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https://codeberg.org/vcbferreira/NuFI_deal.ii
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corrected results output, E is 0 all the time everywhere??
This commit is contained in:
Vasco C. B. Ferreira
@@ -0,0 +1,257 @@
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#ifndef POISSON_NON_PERIODIC_HPP
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#define POISSON_NON_PERIODIC_HPP
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#include "parameters.hpp"
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#include <deal.II/base/point.h>
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#include <deal.II/grid/tria.h>
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#include <deal.II/dofs/dof_handler.h>
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#include <deal.II/grid/grid_generator.h>
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#include <deal.II/fe/fe_q.h>
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#include <deal.II/dofs/dof_tools.h>
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#include <deal.II/fe/fe_values.h>
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#include <deal.II/base/quadrature_lib.h>
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#include <deal.II/base/function.h>
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#include <deal.II/numerics/vector_tools.h>
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#include <deal.II/numerics/matrix_tools.h>
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#include <deal.II/lac/vector.h>
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#include <deal.II/lac/full_matrix.h>
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#include <deal.II/lac/sparse_matrix.h>
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#include <deal.II/lac/dynamic_sparsity_pattern.h>
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#include <deal.II/lac/solver_cg.h>
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#include <deal.II/lac/precondition.h>
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#include <deal.II/numerics/data_out.h>
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#include <fstream>
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#include <iostream>
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using namespace dealii;
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template<int dim>
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class Poisson_non_periodic
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{
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public:
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Poisson_non_periodic ();
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void run();
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void initialize();
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void solve_step();
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void set_rhs_function(std::unique_ptr<Function<dim>> rhs_function);
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const Vector<double> &get_solution() const { return solution; }
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const DoFHandler<dim> &get_dof_handler() const { return dof_handler; }
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std::vector<double> sample_electric_field(const Poisson_non_periodic<dim> &problem, // sampling to save as spline
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unsigned int Nx,
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double x_min,
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double x_max);
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void output_results(unsigned int n);
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private:
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void make_grid();
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void setup_system();
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void assemble_system();
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void solve();
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void output_results() const;
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Triangulation<1> triangulation;
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const FE_Q<1> fe;
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DoFHandler<1> dof_handler;
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SparsityPattern sparsity_pattern;
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SparseMatrix<double> system_matrix;
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Vector<double> solution;
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Vector<double> system_rhs;
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std::unique_ptr<const Function<dim>> rhs_function;
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};
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template<int dim>
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Poisson_non_periodic<dim>::Poisson_non_periodic()
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: fe(/* polynomial degree = */ 1)
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, dof_handler(triangulation)
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{}
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template <int dim>
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void Poisson_non_periodic<dim>::set_rhs_function(std::unique_ptr<Function<dim>> rhs)
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{
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rhs_function = std::move(rhs);
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}
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template<int dim>
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void Poisson_non_periodic<dim>::make_grid()
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{
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Point<dim, double> x0 = Parameters::X_DOMAIN_RIGHT;
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Point<dim, double> x1 = Parameters::X_DOMAIN_RIGHT;
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GridGenerator::hyper_rectangle(triangulation, x0, x1);
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triangulation.refine_global(Parameters::GLOBAL_REFINEMENT);
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std::cout << "Number of active cells: " << triangulation.n_active_cells()
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<< std::endl;
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}
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template<int dim>
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void Poisson_non_periodic<dim>::setup_system()
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{
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dof_handler.distribute_dofs(fe);
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std::cout << "Number of degrees of freedom: " << dof_handler.n_dofs()
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<< std::endl;
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DynamicSparsityPattern dsp(dof_handler.n_dofs());
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DoFTools::make_sparsity_pattern(dof_handler, dsp);
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sparsity_pattern.copy_from(dsp);
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system_matrix.reinit(sparsity_pattern);
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solution.reinit(dof_handler.n_dofs());
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system_rhs.reinit(dof_handler.n_dofs());
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}
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template<int dim>
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void Poisson_non_periodic<dim>::assemble_system()
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{
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const QGauss<1> quadrature_formula(fe.degree + 1);
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FEValues<1> fe_values(fe,
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quadrature_formula,
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update_values | update_gradients | update_JxW_values);
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const unsigned int dofs_per_cell = fe.n_dofs_per_cell();
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FullMatrix<double> cell_matrix(dofs_per_cell, dofs_per_cell);
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Vector<double> cell_rhs(dofs_per_cell);
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std::vector<types::global_dof_index> local_dof_indices(dofs_per_cell);
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for (const auto &cell : dof_handler.active_cell_iterators())
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{
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fe_values.reinit(cell);
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cell_matrix = 0;
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cell_rhs = 0;
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for (const unsigned int q_index : fe_values.quadrature_point_indices())
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{
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const double rho = rhs_function->value(fe_values.quadrature_point(q_index));
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for (const unsigned int i : fe_values.dof_indices())
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for (const unsigned int j : fe_values.dof_indices())
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cell_matrix(i, j) +=
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(fe_values.shape_grad(i, q_index) * // grad phi_i(x_q)
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fe_values.shape_grad(j, q_index) * // grad phi_j(x_q)
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fe_values.JxW(q_index)); // dx
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for (const unsigned int i : fe_values.dof_indices())
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cell_rhs(i) += (fe_values.shape_value(i, q_index) * // phi_i(x_q)
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rho * // f(x_q)
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fe_values.JxW(q_index)); // dx
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}
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cell->get_dof_indices(local_dof_indices);
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for (const unsigned int i : fe_values.dof_indices())
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for (const unsigned int j : fe_values.dof_indices())
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system_matrix.add(local_dof_indices[i],
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local_dof_indices[j],
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cell_matrix(i, j));
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for (const unsigned int i : fe_values.dof_indices())
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system_rhs(local_dof_indices[i]) += cell_rhs(i);
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}
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std::map<types::global_dof_index, double> boundary_values;
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VectorTools::interpolate_boundary_values(dof_handler,
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types::boundary_id(0),
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Functions::ZeroFunction<1>(),
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boundary_values);
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MatrixTools::apply_boundary_values(boundary_values,
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system_matrix,
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solution,
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system_rhs);
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}
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template<int dim>
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void Poisson_non_periodic<dim>::solve()
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{
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SolverControl solver_control(1000, 1e-6 * system_rhs.l2_norm());
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SolverCG<Vector<double>> solver(solver_control);
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solver.solve(system_matrix, solution, system_rhs, PreconditionIdentity());
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std::cout << solver_control.last_step()
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<< " CG iterations needed to obtain convergence." << std::endl;
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}
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template <int dim>
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void Poisson_non_periodic<dim>::output_results(unsigned int n)
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{
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// --- extract DoF coordinates ---
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std::vector<Point<dim>> support_points(dof_handler.n_dofs());
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Vector<double> x_coordinate(dof_handler.n_dofs());
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for (unsigned int i = 0; i < support_points.size(); ++i)
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x_coordinate[i] = support_points[i][0]; // x-component in 1D
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//---- Output density ----
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ChargeDensity<dim> rho(Parameters::EPS, Parameters::WAVE_NR, Parameters::NV);
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DataOut<dim> data_out_rho;
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data_out_rho.attach_dof_handler(dof_handler);
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Vector<double> density(solution.size());
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VectorTools::interpolate(dof_handler, rho, density);
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data_out_rho.add_data_vector(density, "density");
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data_out_rho.add_data_vector(x_coordinate, "x_coordinate");
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data_out_rho.build_patches();
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std::ofstream out1("results/density_" + std::to_string(n) + ".vtk");
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data_out_rho.write_vtk(out1);
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//---- Output electric field & potential ----
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DataOut<dim> data_out_E;
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data_out_E.attach_dof_handler(dof_handler);
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ElectricFieldPostprocessor<dim> electric_field;
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Vector<double> dummy(solution.size() * dim);
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data_out_E.add_data_vector(solution, "potential");
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data_out_E.add_data_vector(solution, electric_field);
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data_out_E.add_data_vector(x_coordinate, "x_coordinate");
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data_out_E.build_patches();
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std::ofstream out2("results/electric_field_"+ std::to_string(n)+".vtk");
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data_out_E.write_vtk(out2);
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}
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template <int dim>
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void Poisson_non_periodic<dim>::initialize()
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{
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make_mesh(); // build grid
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setup_system(); // distribute DoFs and matrices
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}
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template <int dim>
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void Poisson_non_periodic<dim>::solve_step()
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{
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assemble_system();
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solve();
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}
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#endif
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