ESPResSo
Extensible Simulation Package for Research on Soft Matter Systems
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p3m.cpp
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1/*
2 * Copyright (C) 2010-2024 The ESPResSo project
3 * Copyright (C) 2002,2003,2004,2005,2006,2007,2008,2009,2010
4 * Max-Planck-Institute for Polymer Research, Theory Group
5 *
6 * This file is part of ESPResSo.
7 *
8 * ESPResSo is free software: you can redistribute it and/or modify
9 * it under the terms of the GNU General Public License as published by
10 * the Free Software Foundation, either version 3 of the License, or
11 * (at your option) any later version.
12 *
13 * ESPResSo is distributed in the hope that it will be useful,
14 * but WITHOUT ANY WARRANTY; without even the implied warranty of
15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
16 * GNU General Public License for more details.
17 *
18 * You should have received a copy of the GNU General Public License
19 * along with this program. If not, see <http://www.gnu.org/licenses/>.
20 */
21
22/** @file
23 *
24 * The corresponding header file is @ref p3m.hpp.
25 */
26
27#include "config/config.hpp"
28
29#ifdef P3M
30
33
36#ifdef CUDA
39#endif // CUDA
40
41#include "fft/fft.hpp"
43#include "p3m/TuningLogger.hpp"
44#include "p3m/for_each_3d.hpp"
46#include "p3m/math.hpp"
47
48#include "BoxGeometry.hpp"
49#include "LocalBox.hpp"
50#include "Particle.hpp"
52#include "ParticleRange.hpp"
53#include "PropagationMode.hpp"
54#include "actor/visitors.hpp"
57#include "communication.hpp"
58#include "errorhandling.hpp"
60#include "npt.hpp"
62#include "system/System.hpp"
63#include "tuning.hpp"
64
65#include <utils/Vector.hpp>
68#include <utils/math/sqr.hpp>
70
71#include <boost/mpi/collectives/all_reduce.hpp>
72#include <boost/mpi/collectives/broadcast.hpp>
73#include <boost/mpi/collectives/reduce.hpp>
74#include <boost/mpi/communicator.hpp>
75#include <boost/range/combine.hpp>
76#include <boost/range/numeric.hpp>
77
78#include <algorithm>
79#include <array>
80#include <cassert>
81#include <complex>
82#include <cstddef>
83#include <functional>
84#include <initializer_list>
85#include <numbers>
86#include <optional>
87#include <span>
88#include <sstream>
89#include <stdexcept>
90#include <string>
91#include <tuple>
92#include <utility>
93
94#ifdef FFTW3_H
95#error "The FFTW3 library shouldn't be visible in this translation unit"
96#endif
97
98template <typename FloatType, Arch Architecture>
100 auto local_n = 0;
101 auto local_q2 = 0.0;
102 auto local_q = 0.0;
103
104 for (auto const &p : get_system().cell_structure->local_particles()) {
105 if (p.q() != 0.0) {
106 local_n++;
107 local_q2 += Utils::sqr(p.q());
108 local_q += p.q();
109 }
110 }
111
112 boost::mpi::all_reduce(comm_cart, local_n, p3m.sum_qpart, std::plus<>());
113 boost::mpi::all_reduce(comm_cart, local_q2, p3m.sum_q2, std::plus<>());
114 boost::mpi::all_reduce(comm_cart, local_q, p3m.square_sum_q, std::plus<>());
115 p3m.square_sum_q = Utils::sqr(p3m.square_sum_q);
116}
117
118/** Calculate the optimal influence function of @cite hockney88a.
119 * (optimised for force calculations)
120 *
121 * Each node calculates only the values for its domain in k-space.
122 *
123 * See also: @cite hockney88a eq. 8-22 (p. 275). Note the somewhat
124 * different convention for the prefactors, which is described in
125 * @cite deserno98a @cite deserno98b.
126 */
127template <typename FloatType, Arch Architecture>
129 auto const [KX, KY, KZ] = p3m.fft->get_permutations();
130 p3m.g_force = grid_influence_function<FloatType, 1, P3M_BRILLOUIN>(
131 p3m.params, p3m.mesh.start, p3m.mesh.stop, KX, KY, KZ,
132 get_system().box_geo->length_inv());
133}
134
135/** Calculate the influence function optimized for the energy and the
136 * self energy correction.
137 */
138template <typename FloatType, Arch Architecture>
140 auto const [KX, KY, KZ] = p3m.fft->get_permutations();
141 p3m.g_energy = grid_influence_function<FloatType, 0, P3M_BRILLOUIN>(
142 p3m.params, p3m.mesh.start, p3m.mesh.stop, KX, KY, KZ,
143 get_system().box_geo->length_inv());
144}
145
146/** Aliasing sum used by @ref p3m_k_space_error. */
148 Utils::Vector3i const &mesh,
149 Utils::Vector3d const &mesh_i, int cao,
150 double alpha_L_i) {
151
152 auto constexpr mesh_start = Utils::Vector3i::broadcast(-P3M_BRILLOUIN);
153 auto constexpr mesh_stop = Utils::Vector3i::broadcast(P3M_BRILLOUIN + 1);
154 auto const factor1 = Utils::sqr(std::numbers::pi * alpha_L_i);
155 auto alias1 = 0.;
156 auto alias2 = 0.;
157
158 Utils::Vector3i indices{};
159 Utils::Vector3i nm{};
160 Utils::Vector3d fnm{};
162 mesh_start, mesh_stop, indices,
163 [&]() {
164 auto const norm_sq = nm.norm2();
165 auto const ex = exp(-factor1 * norm_sq);
166 auto const energy = std::pow(Utils::product(fnm), 2 * cao);
167 alias1 += Utils::sqr(ex) / norm_sq;
168 alias2 += energy * ex * (shift * nm) / norm_sq;
169 },
170 [&](unsigned dim, int n) {
171 nm[dim] = shift[dim] + n * mesh[dim];
172 fnm[dim] = math::sinc(nm[dim] * mesh_i[dim]);
173 });
174
175 return std::make_pair(alias1, alias2);
176}
177
178/** Calculate the real space contribution to the rms error in the force (as
179 * described by Kolafa and Perram).
180 * \param pref Prefactor of Coulomb interaction.
181 * \param r_cut_iL rescaled real space cutoff for p3m method.
182 * \param n_c_part number of charged particles in the system.
183 * \param sum_q2 sum of square of charges in the system
184 * \param alpha_L rescaled Ewald splitting parameter.
185 * \param box_l box dimensions.
186 * \return real space error
187 */
188static double p3m_real_space_error(double pref, double r_cut_iL, int n_c_part,
189 double sum_q2, double alpha_L,
190 Utils::Vector3d const &box_l) {
191 auto const volume = Utils::product(box_l);
192 return (2. * pref * sum_q2 * exp(-Utils::sqr(r_cut_iL * alpha_L))) /
193 sqrt(static_cast<double>(n_c_part) * r_cut_iL * box_l[0] * volume);
194}
195
196/** Calculate the analytic expression of the error estimate for the
197 * P3M method in @cite hockney88a (eq. 8-23 p. 275) in
198 * order to obtain the rms error in the force for a system of N
199 * randomly distributed particles in a cubic box (k-space part).
200 * \param pref Prefactor of Coulomb interaction.
201 * \param mesh number of mesh points in one direction.
202 * \param cao charge assignment order.
203 * \param n_c_part number of charged particles in the system.
204 * \param sum_q2 sum of square of charges in the system
205 * \param alpha_L rescaled Ewald splitting parameter.
206 * \param box_l box dimensions.
207 * \return reciprocal (k) space error
208 */
209static double p3m_k_space_error(double pref, Utils::Vector3i const &mesh,
210 int cao, int n_c_part, double sum_q2,
211 double alpha_L, Utils::Vector3d const &box_l) {
212
213 auto const cotangent_sum = math::get_analytic_cotangent_sum_kernel(cao);
214 auto const mesh_i = 1. / Utils::Vector3d(mesh);
215 auto const alpha_L_i = 1. / alpha_L;
216 auto const mesh_stop = mesh / 2;
217 auto const mesh_start = -mesh_stop;
218 auto indices = Utils::Vector3i{};
219 auto values = Utils::Vector3d{};
220 auto he_q = 0.;
221
223 mesh_start, mesh_stop, indices,
224 [&]() {
225 if ((indices[0] != 0) or (indices[1] != 0) or (indices[2] != 0)) {
226 auto const n2 = indices.norm2();
227 auto const cs = Utils::product(values);
228 auto const [alias1, alias2] =
229 p3m_tune_aliasing_sums(indices, mesh, mesh_i, cao, alpha_L_i);
230 auto const d = alias1 - Utils::sqr(alias2 / cs) / n2;
231 /* at high precision, d can become negative due to extinction;
232 also, don't take values that have no significant digits left*/
233 if (d > 0. and std::fabs(d / alias1) > ROUND_ERROR_PREC) {
234 he_q += d;
235 }
236 }
237 },
238 [&values, &mesh_i, cotangent_sum](unsigned dim, int n) {
239 values[dim] = cotangent_sum(n, mesh_i[dim]);
240 });
241
242 return 2. * pref * sum_q2 * sqrt(he_q / static_cast<double>(n_c_part)) /
243 (box_l[1] * box_l[2]);
244}
245
246template <typename FloatType, Arch Architecture>
248 assert(p3m.params.mesh >= Utils::Vector3i::broadcast(1));
249 assert(p3m.params.cao >= 1 and p3m.params.cao <= 7);
250 assert(p3m.params.alpha > 0.);
251
252 auto const &system = get_system();
253 auto const &box_geo = *system.box_geo;
254 auto const &local_geo = *system.local_geo;
255 auto const skin = system.cell_structure->get_verlet_skin();
256
257 p3m.params.cao3 = Utils::int_pow<3>(p3m.params.cao);
258 p3m.params.recalc_a_ai_cao_cut(box_geo.length());
259
260 sanity_checks();
261
262 auto const &solver = system.coulomb.impl->solver;
263 double elc_layer = 0.;
264 if (auto actor = get_actor_by_type<ElectrostaticLayerCorrection>(solver)) {
265 elc_layer = actor->elc.space_layer;
266 }
267
268 assert(p3m.fft);
269 p3m.local_mesh.calc_local_ca_mesh(p3m.params, local_geo, skin, elc_layer);
270 p3m.fft_buffers->init_halo();
271 p3m.fft->init(p3m.params);
272 p3m.mesh.ks_pnum = p3m.fft->get_ks_pnum();
273 p3m.fft_buffers->init_meshes(p3m.fft->get_ca_mesh_size());
274 p3m.update_mesh_views();
275 p3m.calc_differential_operator();
276
277 /* fix box length dependent constants */
278 scaleby_box_l();
279
280 count_charged_particles();
281}
282
283namespace {
284template <int cao> struct AssignCharge {
285 void operator()(auto &p3m, double q, Utils::Vector3d const &real_pos,
286 InterpolationWeights<cao> const &w) {
287 using value_type =
288 typename std::remove_reference_t<decltype(p3m)>::value_type;
289 p3m_interpolate(p3m.local_mesh, w, [q, &p3m](int ind, double w) {
290 p3m.mesh.rs_scalar[ind] += value_type(w * q);
291 });
292 }
293
294 void operator()(auto &p3m, double q, Utils::Vector3d const &real_pos,
295 p3m_interpolation_cache &inter_weights) {
296 auto const w = p3m_calculate_interpolation_weights<cao>(
297 real_pos, p3m.params.ai, p3m.local_mesh);
298 inter_weights.store(w);
299 this->operator()(p3m, q, real_pos, w);
300 }
301
302 void operator()(auto &p3m, double q, Utils::Vector3d const &real_pos) {
303 auto const w = p3m_calculate_interpolation_weights<cao>(
304 real_pos, p3m.params.ai, p3m.local_mesh);
305 this->operator()(p3m, q, real_pos, w);
306 }
307
308 template <typename combined_ranges>
309 void operator()(auto &p3m, combined_ranges const &p_q_pos_range) {
310 for (auto zipped : p_q_pos_range) {
311 auto const p_q = boost::get<0>(zipped);
312 auto const &p_pos = boost::get<1>(zipped);
313 if (p_q != 0.0) {
314 this->operator()(p3m, p_q, p_pos, p3m.inter_weights);
315 }
316 }
317 }
318};
319} // namespace
320
321template <typename FloatType, Arch Architecture>
323 ParticleRange const &particles) {
324 prepare_fft_mesh(true);
325
326 auto p_q_range = ParticlePropertyRange::charge_range(particles);
327 auto p_pos_range = ParticlePropertyRange::pos_range(particles);
328
329 Utils::integral_parameter<int, AssignCharge, 1, 7>(
330 p3m.params.cao, p3m, boost::combine(p_q_range, p_pos_range));
331}
332
333template <typename FloatType, Arch Architecture>
335 double q, Utils::Vector3d const &real_pos, bool skip_cache) {
336 if (skip_cache) {
337 Utils::integral_parameter<int, AssignCharge, 1, 7>(p3m.params.cao, p3m, q,
338 real_pos);
339 } else {
340 Utils::integral_parameter<int, AssignCharge, 1, 7>(
341 p3m.params.cao, p3m, q, real_pos, p3m.inter_weights);
342 }
343}
344
345template <int cao> struct AssignForces {
346 template <typename combined_ranges>
347 void operator()(auto &p3m, double force_prefac,
348 combined_ranges const &p_q_force_range) const {
349
350 assert(cao == p3m.inter_weights.cao());
351
352 /* charged particle counter */
353 auto p_index = std::size_t{0ul};
354
355 for (auto zipped : p_q_force_range) {
356 auto p_q = boost::get<0>(zipped);
357 auto &p_force = boost::get<1>(zipped);
358 if (p_q != 0.0) {
359 auto const pref = p_q * force_prefac;
360 auto const w = p3m.inter_weights.template load<cao>(p_index);
361
362 Utils::Vector3d force{};
363 p3m_interpolate(p3m.local_mesh, w, [&force, &p3m](int ind, double w) {
364 force[0u] += w * double(p3m.mesh.rs_fields[0u][ind]);
365 force[1u] += w * double(p3m.mesh.rs_fields[1u][ind]);
366 force[2u] += w * double(p3m.mesh.rs_fields[2u][ind]);
367 });
368
369 p_force -= pref * force;
370 ++p_index;
371 }
372 }
373 }
374};
375
376template <typename combined_ranges>
377static auto calc_dipole_moment(boost::mpi::communicator const &comm,
378 combined_ranges const &p_q_unfolded_pos_range) {
379 auto const local_dip =
380 boost::accumulate(p_q_unfolded_pos_range, Utils::Vector3d{},
381 [](Utils::Vector3d const &dip, auto const &q_pos) {
382 auto const p_q = boost::get<0>(q_pos);
383 auto const &p_unfolded_pos = boost::get<1>(q_pos);
384 return dip + p_q * p_unfolded_pos;
385 });
386 return boost::mpi::all_reduce(comm, local_dip, std::plus<>());
387}
388
389/** @details Calculate the long range electrostatics part of the pressure
390 * tensor. This is part \f$\Pi_{\textrm{dir}, \alpha, \beta}\f$ eq. (2.6)
391 * in @cite essmann95a. The part \f$\Pi_{\textrm{corr}, \alpha, \beta}\f$
392 * eq. (2.8) is not present here since M is the empty set in our simulations.
393 */
394template <typename FloatType, Arch Architecture>
396 ParticleRange const &particles) {
397 auto const &box_geo = *get_system().box_geo;
398 Utils::Vector9d node_k_space_pressure_tensor{};
399
400 if (p3m.sum_q2 > 0.) {
401 charge_assign(particles);
402 p3m.fft_buffers->perform_scalar_halo_gather();
403 p3m.fft->forward_fft(p3m.fft_buffers->get_scalar_mesh());
404 p3m.update_mesh_views();
405
406 auto constexpr mesh_start = Utils::Vector3i::broadcast(0);
407 auto const &mesh_stop = p3m.mesh.size;
408 auto const &offset = p3m.mesh.start;
409 auto const half_alpha_inv_sq = Utils::sqr(1. / 2. / p3m.params.alpha);
410 auto const wavevector = (2. * std::numbers::pi) * box_geo.length_inv();
411 auto const [KX, KY, KZ] = p3m.fft->get_permutations();
412 auto indices = Utils::Vector3i{};
413 auto index = std::size_t(0u);
414 auto diagonal = 0.;
415
416 for_each_3d(mesh_start, mesh_stop, indices, [&]() {
417 auto const shift = indices + offset;
418 auto const kx = p3m.d_op[0u][shift[KX]] * wavevector[0u];
419 auto const ky = p3m.d_op[1u][shift[KY]] * wavevector[1u];
420 auto const kz = p3m.d_op[2u][shift[KZ]] * wavevector[2u];
421 auto const norm_sq = Utils::sqr(kx) + Utils::sqr(ky) + Utils::sqr(kz);
422
423 if (norm_sq != 0.) {
424 auto const node_k_space_energy =
425 double(p3m.g_energy[index] *
426 (Utils::sqr(p3m.mesh.rs_scalar[2u * index + 0u]) +
427 Utils::sqr(p3m.mesh.rs_scalar[2u * index + 1u])));
428 auto const vterm = -2. * (1. / norm_sq + half_alpha_inv_sq);
429 auto const pref = node_k_space_energy * vterm;
430 node_k_space_pressure_tensor[0u] += pref * kx * kx; /* sigma_xx */
431 node_k_space_pressure_tensor[1u] += pref * kx * ky; /* sigma_xy */
432 node_k_space_pressure_tensor[2u] += pref * kx * kz; /* sigma_xz */
433 node_k_space_pressure_tensor[4u] += pref * ky * ky; /* sigma_yy */
434 node_k_space_pressure_tensor[5u] += pref * ky * kz; /* sigma_yz */
435 node_k_space_pressure_tensor[8u] += pref * kz * kz; /* sigma_zz */
436 diagonal += node_k_space_energy;
437 }
438 ++index;
439 });
440
441 node_k_space_pressure_tensor[0u] += diagonal;
442 node_k_space_pressure_tensor[4u] += diagonal;
443 node_k_space_pressure_tensor[8u] += diagonal;
444 node_k_space_pressure_tensor[3u] = node_k_space_pressure_tensor[1u];
445 node_k_space_pressure_tensor[6u] = node_k_space_pressure_tensor[2u];
446 node_k_space_pressure_tensor[7u] = node_k_space_pressure_tensor[5u];
447 }
448
449 return node_k_space_pressure_tensor * prefactor / (2. * box_geo.volume());
450}
451
452template <typename FloatType, Arch Architecture>
454 bool force_flag, bool energy_flag, ParticleRange const &particles) {
455 auto const &system = get_system();
456 auto const &box_geo = *system.box_geo;
457#ifdef NPT
458 auto const npt_flag =
459 force_flag and (system.propagation->integ_switch == INTEG_METHOD_NPT_ISO);
460#else
461 auto constexpr npt_flag = false;
462#endif
463
464 if (p3m.sum_q2 > 0.) {
465 if (not has_actor_of_type<ElectrostaticLayerCorrection>(
466 system.coulomb.impl->solver)) {
467 charge_assign(particles);
468 }
469 p3m.fft_buffers->perform_scalar_halo_gather();
470 p3m.fft->forward_fft(p3m.fft_buffers->get_scalar_mesh());
471 p3m.update_mesh_views();
472 }
473
474 auto p_q_range = ParticlePropertyRange::charge_range(particles);
475 auto p_force_range = ParticlePropertyRange::force_range(particles);
476 auto p_unfolded_pos_range =
478
479 // Note: after these calls, the grids are in the order yzx and not xyz
480 // anymore!!!
481 /* The dipole moment is only needed if we don't have metallic boundaries. */
482 auto const box_dipole =
483 (p3m.params.epsilon != P3M_EPSILON_METALLIC)
484 ? std::make_optional(calc_dipole_moment(
485 comm_cart, boost::combine(p_q_range, p_unfolded_pos_range)))
486 : std::nullopt;
487 auto const volume = box_geo.volume();
488 auto const pref =
489 4. * std::numbers::pi / volume / (2. * p3m.params.epsilon + 1.);
490
491 /* === k-space force calculation === */
492 if (force_flag) {
493 /* i*k differentiation */
494 auto constexpr mesh_start = Utils::Vector3i::broadcast(0);
495 auto const &mesh_stop = p3m.mesh.size;
496 auto const &offset = p3m.mesh.start;
497 auto const wavevector = Utils::Vector3<FloatType>((2. * std::numbers::pi) *
498 box_geo.length_inv());
499 auto indices = Utils::Vector3i{};
500 auto index = std::size_t(0u);
501
502 /* compute electric field */
503 // Eq. (3.49) @cite deserno00b
504 for_each_3d(mesh_start, mesh_stop, indices, [&]() {
505 auto const rho_hat =
506 std::complex<FloatType>(p3m.mesh.rs_scalar[2u * index + 0u],
507 p3m.mesh.rs_scalar[2u * index + 1u]);
508 auto const phi_hat = p3m.g_force[index] * rho_hat;
509
510 for (int d = 0; d < 3; d++) {
511 /* direction in r-space: */
512 int d_rs = (d + p3m.mesh.ks_pnum) % 3;
513 /* directions */
514 auto const k = FloatType(p3m.d_op[d_rs][indices[d] + offset[d]]) *
515 wavevector[d_rs];
516
517 /* i*k*(Re+i*Im) = - Im*k + i*Re*k (i=sqrt(-1)) */
518 p3m.mesh.rs_fields[d_rs][2u * index + 0u] = -k * phi_hat.imag();
519 p3m.mesh.rs_fields[d_rs][2u * index + 1u] = +k * phi_hat.real();
520 }
521
522 ++index;
523 });
524
525 auto const check_residuals =
526 not p3m.params.tuning and check_complex_residuals;
527 p3m.fft->check_complex_residuals = check_residuals;
528 for (auto &rs_mesh : p3m.fft_buffers->get_vector_mesh()) {
529 p3m.fft->backward_fft(rs_mesh);
530 }
531 p3m.fft_buffers->perform_vector_halo_spread();
532 p3m.fft->check_complex_residuals = false;
533
534 auto const force_prefac = prefactor / volume;
535 Utils::integral_parameter<int, AssignForces, 1, 7>(
536 p3m.params.cao, p3m, force_prefac,
537 boost::combine(p_q_range, p_force_range));
538
539 // add dipole forces
540 // Eq. (3.19) @cite deserno00b
541 if (box_dipole) {
542 auto const dm = prefactor * pref * box_dipole.value();
543 for (auto zipped : boost::combine(p_q_range, p_force_range)) {
544 auto p_q = boost::get<0>(zipped);
545 auto &p_force = boost::get<1>(zipped);
546 p_force -= p_q * dm;
547 }
548 }
549 }
550
551 /* === k-space energy calculation === */
552 if (energy_flag or npt_flag) {
553 auto node_energy = 0.;
554 auto const mesh_length = Utils::product(p3m.mesh.size);
555 for (int i = 0; i < mesh_length; i++) {
556 // Use the energy optimized influence function for energy!
557 // Eq. (3.40) @cite deserno00b
558 node_energy +=
559 double(p3m.g_energy[i] * (Utils::sqr(p3m.mesh.rs_scalar[2 * i + 0]) +
560 Utils::sqr(p3m.mesh.rs_scalar[2 * i + 1])));
561 }
562 node_energy /= 2. * volume;
563
564 auto energy = 0.;
565 boost::mpi::reduce(comm_cart, node_energy, energy, std::plus<>(), 0);
566 if (this_node == 0) {
567 /* self energy correction */
568 // Eq. (3.8) @cite deserno00b
569 energy -= p3m.sum_q2 * p3m.params.alpha * std::numbers::inv_sqrtpi;
570 /* net charge correction */
571 // Eq. (3.11) @cite deserno00b
572 energy -= p3m.square_sum_q * std::numbers::pi /
573 (2. * volume * Utils::sqr(p3m.params.alpha));
574 /* dipole correction */
575 // Eq. (3.9) @cite deserno00b
576 if (box_dipole) {
577 energy += pref * box_dipole.value().norm2();
578 }
579 }
580 energy *= prefactor;
581#ifdef NPT
582 if (npt_flag) {
584 }
585#endif
586 if (not energy_flag) {
587 energy = 0.;
588 }
589 return energy;
590 }
591
592 return 0.;
593}
594
595template <typename FloatType, Arch Architecture>
598 double m_mesh_density_min = -1., m_mesh_density_max = -1.;
599 // indicates if mesh should be tuned
600 bool m_tune_mesh = false;
601 std::pair<std::optional<int>, std::optional<int>> m_tune_limits;
602
603protected:
604 P3MParameters &get_params() override { return p3m.params; }
605
606public:
607 CoulombTuningAlgorithm(System::System &system, auto &input_p3m,
608 double prefactor, int timings,
609 decltype(m_tune_limits) tune_limits)
610 : TuningAlgorithm(system, prefactor, timings), p3m{input_p3m},
611 m_tune_limits{std::move(tune_limits)} {}
612
613 void on_solver_change() const override { m_system.on_coulomb_change(); }
614
615 void setup_logger(bool verbose) override {
616 auto const &box_geo = *m_system.box_geo;
617#ifdef CUDA
618 auto const on_gpu = Architecture == Arch::GPU;
619#else
620 auto const on_gpu = false;
621#endif
622 m_logger = std::make_unique<TuningLogger>(
623 verbose and this_node == 0, (on_gpu) ? "CoulombP3MGPU" : "CoulombP3M",
625 m_logger->tuning_goals(p3m.params.accuracy, m_prefactor,
626 box_geo.length()[0], p3m.sum_qpart, p3m.sum_q2);
627 m_logger->log_tuning_start();
628 }
629
630 std::optional<std::string>
631 layer_correction_veto_r_cut(double r_cut) const override {
632 auto const &solver = m_system.coulomb.impl->solver;
633 if (auto actor = get_actor_by_type<ElectrostaticLayerCorrection>(solver)) {
634 return actor->veto_r_cut(r_cut);
635 }
636 return {};
637 }
638
639 std::optional<std::string> fft_decomposition_veto(
640 Utils::Vector3i const &mesh_size_r_space) const override {
641#ifdef CUDA
642 if constexpr (Architecture == Arch::GPU) {
643 return std::nullopt;
644 }
645#endif
646 using Array3i = Utils::Array<int, 3u>;
647 auto const [KX, KY, KZ] = p3m.fft->get_permutations();
648 auto valid_decomposition = false;
649 Array3i mesh_size_k_space = {};
650 boost::mpi::reduce(
651 ::comm_cart, Array3i(p3m.mesh.stop), mesh_size_k_space,
652 [](Array3i const &lhs, Array3i const &rhs) {
653 return Array3i{{std::max(lhs[0u], rhs[0u]),
654 std::max(lhs[1u], rhs[1u]),
655 std::max(lhs[2u], rhs[2u])}};
656 },
657 0);
658 if (::this_node == 0) {
659 valid_decomposition = (mesh_size_r_space[0u] == mesh_size_k_space[KX] and
660 mesh_size_r_space[1u] == mesh_size_k_space[KY] and
661 mesh_size_r_space[2u] == mesh_size_k_space[KZ]);
662 }
663 boost::mpi::broadcast(::comm_cart, valid_decomposition, 0);
664 std::optional<std::string> retval{"conflict with FFT domain decomposition"};
665 if (valid_decomposition) {
666 retval = std::nullopt;
667 }
668 return retval;
669 }
670
671 std::tuple<double, double, double, double>
673 double r_cut_iL) const override {
674
675 auto const &box_geo = *m_system.box_geo;
676 double alpha_L, rs_err, ks_err;
677
678 /* calc maximal real space error for setting */
679 rs_err = p3m_real_space_error(m_prefactor, r_cut_iL, p3m.sum_qpart,
680 p3m.sum_q2, 0., box_geo.length());
681
682 if (std::numbers::sqrt2 * rs_err > p3m.params.accuracy) {
683 /* assume rs_err = ks_err -> rs_err = accuracy/sqrt(2.0) -> alpha_L */
684 alpha_L = sqrt(log(std::numbers::sqrt2 * rs_err / p3m.params.accuracy)) /
685 r_cut_iL;
686 } else {
687 /* even alpha=0 is ok, however, we cannot choose it since it kills the
688 k-space error formula.
689 Anyways, this very likely NOT the optimal solution */
690 alpha_L = 0.1;
691 }
692
693 /* calculate real-space and k-space error for this alpha_L */
694 rs_err = p3m_real_space_error(m_prefactor, r_cut_iL, p3m.sum_qpart,
695 p3m.sum_q2, alpha_L, box_geo.length());
696#ifdef CUDA
697 if constexpr (Architecture == Arch::GPU) {
698 if (this_node == 0) {
699 ks_err =
700 p3m_k_space_error_gpu(m_prefactor, mesh.data(), cao, p3m.sum_qpart,
701 p3m.sum_q2, alpha_L, box_geo.length().data());
702 }
703 boost::mpi::broadcast(comm_cart, ks_err, 0);
704 } else
705#endif
706 ks_err = p3m_k_space_error(m_prefactor, mesh, cao, p3m.sum_qpart,
707 p3m.sum_q2, alpha_L, box_geo.length());
708
709 return {Utils::Vector2d{rs_err, ks_err}.norm(), rs_err, ks_err, alpha_L};
710 }
711
712 void determine_mesh_limits() override {
713 auto const &box_geo = *m_system.box_geo;
714 auto const mesh_density =
715 static_cast<double>(p3m.params.mesh[0]) * box_geo.length_inv()[0];
716
717 if (p3m.params.mesh == Utils::Vector3i::broadcast(-1)) {
718 /* avoid using more than 1 GB of FFT arrays */
719 auto const normalized_box_dim = std::cbrt(box_geo.volume());
720 auto const max_npart_per_dim = 512.;
721 /* simple heuristic to limit the tried meshes if the accuracy cannot
722 be obtained with smaller meshes, but normally not all these
723 meshes have to be tested */
724 auto const min_npart_per_dim = std::min(
725 max_npart_per_dim, std::cbrt(static_cast<double>(p3m.sum_qpart)));
726 m_mesh_density_min = min_npart_per_dim / normalized_box_dim;
727 m_mesh_density_max = max_npart_per_dim / normalized_box_dim;
728 if (m_tune_limits.first or m_tune_limits.second) {
729 auto const &box_l = box_geo.length();
730 auto const dim = std::max({box_l[0], box_l[1], box_l[2]});
731 if (m_tune_limits.first) {
732 m_mesh_density_min = static_cast<double>(*m_tune_limits.first) / dim;
733 }
734 if (m_tune_limits.second) {
735 m_mesh_density_max = static_cast<double>(*m_tune_limits.second) / dim;
736 }
737 }
738 m_tune_mesh = true;
739 } else {
740 m_mesh_density_min = m_mesh_density_max = mesh_density;
741 assert(p3m.params.mesh[0] >= 1);
742 if (p3m.params.mesh[1] == -1 and p3m.params.mesh[2] == -1) {
743 // determine the two missing values by rescaling by the box length
744 for (auto i : {1, 2}) {
745 p3m.params.mesh[i] =
746 static_cast<int>(std::round(mesh_density * box_geo.length()[i]));
747 // make the mesh even in all directions
748 p3m.params.mesh[i] += p3m.params.mesh[i] % 2;
749 }
750 }
751 m_logger->report_fixed_mesh(p3m.params.mesh);
752 }
753 }
754
756 auto const &box_geo = *m_system.box_geo;
757 auto const &solver = m_system.coulomb.impl->solver;
758 auto tuned_params = TuningAlgorithm::Parameters{};
759 auto time_best = time_sentinel;
760 auto mesh_density = m_mesh_density_min;
761 while (mesh_density <= m_mesh_density_max) {
762 auto trial_params = TuningAlgorithm::Parameters{};
763 if (m_tune_mesh) {
764 for (auto i : {0, 1, 2}) {
765 trial_params.mesh[i] =
766 static_cast<int>(std::round(box_geo.length()[i] * mesh_density));
767 // make the mesh even in all directions
768 trial_params.mesh[i] += trial_params.mesh[i] % 2;
769 }
770 } else {
771 trial_params.mesh = p3m.params.mesh;
772 }
773 trial_params.cao = cao_best;
774
775 auto const trial_time =
776 get_m_time(trial_params.mesh, trial_params.cao, trial_params.r_cut_iL,
777 trial_params.alpha_L, trial_params.accuracy);
778
779 if (trial_time >= 0.) {
780 /* the optimum r_cut for this mesh is the upper limit for higher meshes,
781 everything else is slower */
782 if (has_actor_of_type<CoulombP3M>(solver)) {
783 m_r_cut_iL_max = trial_params.r_cut_iL;
784 }
785
786 if (trial_time < time_best) {
787 /* new optimum */
788 reset_n_trials();
789 tuned_params = trial_params;
790 time_best = tuned_params.time = trial_time;
791 } else if (trial_time > time_best + time_granularity or
792 get_n_trials() > max_n_consecutive_trials) {
793 /* no hope of further optimisation */
794 break;
795 }
796 }
797 mesh_density += 0.1;
798 }
799 return tuned_params;
800 }
801};
802
803template <typename FloatType, Arch Architecture>
805 auto &system = get_system();
806 auto const &box_geo = *system.box_geo;
807 if (p3m.params.alpha_L == 0. and p3m.params.alpha != 0.) {
808 p3m.params.alpha_L = p3m.params.alpha * box_geo.length()[0];
809 }
810 if (p3m.params.r_cut_iL == 0. and p3m.params.r_cut != 0.) {
811 p3m.params.r_cut_iL = p3m.params.r_cut * box_geo.length_inv()[0];
812 }
813 if (not is_tuned()) {
814 count_charged_particles();
815 if (p3m.sum_qpart == 0) {
816 throw std::runtime_error(
817 "CoulombP3M: no charged particles in the system");
818 }
819 try {
821 system, p3m, prefactor, tune_timings, tune_limits);
822 parameters.setup_logger(tune_verbose);
823 // parameter ranges
824 parameters.determine_mesh_limits();
825 parameters.determine_r_cut_limits();
826 parameters.determine_cao_limits(7);
827 // run tuning algorithm
828 parameters.tune();
829 m_is_tuned = true;
830 system.on_coulomb_change();
831 } catch (...) {
832 p3m.params.tuning = false;
833 throw;
834 }
835 }
836 init();
837}
838
840 auto const &system = get_system();
841 auto const &box_geo = *system.box_geo;
842 auto const &local_geo = *system.local_geo;
843 for (auto i = 0u; i < 3u; i++) {
844 /* check k-space cutoff */
845 if (p3m_params.cao_cut[i] >= box_geo.length_half()[i]) {
846 std::stringstream msg;
847 msg << "P3M_init: k-space cutoff " << p3m_params.cao_cut[i]
848 << " is larger than half of box dimension " << box_geo.length()[i];
849 throw std::runtime_error(msg.str());
850 }
851 if (p3m_params.cao_cut[i] >= local_geo.length()[i]) {
852 std::stringstream msg;
853 msg << "P3M_init: k-space cutoff " << p3m_params.cao_cut[i]
854 << " is larger than local box dimension " << local_geo.length()[i];
855 throw std::runtime_error(msg.str());
856 }
857 }
858
860 if ((box_geo.length()[0] != box_geo.length()[1]) or
861 (box_geo.length()[1] != box_geo.length()[2]) or
862 (p3m_params.mesh[0] != p3m_params.mesh[1]) or
863 (p3m_params.mesh[1] != p3m_params.mesh[2])) {
864 throw std::runtime_error(
865 "CoulombP3M: non-metallic epsilon requires cubic box");
866 }
867 }
868}
869
871 auto const &box_geo = *get_system().box_geo;
872 if (!box_geo.periodic(0) or !box_geo.periodic(1) or !box_geo.periodic(2)) {
873 throw std::runtime_error(
874 "CoulombP3M: requires periodicity (True, True, True)");
875 }
876}
877
879 auto const &local_geo = *get_system().local_geo;
880 if (local_geo.cell_structure_type() != CellStructureType::REGULAR and
881 local_geo.cell_structure_type() != CellStructureType::HYBRID) {
882 throw std::runtime_error(
883 "CoulombP3M: requires the regular or hybrid decomposition cell system");
884 }
885 if (::communicator.size > 1 and
886 local_geo.cell_structure_type() == CellStructureType::HYBRID) {
887 throw std::runtime_error(
888 "CoulombP3M: does not work with the hybrid decomposition cell system, "
889 "if using more than one MPI node");
890 }
891}
892
894 auto const &node_grid = ::communicator.node_grid;
895 if (node_grid[0] < node_grid[1] || node_grid[1] < node_grid[2]) {
896 throw std::runtime_error(
897 "CoulombP3M: node grid must be sorted, largest first");
898 }
899}
900
901template <typename FloatType, Arch Architecture>
903 auto const &box_geo = *get_system().box_geo;
904 p3m.params.r_cut = p3m.params.r_cut_iL * box_geo.length()[0];
905 p3m.params.alpha = p3m.params.alpha_L * box_geo.length_inv()[0];
906 p3m.params.recalc_a_ai_cao_cut(box_geo.length());
908 sanity_checks_boxl();
909 calc_influence_function_force();
910 calc_influence_function_energy();
911}
912
913#ifdef CUDA
914template <typename FloatType, Arch Architecture>
916 ParticleRange const &particles) {
917 if constexpr (Architecture == Arch::GPU) {
918#ifdef NPT
919 if (get_system().propagation->integ_switch == INTEG_METHOD_NPT_ISO) {
920 auto const energy = long_range_energy(particles);
922 }
923#else
924 static_cast<void>(particles);
925#endif
926 if (this_node == 0) {
927 auto &gpu = get_system().gpu;
928 p3m_gpu_add_farfield_force(*m_gpu_data, gpu, prefactor,
929 gpu.n_particles());
930 }
931 }
932}
933
934/* Initialize the CPU kernels.
935 * This operation is time-consuming and sets up data members
936 * that are only relevant for ELC force corrections, since the
937 * GPU implementation uses CPU kernels to compute energies.
938 */
939template <typename FloatType, Arch Architecture>
941 if constexpr (Architecture == Arch::GPU) {
942 auto &system = get_system();
943 if (has_actor_of_type<ElectrostaticLayerCorrection>(
944 system.coulomb.impl->solver)) {
945 init_cpu_kernels();
946 }
947 p3m_gpu_init(m_gpu_data, p3m.params.cao, p3m.params.mesh, p3m.params.alpha,
948 system.box_geo->length(), system.gpu.n_particles());
949 }
950}
951
952template <typename FloatType, Arch Architecture>
954 if constexpr (Architecture == Arch::GPU) {
955 auto &gpu_particle_data = get_system().gpu;
957 gpu_particle_data.enable_property(GpuParticleData::prop::q);
958 gpu_particle_data.enable_property(GpuParticleData::prop::pos);
959 }
960}
961#endif // CUDA
962
967
968#endif // P3M
@ HYBRID
Hybrid decomposition.
@ REGULAR
Regular decomposition.
@ INTEG_METHOD_NPT_ISO
Vector implementation and trait types for boost qvm interoperability.
TuningAlgorithm::Parameters get_time() override
Definition p3m.cpp:755
P3MParameters & get_params() override
Definition p3m.cpp:604
std::optional< std::string > fft_decomposition_veto(Utils::Vector3i const &mesh_size_r_space) const override
Definition p3m.cpp:639
std::tuple< double, double, double, double > calculate_accuracy(Utils::Vector3i const &mesh, int cao, double r_cut_iL) const override
Definition p3m.cpp:672
CoulombTuningAlgorithm(System::System &system, auto &input_p3m, double prefactor, int timings, decltype(m_tune_limits) tune_limits)
Definition p3m.cpp:607
void setup_logger(bool verbose) override
Definition p3m.cpp:615
void on_solver_change() const override
Definition p3m.cpp:613
std::optional< std::string > layer_correction_veto_r_cut(double r_cut) const override
Definition p3m.cpp:631
void determine_mesh_limits() override
Definition p3m.cpp:712
void enable_property(std::size_t property)
std::size_t n_particles() const
A range of particles.
Main system class.
std::shared_ptr< LocalBox > local_geo
GpuParticleData gpu
std::shared_ptr< Propagation > propagation
std::shared_ptr< CellStructure > cell_structure
Coulomb::Solver coulomb
std::shared_ptr< BoxGeometry > box_geo
Tuning algorithm for P3M.
System::System & m_system
void determine_cao_limits(int initial_cao)
Determine a sensible range for the charge assignment order.
void determine_r_cut_limits()
Determine a sensible range for the real-space cutoff.
std::unique_ptr< TuningLogger > m_logger
T norm() const
Definition Vector.hpp:138
static DEVICE_QUALIFIER constexpr Vector< T, N > broadcast(typename Base::value_type const &value)
Create a vector that has all entries set to the same value.
Definition Vector.hpp:110
Cache for interpolation weights.
void store(const InterpolationWeights< cao > &w)
Push back weights for one point.
Communicator communicator
boost::mpi::communicator comm_cart
The communicator.
int this_node
The number of this node.
This file contains the defaults for ESPResSo.
#define ROUND_ERROR_PREC
Precision for capture of round off errors.
Definition config.hpp:66
#define P3M_BRILLOUIN
P3M: Number of Brillouin zones taken into account in the calculation of the optimal influence functio...
Definition config.hpp:53
void charge_assign(elc_data const &elc, CoulombP3M &solver, combined_ranges const &p_q_pos_range)
Definition elc.cpp:1111
ELC algorithm for long-range Coulomb interactions.
This file contains the errorhandling code for severe errors, like a broken bond or illegal parameter ...
Routines, row decomposition, data structures and communication for the 3D-FFT.
and std::invocable< Projector, unsigned, int > void for_each_3d(detail::IndexVectorConcept auto &&start, detail::IndexVectorConcept auto &&stop, detail::IndexVectorConcept auto &&counters, Kernel &&kernel, Projector &&projector=detail::noop_projector)
Repeat an operation on every element of a 3D grid.
void p3m_interpolate(P3MLocalMesh const &local_mesh, InterpolationWeights< cao > const &weights, Kernel kernel)
P3M grid interpolation.
auto charge_range(ParticleRange const &particles)
auto pos_range(ParticleRange const &particles)
auto force_range(ParticleRange const &particles)
auto unfolded_pos_range(ParticleRange const &particles, BoxGeometry const &box)
T product(Vector< T, N > const &v)
Definition Vector.hpp:374
VectorXd< 3 > Vector3d
Definition Vector.hpp:164
DEVICE_QUALIFIER constexpr T sqr(T x)
Calculates the SQuaRe of x.
Definition sqr.hpp:28
DEVICE_QUALIFIER auto sinc(T x)
Calculate the function .
Definition math.hpp:53
auto get_analytic_cotangent_sum_kernel(int cao)
Definition math.hpp:128
void npt_add_virial_contribution(double energy)
Definition npt.cpp:141
Exports for the NpT code.
auto constexpr P3M_EPSILON_METALLIC
This value indicates metallic boundary conditions.
static auto p3m_tune_aliasing_sums(Utils::Vector3i const &shift, Utils::Vector3i const &mesh, Utils::Vector3d const &mesh_i, int cao, double alpha_L_i)
Aliasing sum used by p3m_k_space_error.
Definition p3m.cpp:147
static double p3m_k_space_error(double pref, Utils::Vector3i const &mesh, int cao, int n_c_part, double sum_q2, double alpha_L, Utils::Vector3d const &box_l)
Calculate the analytic expression of the error estimate for the P3M method in (eq.
Definition p3m.cpp:209
static double p3m_real_space_error(double pref, double r_cut_iL, int n_c_part, double sum_q2, double alpha_L, Utils::Vector3d const &box_l)
Calculate the real space contribution to the rms error in the force (as described by Kolafa and Perra...
Definition p3m.cpp:188
static auto calc_dipole_moment(boost::mpi::communicator const &comm, combined_ranges const &p_q_unfolded_pos_range)
Definition p3m.cpp:377
P3M algorithm for long-range Coulomb interaction.
void p3m_gpu_add_farfield_force(P3MGpuParams &data, GpuParticleData &gpu, double prefactor, std::size_t n_part)
The long-range part of the P3M algorithm.
void p3m_gpu_init(std::shared_ptr< P3MGpuParams > &data, int cao, Utils::Vector3i const &mesh, double alpha, Utils::Vector3d const &box_l, std::size_t n_part)
Initialize the internal data structure of the P3M GPU.
P3M electrostatics on GPU.
double p3m_k_space_error_gpu(double prefactor, const int *mesh, int cao, int npart, double sum_q2, double alpha_L, const double *box)
void operator()(auto &p3m, double force_prefac, combined_ranges const &p_q_force_range) const
Definition p3m.cpp:347
Utils::Vector3i node_grid
void charge_assign(ParticleRange const &particles) override
Definition p3m.cpp:322
void tune() override
Definition p3m.cpp:804
void assign_charge(double q, Utils::Vector3d const &real_pos, bool skip_cache) override
Definition p3m.cpp:334
void calc_influence_function_energy() override
Calculate the influence function optimized for the energy and the self energy correction.
Definition p3m.cpp:139
void scaleby_box_l() override
Definition p3m.cpp:902
void calc_influence_function_force() override
Calculate the optimal influence function of .
Definition p3m.cpp:128
Utils::Vector9d long_range_pressure(ParticleRange const &particles) override
Definition p3m.cpp:395
void init_cpu_kernels()
Definition p3m.cpp:247
void count_charged_particles() override
Definition p3m.cpp:99
double long_range_kernel(bool force_flag, bool energy_flag, ParticleRange const &particles)
Compute the k-space part of forces and energies.
Definition p3m.cpp:453
void request_gpu() const
Definition p3m.cpp:953
void init_gpu_kernels()
Definition p3m.cpp:940
void add_long_range_forces_gpu(ParticleRange const &particles)
Definition p3m.cpp:915
void sanity_checks_periodicity() const
Definition p3m.cpp:870
void sanity_checks_boxl() const
Checks for correctness of the k-space cutoff.
Definition p3m.cpp:839
void sanity_checks_cell_structure() const
Definition p3m.cpp:878
P3MParameters const & p3m_params
Definition p3m.hpp:56
void sanity_checks_node_grid() const
Definition p3m.cpp:893
std::unique_ptr< Implementation > impl
Pointer-to-implementation.
static constexpr std::size_t force
static constexpr std::size_t pos
static constexpr std::size_t q
Interpolation weights for one point.
void recalc_ld_pos(P3MParameters const &params)
Recalculate quantities derived from the mesh and box length: ld_pos (position of the left down mesh).
Structure to hold P3M parameters and some dependent variables.
Utils::Vector3d cao_cut
cutoff for charge assignment.
double alpha
unscaled alpha_L for use with fast inline functions only
double r_cut_iL
cutoff radius for real space electrostatics (>0), rescaled to r_cut_iL = r_cut * box_l_i.
int cao
charge assignment order ([0,7]).
double accuracy
accuracy of the actual parameter set.
double alpha_L
Ewald splitting parameter (0.
double r_cut
unscaled r_cut_iL for use with fast inline functions only
void recalc_a_ai_cao_cut(Utils::Vector3d const &box_l)
Recalculate quantities derived from the mesh and box length: a, ai and cao_cut.
bool tuning
tuning or production?
Utils::Vector3i mesh
number of mesh points per coordinate direction (>0), in real space.
double epsilon
epsilon of the "surrounding dielectric".
DEVICE_QUALIFIER constexpr pointer data() noexcept
Definition Array.hpp:120
void operator()(auto &p3m, double q, Utils::Vector3d const &real_pos, p3m_interpolation_cache &inter_weights)
Definition p3m.cpp:294
void operator()(auto &p3m, double q, Utils::Vector3d const &real_pos, InterpolationWeights< cao > const &w)
Definition p3m.cpp:285
void operator()(auto &p3m, combined_ranges const &p_q_pos_range)
Definition p3m.cpp:309
void operator()(auto &p3m, double q, Utils::Vector3d const &real_pos)
Definition p3m.cpp:302
double sum_q2
Sum of square of charges (only on head node).
Definition p3m.impl.hpp:51
int sum_qpart
number of charged particles (only on head node).
Definition p3m.impl.hpp:49
P3MLocalMesh local_mesh
Local mesh properties.
P3MParameters params
P3M base parameters.
std::unique_ptr< FFTBackend< FloatType > > fft
FFT algorithm.
P3MFFTMesh< FloatType > mesh
Local mesh FFT buffers.