Regression tests for two-phase solver with Nalu-Wind domains containi…

…ng solid bodies (#73)

* update meshes repository for new tests
* update git ignore

.gitignore

@@ -2,3 +2,5 @@
 spack*
 compile_commands.json
 .cache
+.vscode
+build*

test/CMakeLists.txt

@@ -66,3 +66,5 @@ add_test_r(hybrid-multi-cylinder)
 add_test_r(flat-surface)
 add_test_r(sloshing-tank)
 add_test_r(linear-waves)
+add_test_r(stokes-waves-cylinder)
+add_test_r(dam-break-block)

test/test_files/dam-break-block/dam-break-block-amr.inp

@@ -0,0 +1,61 @@
+time.stop_time               =   2     # Max (simulated) time to evolve
+time.max_step                =   2000          # Max number of time steps
+
+time.fixed_dt         =   0.001        # Use this constant dt if > 0
+time.cfl              =   0.95         # CFL factor
+
+time.plot_interval            =  10       # Steps between plot files
+time.checkpoint_interval      =  -100       # Steps between checkpoint files
+
+io.int_outputs = iblank_cell
+
+incflo.use_godunov = 1
+incflo.godunov_type = "weno_z"
+transport.model = TwoPhaseTransport
+transport.viscosity_fluid1=1.e-5
+transport.viscosity_fluid2=1.e-5
+
+transport.laminar_prandtl = 0.7
+transport.turbulent_prandtl = 0.3333
+turbulence.model = Laminar 
+
+incflo.physics = MultiPhase DamBreak 
+MultiPhase.density_fluid1=1000.
+MultiPhase.density_fluid2=1.
+DamBreak.location = -0.8 0.0 -0.3125
+DamBreak.width    = 0.5
+DamBreak.height   = 0.8
+ICNS.source_terms = GravityForcing 
+
+amr.n_cell              = 64 16 32    # Grid cells at coarsest AMRlevel
+amr.max_level           = 0           # Max AMR level in hierarchy 
+
+geometry.prob_lo        =   -1.4  -0.375 -0.3125  # Lo corner coordinates
+geometry.prob_hi        =   1.1 0.375 1.1875  # Hi corner coordinates
+geometry.is_periodic    =   0   0   0   # Periodicity x y z (0/1)
+
+Overset.disable_coupled_mac_proj = true
+Overset.disable_coupled_nodal_proj = true
+
+xlo.type =   "slip_wall"
+xlo.vof_type = "zero_gradient"
+xhi.type =   "slip_wall"
+xhi.vof_type = "zero_gradient"
+
+ylo.type =   "slip_wall"
+ylo.vof_type = "zero_gradient"
+yhi.type =   "slip_wall"
+yhi.vof_type = "zero_gradient"
+
+zlo.type =   "slip_wall"
+zlo.vof_type = "zero_gradient"
+zhi.type =   "slip_wall"
+zhi.vof_type = "mass_inflow"
+zhi.vof = 0.0
+
+incflo.verbose=0
+
+nodal_proj.num_pre_smooth = 20
+nodal_proj.num_post_smooth = 20
+mac_proj.num_pre_smooth = 20
+mac_proj.num_post_smooth = 20

test/test_files/dam-break-block/dam-break-block-nalu.yaml

@@ -0,0 +1,140 @@
+Simulations:
+  - name: sim1
+    time_integrator: ti_1
+    optimizer: opt1
+
+linear_solvers:
+
+  - name: solve_scalar
+    type: hypre
+    method: hypre_gmres
+    preconditioner: boomerAMG
+    tolerance: 1e-5
+    max_iterations: 200
+    kspace: 5
+    output_level: 0
+
+  - name: solve_cont
+    type: hypre
+    method: hypre_gmres
+    preconditioner: boomerAMG
+    tolerance: 1e-5
+    max_iterations: 200
+    kspace: 5
+    output_level: 0
+
+realms:
+
+  - name: realm_1
+    mesh: meshes/block_within_cube.exo
+    use_edges: yes
+    automatic_decomposition_type: rcb
+    check_for_missing_bcs: yes
+
+    equation_systems:
+      name: theEqSys
+      max_iterations: 3
+      decoupled_overset_solve: yes
+
+      solver_system_specification:
+        volume_of_fluid: solve_scalar
+        velocity: solve_scalar
+        pressure: solve_cont
+
+      systems:
+        - VolumeOfFluid:
+            name: myVOF
+            max_iterations: 1
+            convergence_tolerance: 1e-8
+        - LowMachEOM:
+            name: myLowMach
+            max_iterations: 1
+            convergence_tolerance: 1e-8
+
+    initial_conditions:
+
+      - constant: ic_1
+        target_name: fluid-HEX
+        value:
+          volume_of_fluid: 0.0
+          velocity: [0.0, 0.0, 0.0]
+          pressure: 0.0
+
+    material_properties:
+      target_name: fluid-HEX
+      specifications:
+        - name: density
+          type: volume_of_fluid
+          primary_value: 1000.0
+          secondary_value: 1.
+
+        - name: viscosity
+          type: constant
+          value: 1.0e-5
+
+    boundary_conditions:
+
+    - wall_boundary_condition: bc_wall
+      target_name: block
+      wall_user_data:
+        velocity: [0.0, 0.0, 0.0]
+    - overset_boundary_condition: bc_overset
+      overset_connectivity_type: tioga
+      overset_user_data:
+        mesh_group:
+          - overset_name: oset_n
+            mesh_parts: [fluid-HEX]
+            wall_parts: [block]
+            ovset_parts: [ovst_bdy]
+
+    solution_options:
+      name: myOptions
+      use_balanced_buoyancy_force: yes
+
+      options:
+        - hybrid_factor:
+            velocity: 0.05
+            volume_of_fluid: 0.0
+
+        - upw_factor:
+            velocity: 0.0
+
+        - limiter:
+            volume_of_fluid: yes
+
+        - consistent_mass_matrix_png:
+            pressure: no
+
+        - source_terms:
+            momentum:
+            - buoyancy_density
+
+        - user_constants:
+            reference_density: 0.00
+            gravity: [0.0, 0.0, -9.81]
+
+    output:
+      output_data_base_name: out/damBreak.e
+      output_frequency: 10
+      output_node_set: yes
+      output_variables:
+       - density
+       - volume_of_fluid
+       - velocity
+       - pressure
+       - dvolume_of_fluiddx
+       - dpressuredx
+       - iblank
+Time_Integrators:
+  - StandardTimeIntegrator:
+      name: ti_1
+      start_time: 0.0
+      termination_time: 2.0
+      time_step: 0.001
+      time_stepping_type: fixed
+      time_step_count: 0
+      second_order_accuracy: yes
+
+
+      realms:
+        - realm_1

test/test_files/dam-break-block/dam-break-block.yaml

@@ -0,0 +1,19 @@
+
+exawind:
+  nalu_wind_inp:
+    - dam-break-block-nalu.yaml
+  amr_wind_inp: dam-break-block-amr.inp
+  num_timesteps: 10
+  additional_picard_iterations: 2
+
+  nalu_vars:
+    - volume_of_fluid
+    - velocity
+    - density
+    - pressure
+  amr_cell_vars:
+    - vof
+    - velocity
+    - density
+  amr_node_vars:
+    - p

test/test_files/stokes-waves-cylinder/stokes-waves-cylinder-amr.inp

@@ -0,0 +1,76 @@
+time.stop_time               =   200     # Max (simulated) time to evolve
+time.max_step                =   -10    # Max number of time steps
+
+time.initial_dt       =   -0.05        # Use this constant dt if > 0
+time.fixed_dt         =   0.01
+time.cfl              =   0.95         # CFL factor
+time.plot_interval            =  10       # Steps between plot files
+incflo.do_initial_proj = 0
+incflo.initial_iterations = 0
+
+io.outputs = density vof velocity p gp reference_pressure ow_velocity ow_levelset
+io.int_outputs = iblank_cell iblank_node
+
+incflo.use_godunov = 1
+incflo.godunov_type="weno_z"
+incflo.diffusion_type = 0
+transport.model = TwoPhaseTransport
+transport.laminar_prandtl = 0.7
+transport.turbulent_prandtl = 0.3333
+turbulence.model = Laminar
+
+transport.viscosity_fluid1=1e-3
+transport.viscosity_fluid2=1e-5
+
+incflo.physics = MultiPhase OceanWaves 
+OceanWaves.label = Wave1
+OceanWaves.Wave1.type = StokesWaves
+OceanWaves.Wave1.order=5
+OceanWaves.Wave1.wave_height=0.3327      # nominal: 0.37
+OceanWaves.Wave1.wave_period=1.536       # nominal: 1.533
+OceanWaves.Wave1.water_depth=10.0
+OceanWaves.Wave1.relax_zone_gen_length=4.801496963
+OceanWaves.Wave1.numerical_beach_length=9.602993926
+OceanWaves.Wave1.numerical_beach_length_factor=2.0
+OceanWaves.Wave1.zero_sea_level=0.0
+MultiPhase.density_fluid1=1000.
+MultiPhase.density_fluid2=1.
+ICNS.source_terms = GravityForcing
+
+ICNS.use_perturb_pressure = true
+ICNS.reconstruct_true_pressure = true
+VOF.replace_masked = true
+Overset.disable_coupled_mac_proj = true
+Overset.disable_coupled_nodal_proj = true
+
+amr.n_cell              = 128 48 56
+amr.max_level = 1
+
+geometry.prob_lo        =   -9.602993926  -5.25  -10.0   # Lo corner coordinates
+geometry.prob_hi        =    19.205987852  5.25   2.4007484815   # Hi corner coordinates
+geometry.is_periodic    =    0   0    0   # Periodicity x y z (0/1)
+
+tagging.labels = refine0
+tagging.refine0.type = GeometryRefinement
+tagging.refine0.shapes = c0 b0
+tagging.refine0.level  = 0
+
+tagging.refine0.c0.type = cylinder
+tagging.refine0.c0.start = 0.0 0.0 -2.0
+tagging.refine0.c0.end = 0.0 0.0 1.5
+tagging.refine0.c0.outer_radius = 0.5
+
+tagging.refine0.b0.type = box                 
+tagging.refine0.b0.origin = -10.0 -5.5 -0.5
+tagging.refine0.b0.xaxis = 30.0 0.0 0.0
+tagging.refine0.b0.yaxis = 0.0 11.0 0.0
+tagging.refine0.b0.zaxis = 0.0 0.0 1.0
+
+xlo.type =   "wave_generation"
+xhi.type =   "pressure_outflow"
+ylo.type =   "slip_wall"
+yhi.type =   "slip_wall"
+zlo.type =   "slip_wall"
+zhi.type =   "slip_wall"
+
+incflo.verbose          =   0          # incflo_level