.size());
 
  m_backgroundIonizationStationary.resize(0);
 
  // Holds the electric field
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
 
  // Solve ionization volume for each voltage
  for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
    const Real voltage = m_voltageSweeps[i];
 
    // Compute the electric field into the scratch storage
    this->superposition(scratch, voltage);
 
    EBAMRCellData backgroundRate;
 
    m_amr->allocate(backgroundRate, m_realm, m_phase, 1);
 
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const DisjointBoxLayout& dbl    = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit    = dbl.dataIterator();
      const EBISLayout&        ebisl  = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
      const Real               dx     = m_amr->getDx()[lvl];
      const RealVect           probLo = m_amr->getProbLo();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        const EBISBox& ebisbox = ebisl[din];
 
        EBCellFAB& bgIonization    = (*backgroundRate[lvl])[din];
        FArrayBox& bgIonizationReg = bgIonization.getFArrayBox();
 
        const EBCellFAB& electricField    = (*scratch[lvl])[din];
        const FArrayBox& electricFieldReg = electricField.getFArrayBox();
 
        auto regularKernel = [&](const IntVect& iv) -> void {
          const RealVect pos = probLo + (0.5 * RealVect::Unit + RealVect(iv)) * dx;
          const RealVect EE  = RealVect(
            D_DECL(electricFieldReg(iv, 0), electricFieldReg(iv, 1), electricFieldReg(iv, 2)));
          const Real E = EE.vectorLength();
 
          bgIonizationReg(iv, 0) = m_backgroundRate(E, pos);
        };
 
        auto irregularKernel = [&](const VolIndex& vof) -> void {
          const RealVect pos = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
          const RealVect EE  = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
          const Real     E   = EE.vectorLength();
 
          bgIonization(vof, 0) = m_backgroundRate(E, pos);
        };
 
        // Execute kernels
        VoFIterator& vofit = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
        BoxLoops::loop(dbl[din], regularKernel);
        BoxLoops::loop(vofit, irregularKernel);
      }
    }
 
    m_backgroundIonizationStationary.push_back(backgroundRate);
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeDetachmentStationary() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeDetachmentStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeDetachmentStationary" << endl;
  }
 
  CH_assert(m_inceptionIntegralPlus.size() == m_inceptionIntegralMinu.size());
  CH_assert(m_inceptionIntegralPlus.size() == m_KPlusValues.size());
  CH_assert(m_inceptionIntegralMinu.size() == m_KMinuValues.size());
 
  m_detachmentStationary.resize(0);
 
  // Holds the electric field
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
 
  // Solve ionization volume for each voltage
  for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
    const Real voltage = m_voltageSweeps[i];
 
    // Compute the electric field into the scratch storage
    this->superposition(scratch, voltage);
 
    EBAMRCellData detachmentRate;
 
    m_amr->allocate(detachmentRate, m_realm, m_phase, 1);
 
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const DisjointBoxLayout& dbl    = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit    = dbl.dataIterator();
      const EBISLayout&        ebisl  = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
      const Real               dx     = m_amr->getDx()[lvl];
      const RealVect           probLo = m_amr->getProbLo();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        const EBISBox& ebisbox = ebisl[din];
 
        EBCellFAB& detachment    = (*detachmentRate[lvl])[din];
        FArrayBox& detachmentReg = detachment.getFArrayBox();
 
        const EBCellFAB& ionDensity    = (*m_ionSolver->getPhi()[lvl])[din];
        const EBCellFAB& electricField = (*scratch[lvl])[din];
 
        const FArrayBox& ionDensityReg    = ionDensity.getFArrayBox();
        const FArrayBox& electricFieldReg = electricField.getFArrayBox();
 
        auto regularKernel = [&](const IntVect& iv) -> void {
          const RealVect pos = probLo + (0.5 * RealVect::Unit + RealVect(iv)) * dx;
          const RealVect EE  = RealVect(
            D_DECL(electricFieldReg(iv, 0), electricFieldReg(iv, 1), electricFieldReg(iv, 2)));
          const Real E   = EE.vectorLength();
          const Real phi = ionDensityReg(iv, 0);
 
          detachmentReg(iv, 0) = m_detachmentRate(E, pos) * phi;
        };
 
        auto irregularKernel = [&](const VolIndex& vof) -> void {
          const RealVect pos = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
          const RealVect EE  = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
          const Real     E   = EE.vectorLength();
          const Real     phi = ionDensity(vof, 0);
 
          detachment(vof, 0) = m_detachmentRate(E, pos) * phi;
        };
 
        // Execute kernels
        VoFIterator& vofit = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
        BoxLoops::loop(dbl[din], regularKernel);
        BoxLoops::loop(vofit, irregularKernel);
      }
    }
 
    m_amr->conservativeAverage(detachmentRate, m_realm, m_phase);
    m_amr->interpGhost(detachmentRate, m_realm, m_phase);
 
    m_detachmentStationary.push_back(detachmentRate);
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeFieldEmissionStationary() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeFieldEmissionStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeFieldEmissionStationary" << endl;
  }
 
  CH_assert(m_inceptionIntegralPlus.size() == m_inceptionIntegralMinu.size());
  CH_assert(m_inceptionIntegralPlus.size() == m_KPlusValues.size());
  CH_assert(m_inceptionIntegralMinu.size() == m_KMinuValues.size());
 
  m_emissionRatesPlus.resize(0);
  m_emissionRatesMinu.resize(0);
 
  const int numVoltages = m_inceptionIntegralPlus.size();
 
  // Holds the electric field
  EBAMRCellData scratchPlus;
  EBAMRCellData scratchMinu;
 
  m_amr->allocate(scratchPlus, m_realm, m_phase, SpaceDim);
  m_amr->allocate(scratchMinu, m_realm, m_phase, SpaceDim);
 
  for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
    const Real voltage = m_voltageSweeps[i];
 
    // Compute the electric field into the scratch storage
    this->superposition(scratchPlus, +voltage);
    this->superposition(scratchMinu, -voltage);
 
    EBAMRCellData emissionRatesPlus;
    EBAMRCellData emissionRatesMinu;
 
    m_amr->allocate(emissionRatesPlus, m_realm, m_phase, 1);
    m_amr->allocate(emissionRatesMinu, m_realm, m_phase, 1);
 
    DataOps::setValue(emissionRatesPlus, 0.0);
    DataOps::setValue(emissionRatesMinu, 0.0);
 
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
      const DisjointBoxLayout& dbl    = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit    = dbl.dataIterator();
      const EBISLayout&        ebisl  = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
      const Real&              dx     = m_amr->getDx()[lvl];
      const RealVect           probLo = m_amr->getProbLo();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        const EBISBox& ebisbox = ebisl[din];
 
        // Here, emissionPlus is when we have the standard voltage (V = 1) and
        // emissionMinu is when the voltage is reverted.
        EBCellFAB& emissionPlus = (*emissionRatesPlus[lvl])[din];
        EBCellFAB& emissionMinu = (*emissionRatesMinu[lvl])[din];
 
        emissionPlus.setVal(0.0);
        emissionMinu.setVal(0.0);
 
        const EBCellFAB& electricFieldPlus = (*scratchPlus[lvl])[din];
        const EBCellFAB& electricFieldMinu = (*scratchMinu[lvl])[din];
 
        auto irregularKernel = [&](const VolIndex& vof) -> void {
          const RealVect pos = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
 
          const RealVect Eplus = RealVect(
            D_DECL(electricFieldPlus(vof, 0), electricFieldPlus(vof, 1), electricFieldPlus(vof, 2)));
          const RealVect Eminu = RealVect(
            D_DECL(electricFieldMinu(vof, 0), electricFieldMinu(vof, 1), electricFieldMinu(vof, 2)));
 
          const Real normalEplus = Eplus.dotProduct(ebisbox.normal(vof));
          const Real normalEminu = Eminu.dotProduct(ebisbox.normal(vof));
 
          emissionPlus(vof, 0) = 0.0;
          emissionMinu(vof, 0) = 0.0;
 
          if (normalEplus < 0.0) {
            emissionPlus(vof, 0) = m_fieldEmission(Eplus.vectorLength(), pos);
          }
          if (normalEminu < 0.0) {
            emissionMinu(vof, 0) = m_fieldEmission(Eminu.vectorLength(), pos);
          }
        };
 
        // Execute kernels
        VoFIterator& vofit = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
        BoxLoops::loop(vofit, irregularKernel);
      }
    }
 
    m_emissionRatesPlus.push_back(emissionRatesPlus);
    m_emissionRatesMinu.push_back(emissionRatesMinu);
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeFieldEmission(EBAMRCellData& a_emissionRate,
                                                         const Real&    a_voltage) const noexcept
{
  CH_TIME("DischargeInceptionStepper::computeFieldEmission");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeFieldEmission" << endl;
  }
 
  CH_assert(a_emissionRate[0]->nComp() == 1);
 
  const RealVect probLo = m_amr->getProbLo();
 
  // Compute the electric field into the scratch storage
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit   = dbl.dataIterator();
    const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
    const Real               dx    = m_amr->getDx()[lvl];
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBISBox& ebisbox = ebisl[din];
 
      // Here, emissionPlus is when we have the standard voltage (V = 1) and
      // emissionMinu is when the voltage is reverted.
      EBCellFAB& emission = (*a_emissionRate[lvl])[din];
 
      emission.setVal(0.0);
 
      const EBCellFAB& electricField    = (*scratch[lvl])[din];
      const FArrayBox& electricFieldReg = electricField.getFArrayBox();
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        const RealVect pos = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
        const RealVect EE  = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
        const Real     E   = EE.vectorLength();
 
        if (EE.dotProduct(ebisbox.normal(vof)) > 0.0) {
          emission(vof, 0) = m_fieldEmission(E, pos);
        }
      };
 
      // Execute kernels
      VoFIterator& vofit = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::evaluateFunction(
  EBAMRCellData&                                             a_data,
  const Real&                                                a_voltage,
  const std::function<Real(const Real E, const RealVect x)>& a_func) const noexcept
{
  CH_TIME("DischargeInceptionStepper::evaluateFunction");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::evaluateFunction" << endl;
  }
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    this->evaluateFunction(*a_data[lvl], a_voltage, a_func, lvl);
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::evaluateFunction(LevelData<EBCellFAB>& a_data,
                                                     const Real&           a_voltage,
                                                     const std::function<Real(const Real E, const RealVect x)>& a_func,
                                                     const int a_level) const noexcept
{
  CH_TIME("DischargeInceptionStepper::evaluateFunction(level)");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::evaluateFunction(level)" << endl;
  }
 
  CH_assert(a_level >= 0);
  CH_assert(a_level <= m_amr->getFinestLevel());
 
  // Compute the electric field
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
 
  const RealVect probLo = m_amr->getProbLo();
 
  const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[a_level];
  const DataIterator&      dit   = dbl.dataIterator();
  const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[a_level];
  const Real               dx    = m_amr->getDx()[a_level];
 
  const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
  for (int mybox = 0; mybox < nbox; mybox++) {
    const DataIndex& din = dit[mybox];
 
    const EBISBox& ebisbox = ebisl[din];
 
    // Here, emissionPlus is when we have the standard voltage (V = 1) and
    // emissionMinu is when the voltage is reverted.
    EBCellFAB& data    = a_data[din];
    FArrayBox& dataReg = data.getFArrayBox();
 
    data.setVal(0.0);
 
    const EBCellFAB& electricField    = (*scratch[a_level])[din];
    const FArrayBox& electricFieldReg = electricField.getFArrayBox();
 
    auto regularKernel = [&](const IntVect& iv) -> void {
      const RealVect pos = probLo + (0.5 * RealVect::Unit + RealVect(iv)) * dx;
      const RealVect EE  = RealVect(D_DECL(electricFieldReg(iv, 0), electricFieldReg(iv, 1), electricFieldReg(iv, 2)));
      const Real     E   = EE.vectorLength();
 
      dataReg(iv, 0) = a_func(E, pos);
    };
 
    auto irregularKernel = [&](const VolIndex& vof) -> void {
      const RealVect pos = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
      const RealVect EE  = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
      const Real     E   = EE.vectorLength();
 
      data(vof, 0) = a_func(E, pos);
    };
 
    // Execute kernels
    Box          cellBox = dbl[din];
    VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[a_level])[din];
 
    BoxLoops::loop(cellBox, regularKernel);
    BoxLoops::loop(vofit, irregularKernel);
  }
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeInceptionVoltageVolume() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeInceptionVoltageVolume");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeInceptionVoltageVolume" << endl;
  }
 
  // TLDR: This routine runs through all the K-values in each cell and estimates the
  //       inception voltage using linear interpolation.
 
  CH_assert(m_mode == Mode::Stationary);
 
  if (m_inceptionIntegralPlus.size() < 2) {
    DataOps::setValue(m_inceptionVoltagePlus, std::numeric_limits<Real>::quiet_NaN());
    DataOps::setValue(m_inceptionVoltageMinu, std::numeric_limits<Real>::quiet_NaN());
 
    MayDay::Warning("DischargeInceptionStepper::computeInceptionVoltageVolume -- not enough voltages for estimating "
                    "inception voltage");
  }
  else {
    constexpr int comp = 0;
 
    // Function which interpolates the inception voltage if possible. Used in the kernels. This one does interpolation.
    auto calcUincInterp = [Kinc = this->m_inceptionK,
                           &V   = this->m_voltageSweeps](const std::vector<Real>& K,
                                                       const std::vector<Real>& T) -> std::array<Real, 3> {
      Real streamerInc = std::numeric_limits<Real>::quiet_NaN();
      Real townsendInc = std::numeric_limits<Real>::quiet_NaN();
 
      bool foundInception = false;
 
      // Streamer criterion
      for (size_t i = 0; i < K.size() - 1; i++) {
        if (K[i] <= Kinc && K[i + 1] > Kinc) {
          streamerInc = V[i] + (Kinc - K[i]) * (V[i + 1] - V[i]) / (K[i + 1] - K[i]);
 
          break;
        }
        else if (K[i] == Kinc) {
          streamerInc = V[i];
 
          break;
        }
      }
 
      // Townsend criterion
      for (size_t i = 0; i < T.size() - 1; i++) {
        if (T[i] <= 1.0 && T[i + 1] > 1) {
          townsendInc = V[i] + (1.0 - T[i]) * (V[i + 1] - V[i]) / (T[i + 1] - T[i]);
 
          break;
        }
        else if (T[i] == 1.0) {
          townsendInc = V[i];
 
          break;
        }
      }
 
      Real Uinc;
 
      if (std::isnan(streamerInc) && std::isnan(townsendInc)) {
        Uinc = std::numeric_limits<Real>::quiet_NaN();
      }
      else if (std::isnan(streamerInc) && !std::isnan(townsendInc)) {
        Uinc = townsendInc;
      }
      else if (!std::isnan(streamerInc) && std::isnan(townsendInc)) {
        Uinc = streamerInc;
      }
      else {
        Uinc = std::min(streamerInc, townsendInc);
      }
 
      return std::array<Real, 3>{Uinc, streamerInc, townsendInc};
    };
 
    // Same functionality as above, but without interpolation.
    auto calcUincNoInterp = [Kinc = this->m_inceptionK,
                             &V   = this->m_voltageSweeps](const std::vector<Real>& K,
                                                         const std::vector<Real>& T) -> std::array<Real, 3> {
      Real streamerInc = std::numeric_limits<Real>::quiet_NaN();
      Real townsendInc = std::numeric_limits<Real>::quiet_NaN();
 
      // Streamer criterion
      for (size_t i = 0; i < K.size() - 1; i++) {
        if (K[i] <= Kinc && K[i + 1] >= Kinc) {
          streamerInc = V[i];
 
          break;
        }
      }
 
      // Townsend criterion
      for (size_t i = 0; i < T.size() - 1; i++) {
        if (T[i] <= 1.0 && T[i + 1] >= 1) {
          townsendInc = V[i];
 
          break;
        }
      }
 
      Real Uinc;
 
      if (std::isnan(streamerInc) && std::isnan(townsendInc)) {
        Uinc = std::numeric_limits<Real>::quiet_NaN();
      }
      else if (std::isnan(streamerInc) && !std::isnan(townsendInc)) {
        Uinc = townsendInc;
      }
      else if (!std::isnan(streamerInc) && std::isnan(townsendInc)) {
        Uinc = streamerInc;
      }
      else {
        Uinc = std::min(streamerInc, townsendInc);
      }
 
      return std::array<Real, 3>{Uinc, streamerInc, townsendInc};
    };
 
    // Iterate through m_inceptionIntegral data and calculate the inception voltage.
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); ++lvl) {
      const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit = dbl.dataIterator();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        EBCellFAB& inceptionVoltagePlus         = (*m_inceptionVoltagePlus[lvl])[din];
        EBCellFAB& inceptionVoltageMinu         = (*m_inceptionVoltageMinu[lvl])[din];
        EBCellFAB& streamerInceptionVoltagePlus = (*m_streamerInceptionVoltagePlus[lvl])[din];
        EBCellFAB& streamerInceptionVoltageMinu = (*m_streamerInceptionVoltageMinu[lvl])[din];
        EBCellFAB& townsendInceptionVoltagePlus = (*m_townsendInceptionVoltagePlus[lvl])[din];
        EBCellFAB& townsendInceptionVoltageMinu = (*m_townsendInceptionVoltageMinu[lvl])[din];
 
        FArrayBox& inceptionVoltagePlusReg         = inceptionVoltagePlus.getFArrayBox();
        FArrayBox& inceptionVoltageMinuReg         = inceptionVoltageMinu.getFArrayBox();
        FArrayBox& streamerInceptionVoltagePlusReg = streamerInceptionVoltagePlus.getFArrayBox();
        FArrayBox& streamerInceptionVoltageMinuReg = streamerInceptionVoltageMinu.getFArrayBox();
        FArrayBox& townsendInceptionVoltagePlusReg = townsendInceptionVoltagePlus.getFArrayBox();
        FArrayBox& townsendInceptionVoltageMinuReg = townsendInceptionVoltageMinu.getFArrayBox();
 
        // Pack the inception integral and townsend criterions into workable vectors.
        Vector<const EBCellFAB*> inceptionIntegralPlus;
        Vector<const EBCellFAB*> inceptionIntegralMinu;
        Vector<const EBCellFAB*> townsendCriterionPlus;
        Vector<const EBCellFAB*> townsendCriterionMinu;
 
        Vector<const FArrayBox*> inceptionIntegralPlusReg;
        Vector<const FArrayBox*> inceptionIntegralMinuReg;
        Vector<const FArrayBox*> townsendCriterionPlusReg;
        Vector<const FArrayBox*> townsendCriterionMinuReg;
 
        for (int i = 0; i < m_voltageSweeps.size(); i++) {
          inceptionIntegralPlus.push_back(&(*(m_inceptionIntegralPlus[i])[lvl])[din]);
          inceptionIntegralMinu.push_back(&(*(m_inceptionIntegralMinu[i])[lvl])[din]);
          townsendCriterionPlus.push_back(&(*(m_townsendCriterionPlus[i])[lvl])[din]);
          townsendCriterionMinu.push_back(&(*(m_townsendCriterionMinu[i])[lvl])[din]);
 
          inceptionIntegralPlusReg.push_back(&(inceptionIntegralPlus.back()->getFArrayBox()));
          inceptionIntegralMinuReg.push_back(&(inceptionIntegralMinu.back()->getFArrayBox()));
          townsendCriterionPlusReg.push_back(&(townsendCriterionPlus.back()->getFArrayBox()));
          townsendCriterionMinuReg.push_back(&(townsendCriterionMinu.back()->getFArrayBox()));
        }
 
        // Regular kernel.
        auto regularKernel = [&](const IntVect& iv) -> void {
          std::vector<Real> Kplus;
          std::vector<Real> Kminu;
 
          std::vector<Real> Tplus;
          std::vector<Real> Tminu;
 
          for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
            Kplus.emplace_back((*inceptionIntegralPlusReg[i])(iv, 0));
            Kminu.emplace_back((*inceptionIntegralMinuReg[i])(iv, 0));
 
            Tplus.emplace_back((*townsendCriterionPlusReg[i])(iv, 0));
            Tminu.emplace_back((*townsendCriterionMinuReg[i])(iv, 0));
          }
 
          std::array<Real, 3> inceptionVoltagesPlus;
          std::array<Real, 3> inceptionVoltagesMinu;
 
          if (m_fullIntegration) {
            inceptionVoltagesPlus = calcUincInterp(Kplus, Tplus);
            inceptionVoltagesMinu = calcUincInterp(Kminu, Tminu);
          }
          else {
            inceptionVoltagesPlus = calcUincNoInterp(Kplus, Tplus);
            inceptionVoltagesMinu = calcUincNoInterp(Kminu, Tminu);
          }
 
          inceptionVoltagePlusReg(iv, comp) = std::get<0>(inceptionVoltagesPlus);
          inceptionVoltageMinuReg(iv, comp) = std::get<0>(inceptionVoltagesMinu);
 
          streamerInceptionVoltagePlusReg(iv, comp) = std::get<1>(inceptionVoltagesPlus);
          streamerInceptionVoltageMinuReg(iv, comp) = std::get<1>(inceptionVoltagesMinu);
 
          townsendInceptionVoltagePlusReg(iv, comp) = std::get<2>(inceptionVoltagesPlus);
          townsendInceptionVoltageMinuReg(iv, comp) = std::get<2>(inceptionVoltagesMinu);
        };
 
        // Irregular kernel.
        auto irregularKernel = [&](const VolIndex& vof) -> void {
          std::vector<Real> Kplus;
          std::vector<Real> Kminu;
 
          std::vector<Real> Tplus;
          std::vector<Real> Tminu;
 
          for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
            Kplus.emplace_back((*inceptionIntegralPlus[i])(vof, 0));
            Kminu.emplace_back((*inceptionIntegralMinu[i])(vof, 0));
 
            Tplus.emplace_back((*townsendCriterionPlus[i])(vof, 0));
            Tminu.emplace_back((*townsendCriterionMinu[i])(vof, 0));
          }
 
          std::array<Real, 3> inceptionVoltagesPlus;
          std::array<Real, 3> inceptionVoltagesMinu;
 
          if (m_fullIntegration) {
            inceptionVoltagesPlus = calcUincInterp(Kplus, Tplus);
            inceptionVoltagesMinu = calcUincInterp(Kminu, Tminu);
          }
          else {
            inceptionVoltagesPlus = calcUincNoInterp(Kplus, Tplus);
            inceptionVoltagesMinu = calcUincNoInterp(Kminu, Tminu);
          }
 
          inceptionVoltagePlus(vof, comp) = std::get<0>(inceptionVoltagesPlus);
          inceptionVoltageMinu(vof, comp) = std::get<0>(inceptionVoltagesMinu);
 
          streamerInceptionVoltagePlus(vof, comp) = std::get<1>(inceptionVoltagesPlus);
          streamerInceptionVoltageMinu(vof, comp) = std::get<1>(inceptionVoltagesMinu);
 
          townsendInceptionVoltagePlus(vof, comp) = std::get<2>(inceptionVoltagesPlus);
          townsendInceptionVoltageMinu(vof, comp) = std::get<2>(inceptionVoltagesMinu);
        };
 
        // Kernel regions.
        const Box&   cellBox = dbl[din];
        VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
        BoxLoops::loop(cellBox, regularKernel);
        BoxLoops::loop(vofit, irregularKernel);
      }
    }
 
    // Coarsen data.
    m_amr->conservativeAverage(m_inceptionVoltagePlus, m_realm, m_phase);
    m_amr->interpGhost(m_inceptionVoltageMinu, m_realm, m_phase);
  }
}
 
template <typename P, typename F, typename C>
std::pair<Real, RealVect>
DischargeInceptionStepper<P, F, C>::computeMinimumInceptionVoltage(const EBAMRCellData& a_Uinc) const noexcept
{
  CH_TIME("DischargeInceptionStepper::computeMinimumInceptionVoltage");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeMinimumInceptionVoltage" << endl;
  }
 
  const RealVect probLo = m_amr->getProbLo();
 
  std::pair<Real, RealVect> UxInc;
 
  UxInc.first  = std::numeric_limits<Real>::max();
  UxInc.second = RealVect::Zero;
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit   = dbl.dataIterator();
    const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
    const Real&              dx    = m_amr->getDx()[lvl];
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime) reduction(pairmin : UxInc)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const BaseFab<bool>& validCells = (*m_amr->getValidCells(m_realm)[lvl])[din];
      const EBISBox&       ebisBox    = ebisl[din];
 
      const EBCellFAB& voltage    = (*a_Uinc[lvl])[din];
      const FArrayBox& voltageReg = voltage.getFArrayBox();
 
      auto regularKernel = [&](const IntVect& iv) -> void {
        if (validCells(iv, 0) && ebisBox.isRegular(iv)) {
          const Real&    U   = voltageReg(iv, 0);
          const RealVect pos = probLo + (0.5 * RealVect::Unit + RealVect(iv)) * dx;
 
          if (!(std::isnan(U))) {
            if (std::abs(U) < UxInc.first) {
              UxInc.first  = std::abs(U);
              UxInc.second = pos;
            }
          }
        }
      };
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        const IntVect iv = vof.gridIndex();
        if (validCells(iv, 0) && ebisBox.isIrregular(iv)) {
          const Real&    U        = voltage(vof, 0);
          const RealVect centroid = ebisBox.centroid(vof);
          const RealVect pos      = probLo + (0.5 * RealVect::Unit + RealVect(iv) + centroid) * dx;
 
          if (!(std::isnan(U))) {
            if (std::abs(U) < UxInc.first) {
              UxInc.first  = std::abs(U);
              UxInc.second = pos;
            }
          }
        }
      };
 
      Box          cellBox = dbl[din];
      VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
      BoxLoops::loop(cellBox, regularKernel);
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
 
  return ParallelOps::min(UxInc.first, UxInc.second);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeCriticalVolumeStationary() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeCriticalVolumeStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeCriticalVolumeStationary" << endl;
  }
 
  CH_assert(m_inceptionIntegralPlus.size() == m_inceptionIntegralMinu.size());
  CH_assert(m_inceptionIntegralPlus.size() == m_KPlusValues.size());
  CH_assert(m_inceptionIntegralMinu.size() == m_KMinuValues.size());
 
  m_criticalVolumePlus.resize(0);
  m_criticalVolumeMinu.resize(0);
 
  const int numVoltages = m_inceptionIntegralPlus.size();
 
  // Solve critical volume of K values for each voltage
  for (size_t i = 0; i < numVoltages; i++) {
    Real criticalVolumePlus = 0.0;
    Real criticalVolumeMinu = 0.0;
 
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); ++lvl) {
      const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit   = dbl.dataIterator();
      const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
 
      const LevelData<BaseFab<bool>>& validCellsLD = *m_amr->getValidCells(m_realm)[lvl];
 
      const Real dx = m_amr->getDx()[lvl];
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime) reduction(+ : criticalVolumePlus, criticalVolumeMinu)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        const EBISBox&       ebisbox    = ebisl[din];
        const BaseFab<bool>& validCells = validCellsLD[din];
 
        const EBCellFAB& inceptionIntegralPlus = (*(m_inceptionIntegralPlus[i])[lvl])[din];
        const EBCellFAB& inceptionIntegralMinu = (*(m_inceptionIntegralMinu[i])[lvl])[din];
 
        const FArrayBox& inceptionIntegralPlusReg = inceptionIntegralPlus.getFArrayBox();
        const FArrayBox& inceptionIntegralMinuReg = inceptionIntegralMinu.getFArrayBox();
 
        const EBCellFAB& townsendCritPlus = (*(m_townsendCriterionPlus[i])[lvl])[din];
        const EBCellFAB& townsendCritMinu = (*(m_townsendCriterionMinu[i])[lvl])[din];
 
        const FArrayBox& townsendCritPlusReg = townsendCritPlus.getFArrayBox();
        const FArrayBox& townsendCritMinuReg = townsendCritMinu.getFArrayBox();
 
        auto regularKernel = [&](const IntVect& iv) -> void {
          if (validCells(iv, 0) && ebisbox.isRegular(iv)) {
            if (inceptionIntegralPlusReg(iv, 0) >= m_inceptionK || townsendCritPlusReg(iv, 0) >= 1.0) {
              criticalVolumePlus += std::pow(dx, SpaceDim);
            }
            if (inceptionIntegralMinuReg(iv, 0) >= m_inceptionK || townsendCritMinuReg(iv, 0) >= 1.0) {
              criticalVolumeMinu += std::pow(dx, SpaceDim);
            }
          }
        };
 
        auto irregularKernel = [&](const VolIndex& vof) -> void {
          if (validCells(vof.gridIndex())) {
            const Real kappa = ebisbox.volFrac(vof);
 
            if (inceptionIntegralPlus(vof, 0) >= m_inceptionK || townsendCritPlus(vof, 0) >= 1.0) {
              criticalVolumePlus += kappa * std::pow(dx, SpaceDim);
            }
            if (inceptionIntegralMinu(vof, 0) >= m_inceptionK || townsendCritMinu(vof, 0) >= 1.0) {
              criticalVolumeMinu += kappa * std::pow(dx, SpaceDim);
            }
          }
        };
 
        // Kernel regions.
        const Box    cellBox = dbl[din];
        VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
        BoxLoops::loop(cellBox, regularKernel);
        BoxLoops::loop(vofit, irregularKernel);
      }
    }
 
    m_criticalVolumePlus.push_back(ParallelOps::sum(criticalVolumePlus));
    m_criticalVolumeMinu.push_back(ParallelOps::sum(criticalVolumeMinu));
  }
}
 
template <typename P, typename F, typename C>
Real
DischargeInceptionStepper<P, F, C>::computeCriticalVolumeTransient() const noexcept
{
  CH_TIME("DischargeInceptionStepper::computeCriticalVolumeTransient");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeCriticalVolumeTransient" << endl;
  }
 
  Real Vcr = 0.0;
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); ++lvl) {
    const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit   = dbl.dataIterator();
    const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
 
    const LevelData<BaseFab<bool>>& validCellsLD = *m_amr->getValidCells(m_realm)[lvl];
 
    const Real dx  = m_amr->getDx()[lvl];
    const Real vol = std::pow(dx, SpaceDim);
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime) reduction(+ : Vcr)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBISBox&       ebisbox    = ebisl[din];
      const BaseFab<bool>& validCells = validCellsLD[din];
 
      const EBCellFAB& inceptionIntegral    = (*m_inceptionIntegral[lvl])[din];
      const FArrayBox& inceptionIntegralReg = inceptionIntegral.getFArrayBox();
 
      const EBCellFAB& townsendCriterion    = (*m_townsendCriterion[lvl])[din];
      const FArrayBox& townsendCriterionReg = townsendCriterion.getFArrayBox();
 
      auto regularKernel = [&](const IntVect& iv) -> void {
        if (validCells(iv, 0) && ebisbox.isRegular(iv)) {
          if (inceptionIntegralReg(iv, 0) >= m_inceptionK || townsendCriterionReg(iv, 0) >= 1.0) {
            Vcr += vol;
          }
        }
      };
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        if (validCells(vof.gridIndex())) {
          if (inceptionIntegral(vof, 0) >= m_inceptionK || townsendCriterion(vof, 0) >= 1.0) {
            Vcr += ebisbox.volFrac(vof) * vol;
          }
        }
      };
 
      // Kernel regions.
      const Box    cellBox = dbl[din];
      VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
      BoxLoops::loop(cellBox, regularKernel);
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
 
  return ParallelOps::sum(Vcr);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeCriticalAreaStationary() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeCriticalAreaStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeCriticalAreaStationary" << endl;
  }
 
  CH_assert(m_inceptionIntegralPlus.size() == m_inceptionIntegralMinu.size());
  CH_assert(m_inceptionIntegralPlus.size() == m_KPlusValues.size());
  CH_assert(m_inceptionIntegralMinu.size() == m_KMinuValues.size());
 
  m_criticalAreaPlus.resize(0);
  m_criticalAreaMinu.resize(0);
 
  const int numVoltages = m_inceptionIntegralPlus.size();
 
  // Solve critical area of K values for each voltage
  for (size_t i = 0; i < numVoltages; i++) {
    Real criticalAreaPlus = 0.0;
    Real criticalAreaMinu = 0.0;
 
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); ++lvl) {
      const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit   = dbl.dataIterator();
      const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
 
      const LevelData<BaseFab<bool>>& validCellsLD = *m_amr->getValidCells(m_realm)[lvl];
 
      const Real dx = m_amr->getDx()[lvl];
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime) reduction(+ : criticalAreaPlus, criticalAreaMinu)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        const EBISBox&       ebisbox    = ebisl[din];
        const BaseFab<bool>& validCells = validCellsLD[din];
 
        const EBCellFAB& inceptionIntegralPlus = (*(m_inceptionIntegralPlus[i])[lvl])[din];
        const EBCellFAB& inceptionIntegralMinu = (*(m_inceptionIntegralMinu[i])[lvl])[din];
 
        const EBCellFAB& townsendCriterionPlus = (*(m_townsendCriterionPlus[i])[lvl])[din];
        const EBCellFAB& townsendCriterionMinu = (*(m_townsendCriterionMinu[i])[lvl])[din];
 
        auto irregularKernel = [&](const VolIndex& vof) -> void {
          if (validCells(vof.gridIndex())) {
            const Real boundaryArea = ebisbox.bndryArea(vof);
 
            if (inceptionIntegralPlus(vof, 0) >= m_inceptionK || townsendCriterionPlus(vof, 0) >= 1.0) {
              criticalAreaPlus += boundaryArea * std::pow(dx, SpaceDim - 1);
            }
            if (inceptionIntegralMinu(vof, 0) >= m_inceptionK || townsendCriterionMinu(vof, 0) >= 1.0) {
              criticalAreaMinu += boundaryArea * std::pow(dx, SpaceDim - 1);
            }
          }
        };
 
        // Kernel regions.
        VoFIterator& vofit = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
        BoxLoops::loop(vofit, irregularKernel);
      }
    }
 
    m_criticalAreaPlus.push_back(ParallelOps::sum(criticalAreaPlus));
    m_criticalAreaMinu.push_back(ParallelOps::sum(criticalAreaMinu));
  }
}
 
template <typename P, typename F, typename C>
Real
DischargeInceptionStepper<P, F, C>::computeCriticalAreaTransient() const noexcept
{
  CH_TIME("DischargeInceptionStepper::computeCriticalAreaTransient");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeCriticalAreaTransient" << endl;
  }
 
  Real Acr = 0.0;
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); ++lvl) {
    const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit   = dbl.dataIterator();
    const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
 
    const LevelData<BaseFab<bool>>& validCellsLD = *m_amr->getValidCells(m_realm)[lvl];
 
    const Real dx   = m_amr->getDx()[lvl];
    const Real area = std::pow(dx, SpaceDim - 1);
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime) reduction(+ : Acr)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBISBox&       ebisbox    = ebisl[din];
      const BaseFab<bool>& validCells = validCellsLD[din];
 
      const EBCellFAB& inceptionIntegral = (*m_inceptionIntegral[lvl])[din];
      const EBCellFAB& townsendCriterion = (*m_townsendCriterion[lvl])[din];
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        if (validCells(vof.gridIndex())) {
          if (inceptionIntegral(vof, 0) >= m_inceptionK || townsendCriterion(vof, 0) >= 1.0) {
            Acr += ebisbox.bndryArea(vof) * area;
          }
        }
      };
 
      // Kernel regions.
      VoFIterator& vofit = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
 
  return ParallelOps::sum(Acr);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeIonizationVolumeStationary() noexcept
{
  CH_TIME("DischargeInceptionStepper::computeIonizationVolumeStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeIonizationVolumeStationary" << endl;
  }
 
  CH_assert(m_inceptionIntegralPlus.size() == m_inceptionIntegralMinu.size());
  CH_assert(m_inceptionIntegralPlus.size() == m_KPlusValues.size());
  CH_assert(m_inceptionIntegralMinu.size() == m_KMinuValues.size());
 
  m_ionizationVolume.resize(0);
 
  const int numVoltages = m_inceptionIntegralPlus.size();
 
  // Storage something that holds the electric filed
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
 
  // Solve ionization volume for each voltage
  for (size_t i = 0; i < m_voltageSweeps.size(); i++) {
    const Real voltage = m_voltageSweeps[i];
 
    Real ionizationVolume = 0.0;
 
    this->superposition(scratch, voltage);
 
    for (int lvl = 0; lvl <= m_amr->getFinestLevel(); ++lvl) {
      const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
      const DataIterator&      dit   = dbl.dataIterator();
      const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
 
      const LevelData<BaseFab<bool>>& validCellsLD = *m_amr->getValidCells(m_realm)[lvl];
 
      const Real     dx     = m_amr->getDx()[lvl];
      const RealVect probLo = m_amr->getProbLo();
 
      const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime) reduction(+ : ionizationVolume)
      for (int mybox = 0; mybox < nbox; mybox++) {
        const DataIndex& din = dit[mybox];
 
        const EBISBox&       ebisbox    = ebisl[din];
        const BaseFab<bool>& validCells = validCellsLD[din];
 
        const EBCellFAB& electricField    = (*scratch[lvl])[din];
        const FArrayBox& electricFieldReg = electricField.getFArrayBox();
 
        auto regularKernel = [&](const IntVect& iv) -> void {
          if (validCells(iv, 0) && ebisbox.isRegular(iv)) {
            const RealVect x  = probLo + dx * (0.5 * RealVect::Unit + RealVect(iv));
            const RealVect EE = RealVect(
              D_DECL(electricFieldReg(iv, 0), electricFieldReg(iv, 1), electricFieldReg(iv, 2)));
            const Real E = EE.vectorLength();
 
            const Real alpha = m_alpha(E, x);
            const Real eta   = m_eta(E, x);
 
            if (alpha >= eta) {
              ionizationVolume += std::pow(dx, SpaceDim);
            }
          }
        };
 
        auto irregularKernel = [&](const VolIndex& vof) -> void {
          if (validCells(vof.gridIndex())) {
 
            const RealVect x  = probLo + Location::position(Location::Cell::Center, vof, ebisbox, dx);
            const RealVect EE = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
            const Real     E  = EE.vectorLength();
 
            const Real alpha = m_alpha(E, x);
            const Real eta   = m_eta(E, x);
 
            const Real kappa = ebisbox.volFrac(vof);
 
            if (alpha >= eta) {
              ionizationVolume += kappa * std::pow(dx, SpaceDim);
            }
          }
        };
 
        // Kernel regions.
        const Box    cellBox = dbl[din];
        VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
        BoxLoops::loop(cellBox, regularKernel);
        BoxLoops::loop(vofit, irregularKernel);
      }
    }
 
    m_ionizationVolume.push_back(ParallelOps::sum(ionizationVolume));
  }
}
 
template <typename P, typename F, typename C>
Real
DischargeInceptionStepper<P, F, C>::computeIonizationVolumeTransient(const Real& a_voltage) const noexcept
{
  CH_TIME("DischargeInceptionStepper::computeIonizationVolumeTransient");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeIonizationVolumeTransient" << endl;
  }
 
  Real Vion = 0.0;
 
  // Calculate electric field
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); ++lvl) {
    const DisjointBoxLayout& dbl   = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit   = dbl.dataIterator();
    const EBISLayout&        ebisl = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
 
    const LevelData<BaseFab<bool>>& validCellsLD = *m_amr->getValidCells(m_realm)[lvl];
 
    const Real     dx     = m_amr->getDx()[lvl];
    const Real     vol    = std::pow(dx, SpaceDim);
    const RealVect probLo = m_amr->getProbLo();
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime) reduction(+ : Vion)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBISBox&       ebisbox    = ebisl[din];
      const BaseFab<bool>& validCells = validCellsLD[din];
 
      const EBCellFAB& electricField    = (*scratch[lvl])[din];
      const FArrayBox& electricFieldReg = electricField.getFArrayBox();
 
      auto regularKernel = [&](const IntVect& iv) -> void {
        if (validCells(iv, 0) && ebisbox.isRegular(iv)) {
 
          const RealVect x  = probLo + dx * (0.5 * RealVect::Unit + RealVect(iv));
          const RealVect EE = RealVect(
            D_DECL(electricFieldReg(iv, 0), electricFieldReg(iv, 1), electricFieldReg(iv, 2)));
          const Real E = EE.vectorLength();
 
          const Real alpha = m_alpha(E, x);
          const Real eta   = m_eta(E, x);
          if (alpha >= eta) {
            Vion += vol;
          }
        }
      };
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        if (validCells(vof.gridIndex())) {
 
          const RealVect x  = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
          const RealVect EE = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
          const Real     E  = EE.vectorLength();
 
          const Real alpha = m_alpha(E, x);
          const Real eta   = m_eta(E, x);
          if (alpha >= eta) {
            Vion += ebisbox.volFrac(vof) * vol;
          }
        }
      };
 
      // Kernel regions.
      const Box    cellBox = dbl[din];
      VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
      BoxLoops::loop(cellBox, regularKernel);
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
 
  return ParallelOps::sum(Vion);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::writeReportStationary() const noexcept
{
  CH_TIME("DischargeInceptionStepper::writeReportStationary");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::writeReportStationary" << endl;
  }
 
  const auto UIncPlus = this->computeMinimumInceptionVoltage(m_inceptionVoltagePlus);
  const auto UIncMinu = this->computeMinimumInceptionVoltage(m_inceptionVoltageMinu);
 
  const auto streamerUIncPlus = this->computeMinimumInceptionVoltage(m_streamerInceptionVoltagePlus);
  const auto streamerUIncMinu = this->computeMinimumInceptionVoltage(m_streamerInceptionVoltageMinu);
 
  const auto townsendUIncPlus = this->computeMinimumInceptionVoltage(m_townsendInceptionVoltagePlus);
  const auto townsendUIncMinu = this->computeMinimumInceptionVoltage(m_townsendInceptionVoltageMinu);
 
#ifdef CH_MPI
  if (procID() == 0) {
#endif
 
    std::ofstream output(m_outputFile, std::ofstream::out);
 
    const int ww = (SpaceDim == 2) ? 24 : 36;
 
    const std::string lineBreak = "# " + std::string(178 + 4 * ww, '=');
 
    // clang-format off
    output << lineBreak << "\n";
    if (std::isnan(UIncPlus.first) || std::isnan(UIncMinu.first)) {
      output << "# Could not compute inception voltage\n";
    }
    else {
      if(m_fullIntegration){
    output << "# Minimum inception voltage(+)  = " << UIncPlus.first << ",\t x = " << UIncPlus.second << "\n";
    output << "# Minimum inception voltage(-)  = " << UIncMinu.first << ",\t x = " << UIncMinu.second << "\n";
    output << "# \n";
    output << "# Streamer inception voltage(+) = " << streamerUIncPlus.first << ",\t x = " << streamerUIncPlus.second << "\n";
    output << "# Streamer inception voltage(-) = " << streamerUIncMinu.first << ",\t x = " << streamerUIncMinu.second << "\n";
    output << "# \n";
    output << "# Townsend inception voltage(+) = " << townsendUIncPlus.first << ",\t x = " << townsendUIncPlus.second << "\n";
    output << "# Townsend inception voltage(-) = " << townsendUIncMinu.first << ",\t x = " << townsendUIncMinu.second << "\n";      
      }
      else{
    output << "# Minimum inception voltage(+)  >= " << UIncPlus.first << ",\t x = " << UIncPlus.second << "\n";
    output << "# Minimum inception voltage(-)  >= " << UIncMinu.first << ",\t x = " << UIncMinu.second << "\n";
    output << "# \n";
    output << "# Streamer inception voltage(+) >= " << streamerUIncPlus.first << ",\t x = " << streamerUIncPlus.second << "\n";
    output << "# Streamer inception voltage(-) >= " << streamerUIncMinu.first << ",\t x = " << streamerUIncMinu.second << "\n";
    output << "# \n";
    output << "# Townsend inception voltage(+) >= " << townsendUIncPlus.first << ",\t x = " << townsendUIncPlus.second << "\n";
    output << "# Townsend inception voltage(-) >= " << townsendUIncMinu.first << ",\t x = " << townsendUIncMinu.second << "\n";         
      }
    }
 
    output << lineBreak << "\n";
    output << left << setw(15) << setfill(' ') << "# +/- Voltage";
    output << left << setw(15) << setfill(' ') << "Max K(+)";
    output << left << setw(15) << setfill(' ') << "Max K(-)";
    output << left << setw(ww) << setfill(' ') << "Pos. max K(+)";        
    output << left << setw(ww) << setfill(' ') << "Pos. max K(-)";                
    output << left << setw(20) << setfill(' ') << "Max T(+)";
    output << left << setw(20) << setfill(' ') << "Max T(-)";
    output << left << setw(ww) << setfill(' ') << "Pos. max T(+)";        
    output << left << setw(ww) << setfill(' ') << "Pos. max T(-)";            
    output << left << setw(20) << setfill(' ') << "Crit. vol(+)";
    output << left << setw(20) << setfill(' ') << "Crit. vol(-)";
    output << left << setw(20) << setfill(' ') << "Crit. area(+)";
    output << left << setw(20) << setfill(' ') << "Crit. area(-)";
    output << left << setw(20) << setfill(' ') << "Ionization vol." << "\n";
    output << lineBreak << "\n";
 
    auto RealVectToString = [=](const RealVect x) -> std::string {
      std::string ret = "(";
      for (int dir = 0; dir < SpaceDim; dir++) {
    ret += std::to_string(x[dir]);
    if(dir < SpaceDim -1) {
      ret += ", ";
    }
      }
 
      ret += ")";
      
      return ret;
    };
 
    for (int i = 0; i < m_voltageSweeps.size(); i++) {
      output << left << setw(15) << setfill(' ') << m_voltageSweeps[i];
      output << left << setw(15) << setfill(' ') << std::get<1>(m_KPlusValues[i]);
      output << left << setw(15) << setfill(' ') << std::get<1>(m_KMinuValues[i]);
      output << left << setw(ww) << setfill(' ') << RealVectToString(std::get<2>(m_KPlusValues[i]));
      output << left << setw(ww) << setfill(' ') << RealVectToString(std::get<2>(m_KMinuValues[i]));
      output << left << setw(20) << setfill(' ') << std::get<1>(m_TPlusValues[i]);
      output << left << setw(20) << setfill(' ') << std::get<1>(m_TMinuValues[i]);
      output << left << setw(ww) << setfill(' ') << RealVectToString(std::get<2>(m_TPlusValues[i]));
      output << left << setw(ww) << setfill(' ') << RealVectToString(std::get<2>(m_TMinuValues[i]));
      output << left << setw(20) << setfill(' ') << m_criticalVolumePlus[i];
      output << left << setw(20) << setfill(' ') << m_criticalVolumeMinu[i];
      output << left << setw(20) << setfill(' ') << m_criticalAreaPlus[i];
      output << left << setw(20) << setfill(' ') << m_criticalAreaMinu[i];
      output << left << setw(20) << setfill(' ') << m_ionizationVolume[i];
      output << endl;
    }
    output << lineBreak << "\n";
    // clang-format on
#ifdef CH_MPI
  }
#endif
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::writeReportTransient() const noexcept
{
  CH_TIME("DischargeInceptionStepper::writeReportTransient");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::writeReportTransient" << endl;
  }
 
#ifdef CH_MPI
  if (procID() == 0) {
#endif
    std::ofstream output(m_outputFile, std::ofstream::out);
 
    output << std::left << std::setw(15) << setfill(' ') << "# Time t";
    output << std::left << std::setw(15) << setfill(' ') << "V(t)";
    output << std::left << std::setw(15) << setfill(' ') << "max K(t)";
    output << std::left << std::setw(15) << setfill(' ') << "max T(t)";
    output << std::left << std::setw(15) << setfill(' ') << "Vcr(t)";
    output << std::left << std::setw(15) << setfill(' ') << "Acr(t)";
    output << std::left << std::setw(15) << setfill(' ') << "Vion(t)";
    output << std::left << std::setw(15) << setfill(' ') << "lambda(t)";
    output << std::left << std::setw(15) << setfill(' ') << "P(t)";
    output << std::left << std::setw(15) << setfill(' ') << "dP(t, t+dt)";
    output << std::left << std::setw(15) << setfill(' ') << "Time lag";
    output << "\n";
 
    // Compute dP(t, t+dt)
    std::vector<Real> dProb;
    for (size_t i = 0; i < m_Rdot.size() - 1; i++) {
      const Real t    = m_Rdot[i].first;
      const Real dt   = m_Rdot[i + 1].first - m_Rdot[i].first;
      const Real prob = m_inceptionProbability[i].second;
      const Real Rdot = m_Rdot[i].second;
 
      dProb.emplace_back((1.0 - prob) * Rdot * dt);
    }
    dProb.emplace_back(0.0);
 
    // Compute the average waiting time.
    std::vector<Real> tau(m_Rdot.size(), 0.0);
    for (size_t i = 0; i < m_Rdot.size() - 1; i++) {
      const Real t1     = m_Rdot[i].first;
      const Real t2     = m_Rdot[i + 1].first;
      const Real dt     = t2 - t1;
      const Real prob   = m_inceptionProbability[i].second;
      const Real lambda = m_Rdot[i].second;
 
      tau[i + 1] = tau[i] + t1 * (1 - prob) * lambda * dt;
    }
    for (int i = 0; i < tau.size(); i++) {
      const Real prob = m_inceptionProbability[i].second;
 
      tau[i] = prob > 0.0 ? tau[i] / prob : std::numeric_limits<Real>::infinity();
    }
 
    for (size_t i = 0; i < m_Rdot.size(); i++) {
      const Real time = m_Rdot[i].first;
 
      output << std::left << std::setw(15) << time;
      output << std::left << std::setw(15) << m_voltageCurve(time);
      output << std::left << std::setw(15) << m_maxK[i].second;
      output << std::left << std::setw(15) << m_maxT[i].second;
      output << std::left << std::setw(15) << m_criticalVolume[i].second;
      output << std::left << std::setw(15) << m_criticalArea[i].second;
      output << std::left << std::setw(15) << m_ionizationVolumeTransient[i].second;
      output << std::left << std::setw(15) << m_Rdot[i].second;
      output << std::left << std::setw(15) << m_inceptionProbability[i].second;
      output << std::left << std::setw(15) << dProb[i];
      output << std::left << std::setw(15) << tau[i];
      output << "\n";
    }
 
    output.close();
 
#ifdef CH_MPI
  }
#endif
}
 
template <typename P, typename F, typename C>
bool
DischargeInceptionStepper<P, F, C>::particleOutsideGrid(const RealVect& a_pos,
                                                        const RealVect& a_probLo,
                                                        const RealVect& a_probHi) const noexcept
{
#ifndef NDEBUG
  CH_TIME("DischargeInceptionStepper::particleOutsideGrid");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::particleOutsideGrid" << endl;
  }
#endif
 
  bool isOutside = false;
 
  for (int dir = 0; dir < SpaceDim; dir++) {
    if (a_pos[dir] <= a_probLo[dir] || a_pos[dir] >= a_probHi[dir]) {
      isOutside = true;
    }
  }
 
  return isOutside;
}
 
template <typename P, typename F, typename C>
bool
DischargeInceptionStepper<P, F, C>::particleInsideEB(const RealVect a_pos) const noexcept
{
#ifndef NDEBUG
  CH_TIME("DischargeInceptionStepper::particleInsideEB");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::particleInsideEB" << endl;
  }
#endif
 
  const RefCountedPtr<BaseIF>& implicitFunction = m_amr->getBaseImplicitFunction(m_phase);
 
  return (implicitFunction->value(a_pos) >= 0.0) ? true : false;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeIonVelocity(const Real& a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::computeIonVelocity");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeIonVelocity" << endl;
  }
 
  CH_assert(!(m_ionSolver.isNull()));
  CH_assert(m_ionSolver->isMobile());
 
  EBAMRCellData& vel = m_ionSolver->getCellCenteredVelocity();
 
  // Compute electric field at the input voltage and set v = -E
  this->superposition(vel, a_voltage);
  DataOps::scale(vel, -1.0);
 
  // Allocate mesh data that holds mu and compute it on the mesh.
  EBAMRCellData mu;
  m_amr->allocate(mu, m_realm, m_phase, 1);
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit = dbl.dataIterator();
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBCellFAB& v    = (*vel[lvl])[din];
      const FArrayBox& vReg = v.getFArrayBox();
 
      EBCellFAB& MU    = (*mu[lvl])[din];
      FArrayBox& MUREG = MU.getFArrayBox();
 
      auto regularKernel = [&](const IntVect& iv) -> void {
        const RealVect EE = RealVect(D_DECL(vReg(iv, 0), vReg(iv, 1), vReg(iv, 2)));
        const Real     E  = EE.vectorLength();
 
        MUREG(iv, 0) = m_ionMobility(E);
      };
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        const RealVect EE = RealVect(D_DECL(v(vof, 0), v(vof, 1), v(vof, 2)));
        const Real     E  = EE.vectorLength();
 
        MU(vof, 0) = m_ionMobility(E);
      };
 
      VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
      Box          cellBox = dbl[din];
 
      BoxLoops::loop(cellBox, regularKernel);
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
 
  DataOps::multiplyScalar(vel, mu);
 
  m_amr->arithmeticAverage(vel, m_realm, m_phase);
  m_amr->interpGhostPwl(vel, m_realm, m_phase);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::computeIonDiffusion(const Real& a_voltage) noexcept
{
  CH_TIME("DischargeInceptionStepper::computeIonDiffusion");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::computeIonDiffusion" << endl;
  }
 
  CH_assert(!(m_ionSolver.isNull()));
  CH_assert(m_ionSolver->isMobile());
 
  // Compute the electric field at the input voltage.
  EBAMRCellData scratch;
  m_amr->allocate(scratch, m_realm, m_phase, SpaceDim);
  this->superposition(scratch, a_voltage);
 
  // Compute the diffusion coefficient on cell centers.
  EBAMRCellData diffCoCell;
  m_amr->allocate(diffCoCell, m_realm, m_phase, 1);
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit = dbl.dataIterator();
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din = dit[mybox];
 
      const EBCellFAB& electricField    = (*scratch[lvl])[din];
      const FArrayBox& electricFieldReg = electricField.getFArrayBox();
 
      EBCellFAB& dCo    = (*diffCoCell[lvl])[din];
      FArrayBox& dCoReg = dCo.getFArrayBox();
 
      auto regularKernel = [&](const IntVect& iv) -> void {
        const RealVect EE = RealVect(D_DECL(electricFieldReg(iv, 0), electricFieldReg(iv, 1), electricFieldReg(iv, 2)));
        const Real     E  = EE.vectorLength();
 
        dCoReg(iv, 0) = m_ionDiffusion(E);
      };
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        const RealVect EE = RealVect(D_DECL(electricField(vof, 0), electricField(vof, 1), electricField(vof, 2)));
        const Real     E  = EE.vectorLength();
 
        dCo(vof, 0) = m_ionDiffusion(E);
      };
 
      VoFIterator& vofit   = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
      Box          cellBox = dbl[din];
 
      BoxLoops::loop(cellBox, regularKernel);
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
 
  // Coarsen and update ghost cells
  m_amr->arithmeticAverage(diffCoCell, m_realm, m_phase);
  m_amr->interpGhostPwl(diffCoCell, m_realm, m_phase);
 
  // Fetch from solver and average to grid faces.
  EBAMRFluxData& diffCoFace = m_ionSolver->getFaceCenteredDiffusionCoefficient();
  EBAMRIVData&   diffCoEB   = m_ionSolver->getEbCenteredDiffusionCoefficient();
 
  DataOps::setValue(diffCoFace, 0.0);
  DataOps::setValue(diffCoEB, 0.0); // Neumann BC.
 
  DataOps::averageCellToFace(diffCoFace,
                             diffCoCell,
                             m_amr->getDomains(),
                             1,
                             Interval(0, 0),
                             Interval(0, 0),
                             Average::Arithmetic);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::superposition(EBAMRCellData&       a_sumField,
                                                  const MFAMRCellData& a_inhomogeneousField,
                                                  const MFAMRCellData& a_homogeneousField,
                                                  const Real           a_voltage) const noexcept
{
  CH_TIME("DischargeInceptionStepper::superposition(full)");
 
  const EBAMRCellData homogeneousField   = m_amr->alias(phase::gas, a_homogeneousField);
  const EBAMRCellData inhomogeneousField = m_amr->alias(phase::gas, a_inhomogeneousField);
 
  DataOps::setValue(a_sumField, 0.0);
  DataOps::incr(a_sumField, homogeneousField, a_voltage);
  DataOps::incr(a_sumField, inhomogeneousField, 1.0);
 
  m_amr->arithmeticAverage(a_sumField, m_realm, m_phase);
  m_amr->interpGhostPwl(a_sumField, m_realm, m_phase);
  //  m_amr->interpToCentroids(a_sumField, m_realm, m_phase);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::superposition(EBAMRCellData& a_sumField, const Real a_voltage) const noexcept
{
  CH_TIME("DischargeInceptionStepper::superposition(short)");
 
  this->superposition(a_sumField, m_electricFieldInho, m_electricFieldHomo, a_voltage);
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::getMaxValueAndLocation(Real&                a_maxVal,
                                                           RealVect&            a_maxPos,
                                                           const EBAMRCellData& a_data) const noexcept
{
  CH_TIME("DischargeInceptionStepper::getMaxValueAndLocation");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::getMaxValueAndLocation" << endl;
  }
 
  a_maxVal = -std::numeric_limits<Real>::max();
  a_maxPos = RealVect::Zero;
 
  for (int lvl = 0; lvl <= m_amr->getFinestLevel(); lvl++) {
    const DisjointBoxLayout& dbl    = m_amr->getGrids(m_realm)[lvl];
    const DataIterator&      dit    = dbl.dataIterator();
    const EBISLayout&        ebisl  = m_amr->getEBISLayout(m_realm, m_phase)[lvl];
    const Real               dx     = m_amr->getDx()[lvl];
    const RealVect           probLo = m_amr->getProbLo();
 
    const LevelData<BaseFab<bool>>& validCellsLD = (*m_amr->getValidCells(m_realm)[lvl]);
 
    const int nbox = dit.size();
 
#pragma omp parallel for schedule(runtime)
    for (int mybox = 0; mybox < nbox; mybox++) {
      const DataIndex& din     = dit[mybox];
      const Box&       cellbox = dbl[din];
      const EBISBox&   ebisbox = ebisl[din];
 
      const EBCellFAB&     data       = (*a_data[lvl])[din];
      const FArrayBox&     dataReg    = data.getFArrayBox();
      const BaseFab<bool>& validCells = validCellsLD[din];
 
      CH_assert(data.nComp() == 1);
 
      auto regularKernel = [&](const IntVect& iv) -> void {
        if (validCells(iv, 0) && ebisbox.isRegular(iv)) {
          if (dataReg(iv, 0) > a_maxVal) {
            a_maxVal = dataReg(iv, 0);
            a_maxPos = probLo + (RealVect(iv) + 0.5 * RealVect::Unit) * dx;
          }
        }
      };
 
      auto irregularKernel = [&](const VolIndex& vof) -> void {
        if (validCells(vof.gridIndex(), 0) && ebisbox.isIrregular(vof.gridIndex())) {
          if (data(vof, 0) > a_maxVal) {
            a_maxVal = data(vof, 0);
            a_maxPos = probLo + Location::position(Location::Cell::Centroid, vof, ebisbox, dx);
          }
        }
      };
 
      VoFIterator& vofit = (*m_amr->getVofIterator(m_realm, m_phase)[lvl])[din];
 
      BoxLoops::loop(cellbox, regularKernel);
      BoxLoops::loop(vofit, irregularKernel);
    }
  }
 
  const std::pair<Real, RealVect> globalMaxValAndPos = ParallelOps::max(a_maxVal, a_maxPos);
 
  a_maxVal = globalMaxValAndPos.first;
  a_maxPos = globalMaxValAndPos.second;
}
 
template <typename P, typename F, typename C>
void
DischargeInceptionStepper<P, F, C>::writeData(LevelData<EBCellFAB>& a_output,
                                              int&                  a_comp,
                                              const EBAMRCellData&  a_data,
                                              const std::string     a_outputRealm,
                                              const int             a_level,
                                              const bool            a_interpToCentroids,
                                              const bool            a_interpGhost) const noexcept
{
  CH_TIMERS("DischargeInceptionStepper::writeData");
  CH_TIMER("DischargeInceptionStepper::writeData::allocate", t1);
  CH_TIMER("DischargeInceptionStepper::writeData::local_copy", t2);
  CH_TIMER("DischargeInceptionStepper::writeData::interp_ghost", t3);
  CH_TIMER("DischargeInceptionStepper::writeData::interp_centroid", t4);
  CH_TIMER("DischargeInceptionStepper::writeData::final_copy", t5);
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::writeData" << endl;
  }
 
  // Number of components we are working with.
  const int numComp = a_data[a_level]->nComp();
 
  // Component ranges that we copy to/from.
  const Interval srcInterv(0, numComp - 1);
  const Interval dstInterv(a_comp, a_comp + numComp - 1);
 
  CH_START(t1);
  LevelData<EBCellFAB> scratch;
  m_amr->allocate(scratch, m_realm, m_phase, a_level, numComp);
  CH_STOP(t1);
 
  CH_START(t2);
  m_amr->copyData(scratch, *a_data[a_level], a_level, m_realm, m_realm);
  CH_START(t2);
 
  // Interpolate ghost cells
  CH_START(t3);
  if (a_level > 0 && a_interpGhost) {
    m_amr->interpGhost(scratch, *a_data[a_level - 1], a_level, m_realm, m_phase);
  }
  CH_STOP(t3);
 
  CH_START(t4);
  if (a_interpToCentroids) {
    m_amr->interpToCentroids(scratch, m_realm, m_phase, a_level);
  }
  CH_STOP(t4);
 
  DataOps::setCoveredValue(scratch, 0.0);
 
  CH_START(t5);
  m_amr->copyData(a_output, scratch, a_level, a_outputRealm, m_realm, dstInterv, srcInterv);
  CH_STOP(t5);
 
  a_comp += numComp;
}
 
template <typename P, typename F, typename C>
const EBAMRCellData*
DischargeInceptionStepper<P, F, C>::getElectricField() const noexcept
{
  CH_TIMERS("DischargeInceptionStepper::getElectricField");
 
  return &m_homogeneousFieldGas;
}
 
template <typename P, typename F, typename C>
Real
DischargeInceptionStepper<P, F, C>::getCriticalField() const noexcept
{
  CH_TIME("DischargeInceptionStepper::getCriticalField");
  if (m_verbosity > 5) {
    pout() << "DischargeInceptionStepper::getCriticalField" << endl;
  }
 
  Real Emin = -10.0;
  Real Emax = +10.0;
 
  // Quick lambda for the effective Townsend ionization coefficient. Note that we solve for the exponent.
  auto alpha = [this](const Real E) -> Real {
    return m_alpha(std::pow(10.0, E), RealVect::Zero) - m_eta(std::pow(10.0, E), RealVect::Zero);
  };
 
  const Real p = PolyUtils::brentSolve(Emin, Emax, alpha);
 
  return std::pow(10.0, p);
}
 
#include <CD_NamespaceFooter.H>
 
#endif