29#include <polysolve/linear/FEMSolver.hpp>
30#include <polysolve/nonlinear/Solver.hpp>
34 using namespace varform::internal;
38 const Eigen::MatrixXd &solution,
48 Eigen::MatrixXd &solution)
54 mesh_->dimension(), 0, solution);
93 const bool is_time_dependent =
args.contains(
"time") && !
args[
"time"].is_null();
94 const json &discr_orders =
args.at(
"space").at(
"discr_order");
96 const json &materials =
args.at(
"materials");
97 if (materials.is_array() && materials.empty())
99 const json &first_material = materials.is_array() ? materials.at(0) : materials;
105 if (discr_orders.is_array())
107 bool has_velocity_space =
false;
108 bool has_pressure_space =
false;
109 for (
const json &entry : discr_orders)
111 const int fe_space_id = entry.at(
"fe_space").get<
int>();
115 if (!has_velocity_space || !has_pressure_space)
116 log_and_throw_error(
"Fluid discretization-order lists must explicitly name the velocity and pressure FE spaces.");
119 if (materials.is_array())
121 for (
const json &material : materials)
125 log_and_throw_error(
"All fluid materials must use the same velocity and pressure FE space IDs.");
135 if (!
args.contains(
"preset_problem"))
137 problem = std::make_shared<assembler::GenericTensorProblem>(
"GenericTensor");
141 tmp[
"is_time_dependent"] = is_time_dependent;
144 auto bc =
args[
"boundary_conditions"];
151 if (
args[
"preset_problem"][
"type"] ==
"Kernel")
166 t0 = is_time_dependent ?
args[
"time"][
"t0"].get<
double>() : 0.0;
167 time_steps = is_time_dependent ?
args[
"time"][
"time_steps"].get<
int>() : 0;
168 dt = is_time_dependent ?
args[
"time"][
"dt"].get<
double>() : 0.0;
177 logger().error(
"Load the mesh first!");
180 if (solution.size() <= 0)
182 logger().error(
"Solve the problem first!");
186 logger().info(
"Saving json...");
188 const Eigen::MatrixXd stats_solution =
189 solution.rows() >= primary_size
190 ? solution.topRows(primary_size).eval()
198 args[
"output"][
"advanced"][
"sol_at_node"], j);
199 out << j.dump(4) << std::endl;
207 for (
int e = 0; e < output_orders.size(); ++e)
209 if (
mesh_->is_prism(e))
229 if (!
args[
"output"][
"advanced"][
"compute_error"])
233 if (!
args[
"time"].is_null())
234 tend =
args[
"time"][
"tend"];
236 Eigen::MatrixXd velocity, pressure;
247 logger().error(
"Load the mesh first!");
250 if (solution.size() <= 0)
252 logger().error(
"Solve the problem first!");
259 const bool has_time =
args.contains(
"time") && !
args[
"time"].is_null();
260 double tend = has_time ?
args[
"time"][
"tend"].get<
double>() : 1.0;
274 Eigen::MatrixXd velocity, pressure;
278 if (!solution_path.empty())
280 const int primary_rows = std::min<int>(velocity.rows(),
primary_ndof());
281 const Eigen::MatrixXd primary_solution = velocity.topRows(primary_rows);
285 Eigen::MatrixXd reordered = Eigen::MatrixXd::Zero(nodal_solution.rows(), nodal_solution.cols());
289 if (node >= 0 && node < nodal_solution.rows() && input_node < reordered.rows())
290 reordered.row(input_node) = nodal_solution.row(node);
301 if (!nodes_path.empty())
306 for (
const auto &global : basis.global())
307 nodes.row(global.index) = global.node;
315 Eigen::MatrixXd stress;
316 Eigen::VectorXd mises;
321 if (!stress_path.empty())
323 if (!mises_path.empty())
358 json rhs_solver_params =
args[
"solver"][
"linear"];
359 if (!rhs_solver_params.contains(
"Pardiso"))
360 rhs_solver_params[
"Pardiso"] = {};
361 rhs_solver_params[
"Pardiso"][
"mtype"] = -2;
368 args[
"space"][
"advanced"][
"bc_method"],
380 Eigen::VectorXi space_disc_orders, space_disc_ordersq;
383 if (
args[
"space"][
"use_p_ref"])
387 args[
"space"][
"advanced"][
"B"],
388 args[
"space"][
"advanced"][
"h1_formula"],
389 args[
"space"][
"discr_order"],
390 args[
"space"][
"advanced"][
"discr_order_max"],
394 logger().info(
"min p: {} max p: {}", space_disc_orders.minCoeff(), space_disc_orders.maxCoeff());
402 args[
"space"][
"basis_type"],
403 args[
"space"][
"poly_basis_type"],
406 args[
"space"][
"advanced"][
"quadrature_order"],
407 args[
"space"][
"advanced"][
"mass_quadrature_order"],
408 args[
"space"][
"advanced"][
"use_corner_quadrature"],
409 args[
"space"][
"advanced"][
"n_harmonic_samples"],
410 args[
"space"][
"advanced"][
"integral_constraints"],
418 if (
args[
"space"][
"advanced"][
"count_flipped_els"])
421 const int n_samples = 10;
434 igl::Timer cache_timer;
436 logger().info(
"Building cache...");
440 logger().info(
" took {}s", cache_timer.getElapsedTime());
451 const int prev_b_size = int(all_boundary.size());
452 const bool use_corner_quadrature =
args[
"space"][
"advanced"][
"use_corner_quadrature"];
453 const int quadrature_order =
args[
"space"][
"advanced"][
"quadrature_order"].get<
int>();
454 const int mass_quadrature_order =
args[
"space"][
"advanced"][
"mass_quadrature_order"].get<
int>();
455 Eigen::VectorXi pressure_disc_orders, pressure_disc_ordersq;
458 const std::string pressure_basis_type =
args[
"space"][
"basis_type"].get<std::string>() ==
"Bernstein" ?
"Bernstein" :
"Lagrange";
462 pressure_disc_orders,
463 pressure_disc_ordersq,
465 args[
"space"][
"poly_basis_type"],
469 mass_quadrature_order,
470 use_corner_quadrature,
471 args[
"space"][
"advanced"][
"n_harmonic_samples"],
472 args[
"space"][
"advanced"][
"integral_constraints"],
486 for (
const auto &lb : all_boundary)
509 for (
int d = 0; d < mesh.
dimension(); ++d)
534 delta = (max - min) / 2. + min;
536 p_params[
"bbox_center"] = {delta(0), delta(1), delta(2)};
538 p_params[
"bbox_center"] = {delta(0), delta(1)};
545 logger().info(
"Assigning rhs...");
554 const int prev_size =
rhs_.rows();
561 if (!
problem->is_time_dependent())
573 logger().info(
"Assembling mass mat...");
580 std::vector<Eigen::Triplet<double>> blocks;
581 blocks.reserve(velocity_mass.nonZeros());
582 for (
int k = 0; k < velocity_mass.outerSize(); ++k)
583 for (StiffnessMatrix::InnerIterator it(velocity_mass, k); it; ++it)
584 blocks.emplace_back(it.row(), it.col(), it.value());
587 mass_.setFromTriplets(blocks.begin(), blocks.end());
588 mass_.makeCompressed();
591 for (
int k = 0; k < velocity_mass.outerSize(); ++k)
592 for (StiffnessMatrix::InnerIterator it(velocity_mass, k); it; ++it)
594 assert(it.col() == k);
597 avg_mass_ /= std::max(1,
int(velocity_mass.rows()));
600 if (
args[
"solver"][
"advanced"][
"lump_mass_matrix"])
618 if (
problem->is_time_dependent())
622 sol.resize(
rhs_.size(), 1);
627 sol.conservativeResize(Eigen::NoChange, 1);
634 const int cols = std::max(1,
int(stacked.cols()));
638 const int primary_rows = std::min(
primary_ndof(),
int(stacked.rows()));
639 if (primary_rows > 0)
640 primary.topRows(primary_rows) = stacked.topRows(primary_rows);
645 if (pressure_rows > 0)
646 pressure.topRows(pressure_rows) = stacked.middleRows(
primary_ndof(), pressure_rows);
654 logger().info(
"Assembling stiffness mat...");
656 StiffnessMatrix velocity_stiffness, mixed_stiffness, pressure_stiffness;
663 velocity_stiffness, mixed_stiffness, pressure_stiffness, stiffness);
671 stats.
mat_size = (
long long)stiffness.rows() * (
long long)stiffness.cols();
678 const std::unique_ptr<polysolve::linear::Solver> &solver,
681 const bool compute_spectrum,
682 Eigen::MatrixXd &sol)
692 args[
"output"][
"data"][
"stiffness_mat"],
700 const double error = (A *
x - b).norm();
702 logger().error(
"Solver error: {}", error);
704 logger().debug(
"Solver error: {}", error);
709 const Eigen::MatrixXd &solution,
712 std::vector<io::OutputField> fields;
716 Eigen::MatrixXd velocity, pressure;
719 const int field_dim =
mesh_->dimension();
722 const bool export_solution_gradient =
724 const bool export_pressure_gradient =
727 const auto resize_to_output_rows = [&](Eigen::MatrixXd &values) {
728 if (output_rows <= values.rows())
731 const int previous_rows = values.rows();
732 values.conservativeResize(output_rows, values.cols());
733 values.bottomRows(output_rows - previous_rows).setZero();
736 const auto sample_vector_field = [&](
const Eigen::MatrixXd &dof_values, Eigen::MatrixXd &values, Eigen::MatrixXd *gradients =
nullptr) ->
bool {
737 if (dof_values.size() <= 0 || field_dim <= 0)
740 if (has_element_samples)
750 values.row(i).setZero();
752 gradients->row(i).setZero();
756 Eigen::MatrixXd local_sol, local_grad;
759 element_id, sample.
local_points.row(i), dof_values, local_sol, local_grad);
761 for (
int d = 0; d < field_dim; ++d)
762 values(i, d) = local_sol(d);
764 gradients->row(i) = local_grad;
767 resize_to_output_rows(values);
769 resize_to_output_rows(*gradients);
775 values.resize(sample.
node_ids.size(), field_dim);
776 for (
int i = 0; i < sample.
node_ids.size(); ++i)
778 const int node_id = sample.
node_ids(i);
779 for (
int d = 0; d < field_dim; ++d)
781 const int dof = node_id * field_dim + d;
782 if (dof < 0 || dof >= dof_values.rows())
784 values(i, d) = dof_values(dof);
787 return sample.
points.rows() == 0 || sample.
points.rows() == values.rows();
793 Eigen::MatrixXd velocity_values, velocity_gradients;
794 const bool sampled_velocity = sample_vector_field(
795 velocity, velocity_values,
796 export_solution_gradient ? &velocity_gradients :
nullptr);
797 if (sampled_velocity && options.
export_field(
"velocity"))
801 if (sampled_velocity && export_solution_gradient)
804 if (mesh_ && (options.export_field(
"pressure") || export_pressure_gradient))
806 Eigen::MatrixXd values, gradients;
808 *mesh_, pressure_space_.basis_list(),
space_.geometry_basis_list(), sample, pressure, values,
809 export_pressure_gradient ? &gradients : nullptr))
811 if (options.export_field(
"pressure"))
813 if (export_pressure_gradient)
818 const auto ¶view_options =
args[
"output"][
"paraview"][
"options"];
819 if (paraview_options[
"material"] && has_element_samples)
821 const auto ¶ms = primary_assembler_->parameters();
822 std::map<std::string, Eigen::MatrixXd> param_values;
823 for (
const auto &[p, _] : params)
824 param_values[p].setZero(output_rows, 1);
826 Eigen::MatrixXd rhos = Eigen::MatrixXd::Zero(output_rows, 1);
827 const auto &density = mass_assembler_->density();
828 for (
int i = 0; i < sample.local_points.rows(); ++i)
830 const int element_id = sample.element_ids(i);
834 for (
const auto &[p, func] : params)
835 param_values.at(p)(i) =
func(sample.local_points.row(i), sample.
points.row(i), sample.time, element_id);
836 rhos(i) = density(sample.local_points.row(i), sample.points.row(i), sample.time, element_id);
839 for (
const auto &[name, values] : param_values)
840 if (options.export_field(name))
842 if (options.export_field(
"rho"))
846 if (paraview_options[
"body_ids"] && options.export_field(
"body_ids") && has_element_samples)
848 Eigen::MatrixXd ids = Eigen::MatrixXd::Zero(output_rows, 1);
849 for (
int i = 0; i < sample.element_ids.size(); ++i)
851 const int element_id = sample.element_ids(i);
853 ids(i) = mesh_->get_body_id(element_id);
861 void StokesVarForm::solve_static_linear(Eigen::MatrixXd &sol)
863 auto solver = polysolve::linear::Solver::create(args[
"solver"][
"linear"],
logger());
864 logger().info(
"{}...", solver->name());
866 const int gdiscr_order = mesh_->orders().size() <= 0 ? 1 : mesh_->orders().maxCoeff();
867 const QuadratureOrders boundary_samples = n_boundary_samples(
space_.disc_orders.maxCoeff(),
space_.disc_ordersq.maxCoeff(), gdiscr_order);
868 rhs_assembler_->set_bc(
869 boundary_.local_boundary, boundary_.boundary_nodes, boundary_samples,
870 boundary_.local_neumann_boundary, rhs_);
873 build_stiffness_mat(A);
874 Eigen::VectorXd b = rhs_;
875 solve_linear_system(solver, A, b, args[
"output"][
"advanced"][
"spectrum"], sol);
878 void StokesVarForm::solve_transient_linear(Eigen::MatrixXd &sol)
880 auto solver = polysolve::linear::Solver::create(args[
"solver"][
"linear"],
logger());
881 logger().info(
"{}...", solver->name());
883 Eigen::MatrixXd velocity, pressure;
884 split_solution(sol, velocity, pressure);
887 args[
"time"][
"integrator"]);
890 Eigen::MatrixXd::Zero(velocity.rows(), velocity.cols()),
891 Eigen::MatrixXd::Zero(velocity.rows(), velocity.cols()),
893 time_integrator = bdf;
894 restore_checkpoint_integrator(
895 time_integrator,
"/checkpoint/state/primary_integrator", dt,
896 "primary",
space_, mesh_->dimension());
898 save_timestep(t0, 0, t0, dt, sol);
900 Eigen::MatrixXd current_rhs = rhs_;
902 build_stiffness_mat(stiffness);
904 const int gdiscr_order = mesh_->orders().size() <= 0 ? 1 : mesh_->orders().maxCoeff();
905 const QuadratureOrders boundary_samples = n_boundary_samples(
space_.disc_orders.maxCoeff(),
space_.disc_ordersq.maxCoeff(), gdiscr_order);
907 for (
int t = 1; t <= time_steps; ++t)
909 const double time = t0 + t * dt;
910 rhs_assembler_->compute_energy_grad(
911 boundary_.local_boundary, boundary_.boundary_nodes, mass_assembler_->density(), boundary_samples, boundary_.local_neumann_boundary, rhs_, time,
913 rhs_assembler_->set_bc(
914 boundary_.local_boundary, boundary_.boundary_nodes, boundary_samples, boundary_.local_neumann_boundary, current_rhs, velocity, time);
916 if (current_rhs.rows() != stacked_ndof())
918 const int old_rows = current_rhs.rows();
919 current_rhs.conservativeResize(stacked_ndof(), current_rhs.cols());
920 if (stacked_ndof() > old_rows)
921 current_rhs.bottomRows(stacked_ndof() - old_rows).setZero();
923 current_rhs.bottomRows(pressure_block_size()).setZero();
926 Eigen::VectorXd b = Eigen::VectorXd::Zero(stacked_ndof());
927 b.head(primary_ndof()) = (mass_ * bdf->weighted_sum_x_prevs()) / bdf->beta_dt();
928 for (
int i : boundary_.boundary_nodes)
932 solve_linear_system(solver, A, b, args[
"output"][
"advanced"][
"spectrum"].get<bool>() && t == time_steps, sol);
933 split_solution(sol, velocity, pressure);
934 bdf->update_quantities(velocity.col(0));
936 save_timestep(time, t, t0, dt, sol);
937 save_step_state(t0, dt, t, sol, time_integrator.get());
938 logger().info(
"{}/{} t={}", t, time_steps, time);
939 notify_time_step(t, time_steps, t0, dt);
943 void StokesVarForm::solve_problem(
944 Eigen::MatrixXd &sol,
948 assert(!initial_condition_override &&
"Stokes does not support initial-condition overrides");
949 assert(!post_step &&
"Stokes does not support post-step callbacks");
951 stats.spectrum.setZero();
954 logger().info(
"Solving {}", primary_assembler_->name());
956 prepare_initial_solution(sol);
957 if (problem->is_time_dependent())
958 solve_transient_linear(sol);
961 time_integrator =
nullptr;
962 solve_static_linear(sol);
966 timings.solving_time = timer.getElapsedTime();
967 logger().info(
" took {}s", timings.solving_time);
972 json residual_solver_params(
const json &input)
975 params[
"solver"] =
"Newton";
976 params[
"line_search"][
"method"] =
"ResidualBacktracking";
978 if (!params.contains(
"Newton") || params[
"Newton"].is_null())
979 params[
"Newton"] = json::object();
980 params[
"Newton"][
"force_psd_projection"] =
false;
981 params[
"Newton"][
"use_psd_projection"] =
true;
987 std::vector<Eigen::Triplet<double>>
entries;
988 entries.reserve(velocity_mass.nonZeros() + extra_size);
989 for (
int k = 0; k < velocity_mass.outerSize(); ++k)
990 for (StiffnessMatrix::InnerIterator it(velocity_mass, k); it; ++it)
991 entries.emplace_back(it.row(), it.col(), it.value());
992 for (
int i = 0; i < extra_size; ++i)
993 entries.emplace_back(velocity_mass.rows() + i, velocity_mass.cols() + i, 1.0);
996 velocity_mass.rows() + extra_size,
997 velocity_mass.cols() + extra_size);
999 result.makeCompressed();
1004 void NavierStokesVarForm::build_forms(Eigen::MatrixXd &sol,
const double t)
1006 assert(sol.rows() == stacked_ndof());
1007 assert(sol.cols() == 1);
1009 auto stokes_assembler = std::make_shared<assembler::StokesVelocity>();
1010 set_materials(*stokes_assembler, mesh_->dimension());
1012 assert(navier_stokes_assembler);
1014 stacked_form_ = std::make_shared<solver::StackedForm>();
1015 const auto velocity_block = stacked_form_->add_block(primary_ndof());
1016 const auto pressure_block = stacked_form_->add_block(pressure_space_.n_bases);
1018 navier_stokes_form_ = std::make_shared<solver::NavierStokesForm>(
1020 stokes_assembler, *navier_stokes_assembler, ass_vals_cache_, t, mesh_->is_volume());
1021 stacked_form_->add(velocity_block, navier_stokes_form_);
1023 velocity_rhs_ = rhs_.topRows(primary_ndof());
1024 const int gdiscr_order = mesh_->orders().size() <= 0 ? 1 : mesh_->orders().maxCoeff();
1025 const QuadratureOrders boundary_samples = n_boundary_samples(
space_.disc_orders.maxCoeff(),
space_.disc_ordersq.maxCoeff(), gdiscr_order);
1026 body_form_ = std::make_shared<solver::BodyForm>(
1028 boundary_.boundary_nodes, boundary_.local_boundary,
1029 boundary_.local_neumann_boundary, boundary_samples,
1030 velocity_rhs_, *rhs_assembler_, mass_assembler_->density(),
1031 false, problem->is_time_dependent());
1032 body_form_->update_quantities(t, sol.topRows(primary_ndof()));
1033 stacked_form_->add(velocity_block, body_form_);
1035 mixed_form_ = std::make_shared<solver::MixedLinearForm>(
1036 space_.n_bases, pressure_space_.n_bases,
1037 space_.basis_list(), pressure_space_.basis_list(),
space_.geometry_basis_list(),
1038 *mixed_assembler_, ass_vals_cache_, pressure_ass_vals_cache_, t, mesh_->is_volume());
1039 stacked_form_->add(velocity_block, pressure_block, mixed_form_);
1041 if (use_avg_pressure)
1043 const auto average_block = stacked_form_->add_block(1);
1044 average_pressure_form_ = std::make_shared<solver::AveragePressureForm>(pressure_space_.n_bases);
1045 stacked_form_->add(pressure_block, average_block, average_pressure_form_);
1048 average_pressure_form_ =
nullptr;
1050 inertia_form_ =
nullptr;
1051 if (problem->is_time_dependent())
1053 assert(time_integrator);
1054 inertia_form_ = std::make_shared<solver::InertiaForm>(mass_, *time_integrator);
1055 if (!boundary_.boundary_nodes.empty())
1057 inertia_form_->set_x_tilde_updater(
1058 [
this, boundary_samples](
1060 const Eigen::VectorXd &,
1061 Eigen::VectorXd &target) {
1062 Eigen::MatrixXd projected_target = target;
1063 const std::vector<mesh::LocalBoundary> empty_neumann_boundary;
1064 rhs_assembler_->set_bc(
1065 boundary_.local_boundary, boundary_.boundary_nodes,
1066 boundary_samples, empty_neumann_boundary,
1067 projected_target, Eigen::MatrixXd(), time);
1068 assert(projected_target.cols() == 1);
1069 target = projected_target.col(0);
1072 stacked_form_->add(velocity_block, inertia_form_);
1073 update_transient_form_weights();
1076 forms_ = {stacked_form_};
1077 for (
const auto &form : forms_)
1078 form->set_output_dir(output_path);
1081 if (!boundary_.boundary_nodes.empty())
1083 auto stacked_al = std::make_shared<solver::StackedAugmentedLagrangianForm>();
1084 const auto velocity_al_block = stacked_al->add_block(primary_ndof());
1085 stacked_al->add_block(pressure_space_.n_bases);
1086 if (use_avg_pressure)
1087 stacked_al->add_block(1);
1090 std::make_shared<solver::BCLagrangianForm>(
1091 primary_ndof(), boundary_.boundary_nodes,
1092 boundary_.local_boundary, boundary_.local_neumann_boundary,
1093 boundary_samples, pure_mass_, *rhs_assembler_,
1094 0, problem->is_time_dependent(), t));
1095 al_forms_.push_back(stacked_al);
1098 const StiffnessMatrix residual_mass = append_identity_mass(pure_mass_, pressure_block_size());
1099 nl_problem_ = std::make_shared<solver::NLProblem>(
1100 stacked_ndof(), t, forms_, al_forms_,
1101 polysolve::linear::Solver::create(args[
"solver"][
"linear"],
logger()),
1102 units.characteristic_length(), 1,
1103 residual_mass, mesh_->dimension(),
true);
1104 nl_problem_->init(sol);
1105 nl_problem_->update_quantities(t, sol);
1106 stats.solver_info = json::array();
1109 void NavierStokesVarForm::update_transient_form_weights()
1111 assert(time_integrator);
1112 const double scaling = time_integrator->acceleration_scaling();
1113 navier_stokes_form_->set_weight(scaling);
1114 body_form_->set_weight(scaling);
1115 mixed_form_->set_row_weights(scaling, scaling);
1116 if (average_pressure_form_)
1117 average_pressure_form_->set_weight(scaling);
1120 void NavierStokesVarForm::solve_nonlinear_step(
const int step, Eigen::MatrixXd &sol)
1122 assert(nl_problem_);
1123 const json nonlinear_params = residual_solver_params(args[
"solver"][
"nonlinear"]);
1124 const json al_nonlinear_params = residual_solver_params(args[
"solver"][
"augmented_lagrangian"][
"nonlinear"]);
1125 std::shared_ptr<polysolve::nonlinear::Solver> nl_solver =
1126 polysolve::nonlinear::Solver::create(
1127 nonlinear_params, args[
"solver"][
"linear"], units.characteristic_length(),
logger());
1130 al_forms_, args[
"solver"][
"augmented_lagrangian"][
"initial_weight"],
1131 args[
"solver"][
"augmented_lagrangian"][
"scaling"],
1132 args[
"solver"][
"augmented_lagrangian"][
"max_weight"],
1133 args[
"solver"][
"augmented_lagrangian"][
"eta"],
1134 [](
const Eigen::VectorXd &) {});
1137 stats.solver_info.push_back(
1138 {{
"type", al_weight > 0 ?
"al" :
"rc"},
1140 {
"info", nl_solver->info()}});
1142 stats.solver_info.back()[
"weight"] = al_weight;
1143 save_subsolve(stats.solver_info.size(), step, sol);
1146 if (!al_forms_.empty())
1148 *nl_problem_, sol, al_nonlinear_params,
1149 args[
"solver"][
"linear"], units.characteristic_length(), nl_solver);
1150 al_solver.solve_reduced(
1151 *nl_problem_, sol, nonlinear_params,
1152 args[
"solver"][
"linear"], units.characteristic_length(), nl_solver);
1155 void NavierStokesVarForm::solve_problem(
1156 Eigen::MatrixXd &sol,
1160 assert(!initial_condition_override &&
"Navier-Stokes does not support initial-condition overrides");
1161 assert(!post_step &&
"Navier-Stokes does not support post-step callbacks");
1163 stats.spectrum.setZero();
1166 logger().info(
"Solving {}", primary_assembler_->name());
1168 prepare_initial_solution(sol);
1169 if (!problem->is_time_dependent())
1171 time_integrator =
nullptr;
1172 build_forms(sol, 1.0);
1173 solve_nonlinear_step(0, sol);
1177 Eigen::MatrixXd velocity, pressure;
1178 split_solution(sol, velocity, pressure);
1180 args[
"time"][
"integrator"],
1184 Eigen::MatrixXd::Zero(velocity.rows(), velocity.cols()),
1185 Eigen::MatrixXd::Zero(velocity.rows(), velocity.cols()), dt);
1186 time_integrator = bdf;
1187 restore_checkpoint_integrator(
1188 time_integrator,
"/checkpoint/state/primary_integrator", dt,
1189 "primary",
space_, mesh_->dimension());
1191 build_forms(sol, t0 + dt);
1192 save_timestep(t0, 0, t0, dt, sol);
1193 for (
int step = 1; step <= time_steps; ++step)
1195 const double time = t0 + step * dt;
1196 logger().info(
"{}/{} steps, dt={}s t={}s", step, time_steps, dt, time);
1197 solve_nonlinear_step(step, sol);
1199 split_solution(sol, velocity, pressure);
1200 time_integrator->update_quantities(velocity.col(0));
1201 update_transient_form_weights();
1202 nl_problem_->update_quantities(t0 + (step + 1) * dt, sol);
1204 save_timestep(time, step, t0, dt, sol);
1205 save_step_state(t0, dt, step, sol, time_integrator.get());
1206 notify_time_step(step, time_steps, t0, dt);
1211 timings.solving_time = timer.getElapsedTime();
1212 logger().info(
" took {}s", timings.solving_time);
std::vector< Eigen::Triplet< double > > entries
std::array< Matrix< int, 3, 3 >, 3 > space_
static std::shared_ptr< MixedAssembler > make_mixed_assembler(const std::string &formulation)
static std::string other_assembler_name(const std::string &formulation)
static void merge_mixed_matrices(const int n_bases, const int n_pressure_bases, const int problem_dim, const bool add_average, const StiffnessMatrix &velocity_stiffness, const StiffnessMatrix &mixed_stiffness, const StiffnessMatrix &pressure_stiffness, StiffnessMatrix &stiffness)
utility to merge 3 blocks of mixed matrices, A=velocity_stiffness, B=mixed_stiffness,...
static std::shared_ptr< Assembler > make_assembler(const std::string &formulation)
void init(const bool is_volume, const std::vector< basis::ElementBases > &bases, const std::vector< basis::ElementBases > &gbases, const bool is_mass=false)
computes the basis evaluation and geometric mapping for each of the given ElementBases in bases initi...
void init_empty(const bool is_mass=false)
initialize an empty cache.
Represents one basis function and its gradient.
Stores the basis functions for a given element in a mesh (facet in 2d, cell in 3d).
static void interpolate_at_local_vals(const mesh::Mesh &mesh, const bool is_problem_scalar, const std::vector< basis::ElementBases > &bases, const std::vector< basis::ElementBases > &gbases, const int el_index, const Eigen::MatrixXd &local_pts, const Eigen::MatrixXd &fun, Eigen::MatrixXd &result, Eigen::MatrixXd &result_grad)
interpolate solution and gradient at element (calls interpolate_at_local_vals with sol)
static void compute_stress_at_quadrature_points(const mesh::Mesh &mesh, const bool is_problem_scalar, const std::vector< basis::ElementBases > &bases, const std::vector< basis::ElementBases > &gbases, const Eigen::VectorXi &disc_orders, const Eigen::VectorXi &disc_ordersq, const assembler::Assembler &assembler, const Eigen::MatrixXd &fun, const double t, Eigen::MatrixXd &result, Eigen::VectorXd &von_mises)
compute von mises stress at quadrature points for the function fun, also compute the interpolated fun...
void export_data(const OutputSpace &space, const OutputFieldFunction &output_fields, const bool is_time_dependent, const double tend_in, const double dt, const ExportOptions &opts, const std::string &vis_mesh_path) const
exports everytihng, txt, vtu, etc
double assembling_stiffness_mat_time
time to assembly
double assigning_rhs_time
time to computing the rhs
double assembling_mass_mat_time
time to assembly mass
int n_flipped
number of flipped elements, compute only when using count_flipped_els (false by default)
json solver_info
information of the solver, eg num iteration, time, errors, etc the informations varies depending on t...
Eigen::Vector4d spectrum
spectrum of the stiffness matrix, enable only if POLYSOLVE_WITH_SPECTRA is ON (off by default)
void count_flipped_elements(const polyfem::mesh::Mesh &mesh, const std::vector< polyfem::basis::ElementBases > &gbases)
counts the number of flipped elements
void compute_errors(const int n_bases, const std::vector< polyfem::basis::ElementBases > &bases, const std::vector< polyfem::basis::ElementBases > &gbases, const polyfem::mesh::Mesh &mesh, const assembler::Problem &problem, const double tend, const Eigen::MatrixXd &sol)
compute errors
void compute_mesh_size(const polyfem::mesh::Mesh &mesh_in, const std::vector< polyfem::basis::ElementBases > &bases_in, const int n_samples, const bool use_curved_mesh_size)
computes the mesh size, it samples every edges n_samples times uses curved_mesh_size (false by defaul...
long long nn_zero
non zeros and sytem matrix size num dof is the total dof in the system
double mesh_size
max edge lenght
void save_json(const nlohmann::json &args, const int n_bases, const int n_pressure_bases, const Eigen::MatrixXd &sol, const mesh::Mesh &mesh, const Eigen::VectorXi &disc_orders, const Eigen::VectorXi &disc_ordersq, const assembler::Problem &problem, const OutRuntimeData &runtime, const std::string &formulation, const bool isoparametric, const int sol_at_node_id, nlohmann::json &j) const
saves the output statistic to a json object
Abstract mesh class to capture 2d/3d conforming and non-conforming meshes.
virtual void bounding_box(RowVectorNd &min, RowVectorNd &max) const =0
computes the bbox of the mesh
virtual bool is_volume() const =0
checks if mesh is volume
void update_nodes(const Eigen::VectorXi &in_node_to_node)
Update the node ids to reorder them.
int dimension() const
utily for dimension
static const ProblemFactory & factory()
std::shared_ptr< assembler::Problem > get_problem(const std::string &problem) const
static void p_refine(const mesh::Mesh &mesh, const double B, const bool h1_formula, const int base_p, const int discr_order_max, io::OutStatsData &stats, Eigen::VectorXi &disc_orders)
compute a priori prefinement
std::function< void(const double)> post_subsolve
static std::shared_ptr< BDF > construct_bdf_integrator(const json ¶ms, DynamicOrder dynamic_order=DynamicOrder::Second)
Construct a BDF integrator for algorithms using BDF-specific operations.
bool write_matrix(const std::string &path, const Mat &mat)
Writes a matrix to a file. Determines the file format based on the path's extension.
Eigen::SparseMatrix< double > lump_matrix(const Eigen::SparseMatrix< double > &M)
Lump each row of a matrix into the diagonal.
Eigen::MatrixXd unflatten(const Eigen::VectorXd &x, int dim)
Unflatten rowwises, so every dim elements in x become a row.
spdlog::logger & logger()
Retrieves the current logger.
std::array< int, 2 > QuadratureOrders
Eigen::Matrix< double, 1, Eigen::Dynamic, Eigen::RowMajor, 1, 3 > RowVectorNd
void log_and_throw_error(const std::string &msg)
Eigen::SparseMatrix< double, Eigen::ColMajor > StiffnessMatrix
bool export_field(const std::string &field) const
std::vector< std::string > fields
Eigen::VectorXi element_ids
Eigen::MatrixXd local_points