tuning.cpp

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/*
 * Copyright (C) 2010-2022 The ESPResSo project
 * Copyright (C) 2002,2003,2004,2005,2006,2007,2008,2009,2010
 *   Max-Planck-Institute for Polymer Research, Theory Group
 *
 * This file is part of ESPResSo.
 *
 * ESPResSo is free software: you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
 * the Free Software Foundation, either version 3 of the License, or
 * (at your option) any later version.
 *
 * ESPResSo is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program.  If not, see <http://www.gnu.org/licenses/>.
 */
 
#include "tuning.hpp"
 
#include "cell_system/CellStructure.hpp"
#include "communication.hpp"
#include "errorhandling.hpp"
#include "integrate.hpp"
#include "nonbonded_interactions/nonbonded_interaction_data.hpp"
#include "system/System.hpp"
 
#include <utils/statistics/RunningAverage.hpp>
 
#include <boost/mpi/collectives/all_reduce.hpp>
#include <boost/mpi/collectives/broadcast.hpp>
 
#include <mpi.h>
 
#include <algorithm>
#include <functional>
#include <string>
 
std::string TuningFailed::get_first_error() const {
  using namespace ErrorHandling;
  auto const queued_warnings = mpi_gather_runtime_errors_all(this_node == 0);
  auto message = std::string("tuning failed: an exception was thrown while "
                             "benchmarking the integration loop");
  for (auto const &warning : queued_warnings) {
    if (warning.level() == RuntimeError::ErrorLevel::ERROR) {
      message += " (" + warning.what() + ")";
      break;
    }
  }
  return message;
}
 
static void check_statistics(Utils::Statistics::RunningAverage<double> &acc) {
  if (acc.avg() <= 5 * MPI_Wtick()) {
    runtimeWarningMsg()
        << "Clock resolution is too low to reliably time integration.";
  }
  if (acc.sig() >= 0.1 * acc.avg()) {
    runtimeWarningMsg() << "Statistics of tuning samples is very bad.";
  }
}
static void check_statistics(Utils::Statistics::RunningAverage<double> &acc) {…}
 
static void run_full_force_calc(System::System &system, int reuse_forces) {
  auto const error_code = system.integrate(0, reuse_forces);
  if (error_code == INTEG_ERROR_RUNTIME) {
    throw TuningFailed{};
  }
}
static void run_full_force_calc(System::System &system, int reuse_forces) {…}
 
double benchmark_integration_step(System::System &system, int int_steps) {
  Utils::Statistics::RunningAverage<double> running_average;
 
  // check if the system can be integrated with the current parameters
  run_full_force_calc(system, INTEG_REUSE_FORCES_CONDITIONALLY);
 
  // measure force calculation time
  for (int i = 0; i < int_steps; i++) {
    auto const tick = MPI_Wtime();
    run_full_force_calc(system, INTEG_REUSE_FORCES_NEVER);
    auto const tock = MPI_Wtime();
    running_average.add_sample((tock - tick));
  }
 
  if (this_node == 0) {
    check_statistics(running_average);
  }
 
  /* MPI returns in seconds, returned value should be in ms. */
  auto retval = 1000. * running_average.avg();
  boost::mpi::broadcast(::comm_cart, retval, 0);
  return retval;
}
double benchmark_integration_step(System::System &system, int int_steps) {…}
 
/**
 * \brief Time the integration.
 * This times the integration and
 * propagates the system.
 *
 * @param system The system to tune.
 * @param int_steps Number of steps to integrate.
 * @return Time per integration in ms.
 */
static double time_calc(System::System &system, int int_steps) {
  auto const error_code_init =
      system.integrate(0, INTEG_REUSE_FORCES_CONDITIONALLY);
  if (error_code_init == INTEG_ERROR_RUNTIME) {
    return -1;
  }
 
  /* perform force calculation test */
  auto const tick = MPI_Wtime();
  auto const error_code = system.integrate(int_steps, INTEG_REUSE_FORCES_NEVER);
  auto const tock = MPI_Wtime();
  if (error_code == INTEG_ERROR_RUNTIME) {
    return -1;
  }
 
  /* MPI returns in seconds, returned value should be in ms. */
  return 1000. * (tock - tick) / int_steps;
}
static double time_calc(System::System &system, int int_steps) {…}
 
namespace System {
void System::tune_verlet_skin(double min_skin, double max_skin, double tol,
                              int int_steps, bool adjust_max_skin) {
 
  double a = min_skin;
  double b = max_skin;
 
  /* The maximal skin is the remainder from the required cutoff to
   * the maximal range that can be supported by the cell system, but
   * never larger than half the box size. */
  auto const max_permissible_skin = std::min(
      std::ranges::min(cell_structure->max_cutoff()) - maximal_cutoff(),
      0.5 * std::ranges::max(box_geo->length()));
 
  if (adjust_max_skin and max_skin > max_permissible_skin)
    b = max_permissible_skin;
 
  while (fabs(a - b) > tol) {
    cell_structure->set_verlet_skin(a);
    auto const time_a = time_calc(*this, int_steps);
 
    cell_structure->set_verlet_skin(b);
    auto const time_b = time_calc(*this, int_steps);
 
    if (time_a > time_b) {
      a = 0.5 * (a + b);
    } else {
      b = 0.5 * (a + b);
    }
  }
  cell_structure->set_verlet_skin(0.5 * (a + b));
}
void System::tune_verlet_skin(double min_skin, double max_skin, double tol, {…}
} // namespace System