xref: /libCEED/examples/fluids/navierstokes.c (revision 6beac0efa77054b88d7ece2abf46f259be72ade1)
1 // Copyright (c) 2017-2022, Lawrence Livermore National Security, LLC and other CEED contributors.
2 // All Rights Reserved. See the top-level LICENSE and NOTICE files for details.
3 //
4 // SPDX-License-Identifier: BSD-2-Clause
5 //
6 // This file is part of CEED:  http://github.com/ceed
7 
8 //                        libCEED + PETSc Example: Navier-Stokes
9 //
10 // This example demonstrates a simple usage of libCEED with PETSc to solve a
11 // Navier-Stokes problem.
12 //
13 // The code is intentionally "raw", using only low-level communication
14 // primitives.
15 //
16 // Build with:
17 //
18 //     make [PETSC_DIR=</path/to/petsc>] [CEED_DIR=</path/to/libceed>] navierstokes
19 //
20 // Sample runs:
21 //
22 //     ./navierstokes -ceed /cpu/self -problem density_current -degree 1
23 //     ./navierstokes -ceed /gpu/cuda -problem advection -degree 1
24 //
25 //TESTARGS(name="channel") -ceed {ceed_resource} -test -options_file examples/fluids/channel.yaml -compare_final_state_atol 1E-11 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-channel.bin
26 //TESTARGS(name="dc_explicit") -ceed {ceed_resource} -test -degree 3 -dm_plex_box_faces 1,1,2 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 125,125,250 -dm_plex_dim 3 -bc_slip_x 5,6 -bc_slip_y 3,4 -bc_Slip_z 1,2 -units_kilogram 1e-9 -center 62.5,62.5,187.5 -rc 100. -thetaC -35. -mu 75 -ts_dt 1e-3 -units_meter 1e-2 -units_second 1e-2 -compare_final_state_atol 1E-11 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-dc-explicit.bin
27 //TESTARGS(name="dc_implicit_stab_none") -ceed {ceed_resource} -test -degree 3 -dm_plex_box_faces 1,1,2 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 125,125,250 -dm_plex_dim 3 -bc_slip_x 5,6 -bc_slip_y 3,4 -bc_Slip_z 1,2 -units_kilogram 1e-9 -center 62.5,62.5,187.5 -rc 100. -thetaC -35. -mu 75 -units_meter 1e-2 -units_second 1e-2 -ksp_atol 1e-4 -ksp_rtol 1e-3 -ksp_type bcgs -snes_atol 1e-3 -snes_lag_jacobian 100 -snes_lag_jacobian_persists -snes_mf_operator -ts_dt 1e-3 -implicit -ts_type alpha -compare_final_state_atol 5E-4 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-dc-implicit-stab-none.bin
28 //TESTARGS(name="adv_rotation_explicit_strong") -ceed {ceed_resource} -test -problem advection -strong_form 1 -degree 3 -dm_plex_box_faces 2,2,2 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 125,125,250 -dm_plex_dim 3 -bc_wall 1,2,3,4,5,6 -wall_comps 4 -units_kilogram 1e-9 -rc 100. -ts_dt 1e-3 -compare_final_state_atol 1E-11 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-adv-rotation-explicit-strong.bin
29 //TESTARGS(name="adv_rotation_implicit_sharp_cylinder") -ceed {ceed_resource} -test -problem advection -bubble_type cylinder -bubble_continuity back_sharp -degree 3 -dm_plex_box_faces 1,1,2 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 125,125,250 -dm_plex_dim 3 -bc_Slip_z 1,2 -bc_wall 3,4,5,6 -wall_comps 4 -units_kilogram 1e-9 -rc 100. -ksp_atol 1e-4 -ksp_rtol 1e-3 -ksp_type bcgs -snes_atol 1e-3 -snes_lag_jacobian 100 -snes_lag_jacobian_persists -snes_mf_operator -ts_dt 1e-3 -implicit -ts_type alpha -compare_final_state_atol 5E-4 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-adv-rotation-implicit-sharp-cylinder.bin
30 //TESTARGS(name="adv_rotation_implicit_stab_supg") -ceed {ceed_resource} -test -problem advection -CtauS .3 -stab supg -degree 3 -dm_plex_box_faces 1,1,2 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 125,125,250 -dm_plex_dim 3 -bc_wall 1,2,3,4,5,6 -wall_comps 4 -units_kilogram 1e-9 -rc 100. -ksp_atol 1e-4 -ksp_rtol 1e-3 -ksp_type bcgs -snes_atol 1e-3 -snes_lag_jacobian 100 -snes_lag_jacobian_persists -snes_mf_operator -ts_dt 1e-3 -implicit -ts_type alpha -compare_final_state_atol 5E-4 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-adv-rotation-implicit-stab-supg.bin
31 //TESTARGS(name="adv_translation_implicit_stab_su") -ceed {ceed_resource} -test -problem advection -CtauS .3 -stab su -degree 3 -dm_plex_box_faces 1,1,2 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 125,125,250 -dm_plex_dim 3 -units_kilogram 1e-9 -rc 100. -ksp_atol 1e-4 -ksp_rtol 1e-3 -ksp_type bcgs -snes_atol 1e-3 -snes_lag_jacobian 100 -snes_lag_jacobian_persists -snes_mf_operator -ts_dt 1e-3 -implicit -ts_type alpha -wind_type translation -wind_translation .53,-1.33,-2.65 -bc_inflow 1,2,3,4,5,6 -compare_final_state_atol 5E-4 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-adv-translation-implicit-stab-su.bin
32 //TESTARGS(name="adv2d_rotation_explicit_strong") -ceed {ceed_resource} -test -problem advection2d -strong_form 1 -degree 3 -dm_plex_box_faces 2,2 -dm_plex_box_lower 0,0 -dm_plex_box_upper 125,125 -bc_wall 1,2,3,4 -wall_comps 4 -units_kilogram 1e-9 -rc 100. -ts_dt 1e-3 -compare_final_state_atol 1E-11 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-adv2d-rotation-explicit-strong.bin
33 //TESTARGS(name="adv2d_rotation_implicit_stab_supg") -ceed {ceed_resource} -test -problem advection2d -CtauS .3 -stab supg -degree 3 -dm_plex_box_faces 1,1,2 -dm_plex_box_lower 0,0 -dm_plex_box_upper 125,125 -bc_wall 1,2,3,4 -wall_comps 4 -units_kilogram 1e-9 -rc 100. -ksp_atol 1e-4 -ksp_rtol 1e-3 -ksp_type bcgs -snes_atol 1e-3 -snes_lag_jacobian 100 -snes_lag_jacobian_persists -snes_mf_operator -ts_dt 1e-3 -implicit -ts_type alpha -compare_final_state_atol 5E-4 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-adv2d-rotation-implicit-stab-supg.bin
34 //TESTARGS(name="adv2d_translation_implicit_stab_su") -ceed {ceed_resource} -test -problem advection2d -CtauS .3 -stab su -degree 3 -dm_plex_box_faces 1,1,2 -dm_plex_box_lower 0,0 -dm_plex_box_upper 125,125 -units_kilogram 1e-9 -rc 100. -ksp_atol 1e-4 -ksp_rtol 1e-3 -ksp_type bcgs -snes_atol 1e-3 -snes_lag_jacobian 100 -snes_lag_jacobian_persists -snes_mf_operator -ts_dt 1e-3 -implicit -ts_type alpha -wind_type translation -wind_translation .53,-1.33,0 -bc_inflow 1,2,3,4 -compare_final_state_atol 5E-4 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-adv2d-translation-implicit-stab-su.bin
35 //TESTARGS(name="euler_implicit") -ceed {ceed_resource} -test -problem euler_vortex -degree 3 -dm_plex_box_faces 1,1,2 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 125,125,250 -dm_plex_dim 3 -units_meter 1e-4 -units_second 1e-4 -mean_velocity 1.4,-2.,0 -bc_inflow 4,6 -bc_outflow 3,5 -bc_slip_z 1,2 -vortex_strength 2 -ksp_atol 1e-4 -ksp_rtol 1e-3 -ksp_type bcgs -snes_atol 1e-3 -snes_lag_jacobian 100 -snes_lag_jacobian_persists -snes_mf_operator -ts_dt 1e-3 -implicit -ts_type alpha -compare_final_state_atol 5E-4 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-euler-implicit.bin
36 //TESTARGS(name="euler_explicit") -ceed {ceed_resource} -test -problem euler_vortex -degree 3 -dm_plex_box_faces 2,2,1 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 125,125,250 -dm_plex_dim 3 -units_meter 1e-4 -units_second 1e-4 -mean_velocity 1.4,-2.,0 -bc_inflow 4,6 -bc_outflow 3,5 -bc_slip_z 1,2 -vortex_strength 2 -ts_dt 1e-7 -ts_rk_type 5bs -ts_rtol 1e-10 -ts_atol 1e-10 -compare_final_state_atol 1E-7 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-euler-explicit.bin
37 //TESTARGS(name="shocktube_explicit_su_yzb") -ceed {ceed_resource} -test -problem shocktube -degree 1 -dm_plex_box_faces 50,1,1 -units_meter 1e-2 units_second 1e-2 -dm_plex_box_lower 0,0,0 -dm_plex_box_upper 1000,20,20 -dm_plex_dim 3 -bc_slip_x 5,6 -bc_slip_y 3,4 -bc_Slip_z 1,2 -yzb -stab su -compare_final_state_atol 1E-11 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-shocktube-explicit-su-yzb.bin
38 //TESTARGS(name="blasius_STG") -ceed {ceed_resource} -test -options_file examples/fluids/tests-output/blasius_stgtest.yaml -compare_final_state_atol 1E-11 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-blasius_STG.bin
39 //TESTARGS(name="blasius_STG_weakT") -ceed {ceed_resource} -test -options_file examples/fluids/tests-output/blasius_stgtest.yaml -compare_final_state_atol 1E-11 -compare_final_state_filename examples/fluids/tests-output/fluids-navierstokes-blasius_STG_weakT.bin -weakT
40 
41 /// @file
42 /// Navier-Stokes example using PETSc
43 
44 const char help[] = "Solve Navier-Stokes using PETSc and libCEED\n";
45 
46 #include "navierstokes.h"
47 
48 int main(int argc, char **argv) {
49   // ---------------------------------------------------------------------------
50   // Initialize PETSc
51   // ---------------------------------------------------------------------------
52   PetscInt ierr;
53   ierr = PetscInitialize(&argc, &argv, NULL, help);
54   if (ierr) return ierr;
55 
56   // ---------------------------------------------------------------------------
57   // Create structs
58   // ---------------------------------------------------------------------------
59   AppCtx app_ctx;
60   ierr = PetscCalloc1(1, &app_ctx); CHKERRQ(ierr);
61 
62   ProblemData *problem = NULL;
63   ierr = PetscCalloc1(1, &problem); CHKERRQ(ierr);
64 
65   User user;
66   ierr = PetscCalloc1(1, &user); CHKERRQ(ierr);
67 
68   CeedData ceed_data;
69   ierr = PetscCalloc1(1, &ceed_data); CHKERRQ(ierr);
70 
71   SimpleBC bc;
72   ierr = PetscCalloc1(1, &bc); CHKERRQ(ierr);
73 
74   Physics phys_ctx;
75   ierr = PetscCalloc1(1, &phys_ctx); CHKERRQ(ierr);
76 
77   Units units;
78   ierr = PetscCalloc1(1, &units); CHKERRQ(ierr);
79 
80   user->app_ctx = app_ctx;
81   user->units   = units;
82   user->phys    = phys_ctx;
83 
84   // ---------------------------------------------------------------------------
85   // Process command line options
86   // ---------------------------------------------------------------------------
87   // -- Register problems to be available on the command line
88   ierr = RegisterProblems_NS(app_ctx); CHKERRQ(ierr);
89 
90   // -- Process general command line options
91   MPI_Comm comm = PETSC_COMM_WORLD;
92   user->comm = comm;
93   ierr = ProcessCommandLineOptions(comm, app_ctx, bc); CHKERRQ(ierr);
94 
95   // ---------------------------------------------------------------------------
96   // Initialize libCEED
97   // ---------------------------------------------------------------------------
98   // -- Initialize backend
99   Ceed ceed;
100   CeedInit(app_ctx->ceed_resource, &ceed);
101   user->ceed = ceed;
102 
103   // -- Check preferred MemType
104   CeedMemType mem_type_backend;
105   CeedGetPreferredMemType(ceed, &mem_type_backend);
106 
107   // ---------------------------------------------------------------------------
108   // Set up global mesh
109   // ---------------------------------------------------------------------------
110   // -- Create DM
111   DM dm;
112   ierr = CreateDM(comm, problem, &dm); CHKERRQ(ierr);
113   VecType vec_type = NULL;
114   switch (mem_type_backend) {
115   case CEED_MEM_HOST: vec_type = VECSTANDARD; break;
116   case CEED_MEM_DEVICE: {
117     const char *resolved;
118     CeedGetResource(ceed, &resolved);
119     if (strstr(resolved, "/gpu/cuda")) vec_type = VECCUDA;
120     else if (strstr(resolved, "/gpu/hip")) vec_type = VECHIP;
121     else vec_type = VECSTANDARD;
122   }
123   }
124   ierr = DMSetVecType(dm, vec_type); CHKERRQ(ierr);
125   user->dm = dm;
126 
127   // ---------------------------------------------------------------------------
128   // Choose the problem from the list of registered problems
129   // ---------------------------------------------------------------------------
130   {
131     PetscErrorCode (*p)(ProblemData *, DM, void *);
132     ierr = PetscFunctionListFind(app_ctx->problems, app_ctx->problem_name, &p);
133     CHKERRQ(ierr);
134     if (!p) SETERRQ(PETSC_COMM_SELF, 1, "Problem '%s' not found",
135                       app_ctx->problem_name);
136     ierr = (*p)(problem, dm, &user); CHKERRQ(ierr);
137   }
138 
139   // -- Set up DM
140   ierr = SetUpDM(dm, problem, app_ctx->degree, bc, phys_ctx);
141   CHKERRQ(ierr);
142 
143   // -- Refine DM for high-order viz
144   if (app_ctx->viz_refine) {
145     ierr = VizRefineDM(dm, user, problem, bc, phys_ctx);
146     CHKERRQ(ierr);
147   }
148 
149   // ---------------------------------------------------------------------------
150   // Set up libCEED
151   // ---------------------------------------------------------------------------
152   // -- Set up libCEED objects
153   ierr = SetupLibceed(ceed, ceed_data, dm, user, app_ctx, problem, bc);
154   CHKERRQ(ierr);
155 
156   // ---------------------------------------------------------------------------
157   // Set up ICs
158   // ---------------------------------------------------------------------------
159   // -- Set up global state vector Q
160   Vec Q;
161   ierr = DMCreateGlobalVector(dm, &Q); CHKERRQ(ierr);
162   ierr = VecZeroEntries(Q); CHKERRQ(ierr);
163 
164   // -- Set up local state vector Q_loc
165   Vec Q_loc;
166   ierr = DMGetLocalVector(dm, &Q_loc); CHKERRQ(ierr);
167 
168   // -- Fix multiplicity for ICs
169   ierr = ICs_FixMultiplicity(dm, ceed_data, user, Q_loc, Q, 0.0); CHKERRQ(ierr);
170 
171   // ---------------------------------------------------------------------------
172   // Set up lumped mass matrix
173   // ---------------------------------------------------------------------------
174   // -- Set up global mass vector
175   ierr = VecDuplicate(Q, &user->M); CHKERRQ(ierr);
176 
177   // -- Compute lumped mass matrix
178   ierr = ComputeLumpedMassMatrix(ceed, dm, ceed_data, user->M); CHKERRQ(ierr);
179 
180   // ---------------------------------------------------------------------------
181   // Record boundary values from initial condition
182   // ---------------------------------------------------------------------------
183   // -- This overrides DMPlexInsertBoundaryValues().
184   //    We use this for the main simulation DM because the reference
185   //    DMPlexInsertBoundaryValues() is very slow. If we disable this, we should
186   //    still get the same results due to the problem->bc function, but with
187   //    potentially much slower execution.
188   if (1) {ierr = SetBCsFromICs_NS(dm, Q, Q_loc); CHKERRQ(ierr);}
189 
190   // ---------------------------------------------------------------------------
191   // Create output directory
192   // ---------------------------------------------------------------------------
193   PetscMPIInt rank;
194   MPI_Comm_rank(comm, &rank);
195   if (!rank) {ierr = PetscMkdir(app_ctx->output_dir); CHKERRQ(ierr);}
196 
197   // ---------------------------------------------------------------------------
198   // Gather initial Q values in case of continuation of simulation
199   // ---------------------------------------------------------------------------
200   // -- Set up initial values from binary file
201   if (app_ctx->cont_steps) {
202     ierr = SetupICsFromBinary(comm, app_ctx, Q); CHKERRQ(ierr);
203   }
204 
205   // ---------------------------------------------------------------------------
206   // Print problem summary
207   // ---------------------------------------------------------------------------
208   if (!app_ctx->test_mode) {
209     // Header and rank
210     char host_name[PETSC_MAX_PATH_LEN];
211     int  comm_size;
212     ierr = PetscGetHostName(host_name, sizeof host_name); CHKERRQ(ierr);
213     ierr = MPI_Comm_size(comm, &comm_size); CHKERRQ(ierr);
214     ierr = PetscPrintf(comm,
215                        "\n-- Navier-Stokes solver - libCEED + PETSc --\n"
216                        "  MPI:\n"
217                        "    Host Name                          : %s\n"
218                        "    Total ranks                        : %d\n",
219                        host_name, comm_size); CHKERRQ(ierr);
220 
221     // Problem specific info
222     ierr = problem->print_info(problem, app_ctx); CHKERRQ(ierr);
223 
224     // libCEED
225     const char *used_resource;
226     CeedGetResource(ceed, &used_resource);
227     ierr = PetscPrintf(comm,
228                        "  libCEED:\n"
229                        "    libCEED Backend                    : %s\n"
230                        "    libCEED Backend MemType            : %s\n",
231                        used_resource, CeedMemTypes[mem_type_backend]); CHKERRQ(ierr);
232     // PETSc
233     char box_faces_str[PETSC_MAX_PATH_LEN] = "3,3,3";
234     if (problem->dim == 2) box_faces_str[3] = '\0';
235     ierr = PetscOptionsGetString(NULL, NULL, "-dm_plex_box_faces", box_faces_str,
236                                  sizeof(box_faces_str), NULL); CHKERRQ(ierr);
237     ierr = PetscPrintf(comm,
238                        "  PETSc:\n"
239                        "    Box Faces                          : %s\n"
240                        "    Time Stepping Scheme               : %s\n",
241                        box_faces_str, phys_ctx->implicit ? "implicit" : "explicit"); CHKERRQ(ierr);
242     // Mesh
243     const PetscInt num_comp_q = 5;
244     CeedInt        glob_dofs, owned_dofs;
245     PetscInt       glob_nodes, owned_nodes;
246     const CeedInt  num_P = app_ctx->degree + 1,
247                    num_Q = num_P + app_ctx->q_extra;
248     // -- Get global size
249     ierr = VecGetSize(Q, &glob_dofs); CHKERRQ(ierr);
250     ierr = VecGetLocalSize(Q, &owned_dofs); CHKERRQ(ierr);
251     glob_nodes = glob_dofs/num_comp_q;
252     // -- Get local size
253     ierr = VecGetSize(Q_loc, &owned_nodes); CHKERRQ(ierr);
254     owned_nodes /= num_comp_q;
255     ierr = PetscPrintf(comm,
256                        "  Mesh:\n"
257                        "    Number of 1D Basis Nodes (P)       : %d\n"
258                        "    Number of 1D Quadrature Points (Q) : %d\n"
259                        "    Global DoFs                        : %" PetscInt_FMT "\n"
260                        "    Owned DoFs                         : %" PetscInt_FMT "\n"
261                        "    DoFs per node                      : %" PetscInt_FMT "\n"
262                        "    Global nodes                       : %" PetscInt_FMT "\n"
263                        "    Owned nodes                        : %" PetscInt_FMT "\n",
264                        num_P, num_Q, glob_dofs, owned_dofs, num_comp_q,
265                        glob_nodes, owned_nodes); CHKERRQ(ierr);
266   }
267   // -- Restore Q_loc
268   ierr = DMRestoreLocalVector(dm, &Q_loc); CHKERRQ(ierr);
269 
270   // ---------------------------------------------------------------------------
271   // TS: Create, setup, and solve
272   // ---------------------------------------------------------------------------
273   TS ts;
274   PetscScalar final_time;
275   ierr = TSSolve_NS(dm, user, app_ctx, phys_ctx, &Q, &final_time, &ts);
276   CHKERRQ(ierr);
277 
278   // ---------------------------------------------------------------------------
279   // Post-processing
280   // ---------------------------------------------------------------------------
281   ierr = PostProcess_NS(ts, ceed_data, dm, problem, user, Q, final_time);
282   CHKERRQ(ierr);
283 
284   // ---------------------------------------------------------------------------
285   // Destroy libCEED objects
286   // ---------------------------------------------------------------------------
287   // -- Vectors
288   CeedVectorDestroy(&ceed_data->x_coord);
289   CeedVectorDestroy(&ceed_data->q_data);
290   CeedVectorDestroy(&user->q_ceed);
291   CeedVectorDestroy(&user->q_dot_ceed);
292   CeedVectorDestroy(&user->g_ceed);
293 
294   // -- QFunctions
295   CeedQFunctionDestroy(&ceed_data->qf_setup_vol);
296   CeedQFunctionDestroy(&ceed_data->qf_ics);
297   CeedQFunctionDestroy(&ceed_data->qf_rhs_vol);
298   CeedQFunctionDestroy(&ceed_data->qf_ifunction_vol);
299   CeedQFunctionDestroy(&ceed_data->qf_setup_sur);
300   CeedQFunctionDestroy(&ceed_data->qf_apply_inflow);
301   CeedQFunctionDestroy(&ceed_data->qf_apply_outflow);
302 
303   // -- Bases
304   CeedBasisDestroy(&ceed_data->basis_q);
305   CeedBasisDestroy(&ceed_data->basis_x);
306   CeedBasisDestroy(&ceed_data->basis_xc);
307   CeedBasisDestroy(&ceed_data->basis_q_sur);
308   CeedBasisDestroy(&ceed_data->basis_x_sur);
309 
310   // -- Restrictions
311   CeedElemRestrictionDestroy(&ceed_data->elem_restr_q);
312   CeedElemRestrictionDestroy(&ceed_data->elem_restr_x);
313   CeedElemRestrictionDestroy(&ceed_data->elem_restr_qd_i);
314 
315   // -- Operators
316   CeedOperatorDestroy(&ceed_data->op_setup_vol);
317   CeedOperatorDestroy(&ceed_data->op_ics);
318   CeedOperatorDestroy(&user->op_rhs_vol);
319   CeedOperatorDestroy(&user->op_ifunction_vol);
320   CeedOperatorDestroy(&user->op_rhs);
321   CeedOperatorDestroy(&user->op_ifunction);
322 
323   // -- Ceed
324   CeedDestroy(&ceed);
325 
326   // ---------------------------------------------------------------------------
327   // Clean up PETSc
328   // ---------------------------------------------------------------------------
329   // -- Vectors
330   ierr = VecDestroy(&Q); CHKERRQ(ierr);
331   ierr = VecDestroy(&user->M); CHKERRQ(ierr);
332 
333   // -- Matrices
334   ierr = MatDestroy(&user->interp_viz); CHKERRQ(ierr);
335 
336   // -- DM
337   ierr = DMDestroy(&dm); CHKERRQ(ierr);
338   ierr = DMDestroy(&user->dm_viz); CHKERRQ(ierr);
339 
340   // -- TS
341   ierr = TSDestroy(&ts); CHKERRQ(ierr);
342 
343   // -- Function list
344   ierr = PetscFunctionListDestroy(&app_ctx->problems); CHKERRQ(ierr);
345 
346   ierr = PetscFree(problem->bc_ctx); CHKERRQ(ierr);
347 
348   // -- Structs
349   ierr = PetscFree(units); CHKERRQ(ierr);
350   ierr = PetscFree(user); CHKERRQ(ierr);
351   ierr = PetscFree(problem); CHKERRQ(ierr);
352   ierr = PetscFree(bc); CHKERRQ(ierr);
353   ierr = PetscFree(phys_ctx); CHKERRQ(ierr);
354   ierr = PetscFree(app_ctx); CHKERRQ(ierr);
355   ierr = PetscFree(ceed_data); CHKERRQ(ierr);
356 
357   return PetscFinalize();
358 }
359