- functionThe initial condition function.
C++ Type:FunctionName
Description:The initial condition function.
- variableThe variable this initial condition is supposed to provide values for.
C++ Type:VariableName
Description:The variable this initial condition is supposed to provide values for.
FunctionIC
buildconstruction:Undocumented Class
The FunctionIC has not been documented. The content listed below should be used as a starting point for documenting the class, which includes the typical automatic documentation associated with a MooseObject; however, what is contained is ultimately determined by what is necessary to make the documentation clear for users.
# FunctionIC
!syntax description /ICs/FunctionIC
## Overview
!! Replace these lines with information regarding the FunctionIC object.
## Example Input File Syntax
!! Describe and include an example of how to use the FunctionIC object.
!syntax parameters /ICs/FunctionIC
!syntax inputs /ICs/FunctionIC
!syntax children /ICs/FunctionIC
An initial condition that uses a normal function of x, y, z to produce values (and optionally gradients) for a field variable.
Input Parameters
- blockThe list of blocks (ids or names) that this object will be applied
C++ Type:std::vector<SubdomainName>
Options:
Description:The list of blocks (ids or names) that this object will be applied
- boundaryThe list of boundaries (ids or names) from the mesh where this boundary condition applies
C++ Type:std::vector<BoundaryName>
Options:
Description:The list of boundaries (ids or names) from the mesh where this boundary condition applies
- prop_getter_suffixAn optional suffix parameter that can be appended to any attempt to retrieve/get material properties. The suffix will be prepended with a '_' character.
C++ Type:MaterialPropertyName
Options:
Description:An optional suffix parameter that can be appended to any attempt to retrieve/get material properties. The suffix will be prepended with a '_' character.
Optional Parameters
- control_tagsAdds user-defined labels for accessing object parameters via control logic.
C++ Type:std::vector<std::string>
Options:
Description:Adds user-defined labels for accessing object parameters via control logic.
- enableTrueSet the enabled status of the MooseObject.
Default:True
C++ Type:bool
Options:
Description:Set the enabled status of the MooseObject.
- ignore_uo_dependencyFalseWhen set to true, a UserObject retrieved by this IC will not be executed before the this IC
Default:False
C++ Type:bool
Options:
Description:When set to true, a UserObject retrieved by this IC will not be executed before the this IC
Advanced Parameters
Input Files
- (test/tests/functions/image_function/image_mesh_2d.i)
- (modules/phase_field/test/tests/automatic_differentiation/admatreaction.i)
- (modules/porous_flow/test/tests/hysteresis/hys_sat_03.i)
- (modules/richards/test/tests/dirac/bh08.i)
- (modules/fsi/test/tests/fsi_acoustics/wave_height_bc/wave_height_bc.i)
- (modules/combined/test/tests/DiffuseCreep/variable_base_eigen_strain.i)
- (test/tests/time_integrators/explicit-euler/ee-2d-quadratic.i)
- (modules/combined/test/tests/phase_field_fracture/crack2d_vi_solver.i)
- (test/tests/misc/check_error/function_file_test8.i)
- (test/tests/kernels/ad_mat_diffusion/1D_transient.i)
- (modules/richards/test/tests/sinks/s_fu_03.i)
- (test/tests/vectorpostprocessors/element_value_sampler/fv_element_value_sampler.i)
- (test/tests/postprocessors/displaced_mesh/elemental.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_3D.i)
- (tutorials/tutorial03_verification/app/test/tests/step04_mms/2d_mms_temporal.i)
- (modules/phase_field/test/tests/GrandPotentialPFM/SinteringBase.i)
- (test/tests/fvkernels/fv_constant_scalar_advection/2D_constant_scalar_advection.i)
- (modules/heat_conduction/test/tests/verify_against_analytical/1D_transient.i)
- (modules/porous_flow/test/tests/basic_advection/1phase.i)
- (test/tests/functions/image_function/flip_dual.i)
- (modules/richards/test/tests/uo_egs/relperm.i)
- (test/tests/userobjects/toggle_mesh_adaptivity/toggle_mesh_adaptivity_gaussian_ic_stop_time.i)
- (modules/porous_flow/test/tests/numerical_diffusion/pffltvd_action.i)
- (modules/phase_field/examples/kim-kim-suzuki/kks_example_noflux.i)
- (test/tests/ics/function_ic/parsed_function.i)
- (modules/porous_flow/examples/coal_mining/fine_with_fluid.i)
- (modules/porous_flow/examples/tutorial/06_KT.i)
- (modules/richards/test/tests/theis/th21.i)
- (modules/geochemistry/test/tests/kernels/time_deriv_1.i)
- (test/tests/functions/image_function/shift_and_scale.i)
- (test/tests/multiapps/grid-sequencing/vi-fine-alone.i)
- (modules/level_set/examples/vortex/vortex.i)
- (test/tests/multiapps/grid-sequencing/vi-fine.i)
- (test/tests/time_steppers/timesequence_stepper/timesequence_restart2.i)
- (modules/phase_field/test/tests/free_energy_material/RegularSolutionFreeEnergy_const_T.i)
- (test/tests/vectorpostprocessors/volume_histogram/volume_histogram.i)
- (modules/porous_flow/test/tests/relperm/corey3.i)
- (modules/rdg/test/tests/advection_1d/rdgP0.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/shock_tube_2D_cavity/hllc_sod_shocktube_2D.i)
- (modules/porous_flow/test/tests/mass_conservation/mass05.i)
- (modules/ray_tracing/test/tests/raykernels/variable_integral_ray_kernel/variable_integral_ray_kernel.i)
- (test/tests/materials/derivative_material_interface/ad_parsed_material.i)
- (test/tests/time_integrators/tvdrk2/1d-linear.i)
- (modules/richards/test/tests/buckley_leverett/bl22.i)
- (modules/porous_flow/test/tests/sinks/s09_fully_saturated.i)
- (modules/level_set/test/tests/verification/1d_level_set_mms/level_set_mms.i)
- (modules/geochemistry/test/tests/kernels/dispersion_1.i)
- (modules/phase_field/test/tests/misc/coupled_value_function_ic.i)
- (test/tests/misc/check_error/wrong_displacement_order.i)
- (test/tests/functions/solution_function/solution_function_scale_mult.i)
- (modules/porous_flow/test/tests/numerical_diffusion/fltvd_no_antidiffusion.i)
- (modules/richards/test/tests/dirac/bh_fu_08.i)
- (test/tests/fvkernels/mms/advective-outflow/kt-limited-advection.i)
- (modules/phase_field/examples/kim-kim-suzuki/kks_example_dirichlet.i)
- (modules/phase_field/test/tests/GrandPotentialPFM/SinteringIdeal.i)
- (modules/combined/test/tests/DiffuseCreep/stress.i)
- (test/tests/misc/check_error/function_file_test11.i)
- (modules/richards/test/tests/buckley_leverett/bl20.i)
- (modules/fluid_properties/test/tests/brine/brine_tabulated.i)
- (test/tests/time_steppers/timesequence_stepper/csvtimesequence.i)
- (modules/porous_flow/test/tests/sinks/s06.i)
- (modules/porous_flow/test/tests/energy_conservation/except01.i)
- (test/tests/auxkernels/solution_aux/aux_nonlinear_solution_adapt_xda.i)
- (modules/porous_flow/test/tests/aux_kernels/darcy_velocity_lower.i)
- (test/tests/functions/image_function/subset.i)
- (test/tests/dgkernels/dg_displacement/dg_displacement.i)
- (modules/porous_flow/test/tests/dispersion/disp01.i)
- (modules/richards/test/tests/newton_cooling/nc02.i)
- (modules/porous_flow/test/tests/relperm/vangenuchten1.i)
- (test/tests/postprocessors/element_l1_error/element_l1_error.i)
- (test/tests/kernels/material_coupled_force/material_coupled_force.i)
- (modules/richards/test/tests/sinks/s01.i)
- (modules/richards/test/tests/dirac/bh05.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/mms/1d/hllc-mms.i)
- (modules/phase_field/examples/fourier_noise.i)
- (modules/richards/test/tests/dirac/bh_fu_02.i)
- (modules/richards/test/tests/theis/th_lumped_01.i)
- (test/tests/transfers/multiapp_conservative_transfer/primary_negative_adjuster.i)
- (test/tests/nodalkernels/constraint_enforcement/vi-bounding.i)
- (modules/porous_flow/test/tests/sinks/s01.i)
- (modules/phase_field/test/tests/feature_flood_test/parallel_feature_count.i)
- (modules/porous_flow/test/tests/capillary_pressure/brooks_corey1.i)
- (test/tests/time_integrators/dirk/dirk-2d-heat.i)
- (modules/xfem/test/tests/moving_interface/phase_transition_2d.i)
- (test/tests/functions/image_function/flip_quad.i)
- (modules/richards/test/tests/mass/m01.i)
- (modules/chemical_reactions/test/tests/aqueous_equilibrium/1species_without_action.i)
- (test/tests/nodalkernels/constraint_enforcement/ad-upper-and-lower-bound.i)
- (test/tests/kernels/conservative_advection/none_in_none_out.i)
- (modules/richards/test/tests/dirac/st01.i)
- (modules/tensor_mechanics/test/tests/elasticitytensor/composite.i)
- (test/tests/ics/hermite_ic/hermite_ic.i)
- (test/tests/scaling/residual-based/residual-based.i)
- (modules/richards/test/tests/jacobian_2/jn_fu_17.i)
- (modules/level_set/examples/vortex/vortex_supg.i)
- (modules/porous_flow/test/tests/poroperm/poro_hm.i)
- (test/tests/userobjects/solution_user_object/discontinuous_value_solution_uo_p1.i)
- (modules/richards/test/tests/uo_egs/density.i)
- (test/tests/kernels/ad_mat_diffusion/ad_1D_transient.i)
- (modules/richards/test/tests/buckley_leverett/bl01_lumped_fu.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_2D_angle.i)
- (modules/porous_flow/test/tests/chemistry/2species_equilibrium_2phase.i)
- (modules/richards/test/tests/theis/th02.i)
- (modules/porous_flow/test/tests/newton_cooling/nc08.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/basic-conserved-pcnsfv-kt.i)
- (test/tests/time_steppers/postprocessor_dt/postprocessor_dt.i)
- (modules/phase_field/examples/multiphase/GrandPotential3Phase.i)
- (test/tests/functions/image_function/error/threshold_values.i)
- (modules/porous_flow/test/tests/sinks/s04.i)
- (modules/level_set/examples/circle/circle_16.i)
- (modules/porous_flow/test/tests/hysteresis/hys_pc_1.i)
- (modules/porous_flow/test/tests/poroperm/except1.i)
- (modules/richards/test/tests/buckley_leverett/bl02.i)
- (test/tests/time_integrators/explicit-euler/ee-1d-quadratic.i)
- (modules/chemical_reactions/test/tests/aqueous_equilibrium/2species_eqaux.i)
- (modules/chemical_reactions/test/tests/aqueous_equilibrium/1species.i)
- (modules/level_set/test/tests/reinitialization/master.i)
- (modules/porous_flow/examples/restart/gravityeq.i)
- (test/tests/time_integrators/tvdrk2/2d-quadratic.i)
- (modules/rdg/test/tests/advection_1d/block_restrictable.i)
- (test/tests/time_steppers/timesequence_stepper/timesequence_restart_failure.i)
- (modules/porous_flow/test/tests/radioactive_decay/radioactive_decay01.i)
- (test/tests/executioners/nullspace/singular_contaminated.i)
- (modules/porous_flow/test/tests/relperm/brooks_corey1.i)
- (test/tests/auxkernels/solution_aux/aux_nonlinear_solution_xda.i)
- (modules/porous_flow/test/tests/jacobian/basic_advection1.i)
- (test/tests/bcs/periodic/no_add_scalar.i)
- (test/tests/time_integrators/explicit-euler/ee-1d-linear.i)
- (modules/porous_flow/test/tests/sinks/s05.i)
- (modules/porous_flow/examples/restart/gas_injection_new_mesh.i)
- (test/tests/time_integrators/actually_explicit_euler_verification/ee-2d-linear-adapt.i)
- (modules/navier_stokes/test/tests/bcs/advection_bc/advection_bc.i)
- (modules/fluid_properties/test/tests/brine/brine.i)
- (modules/phase_field/test/tests/GrandPotentialPFM/GrandPotentialMultiphase.i)
- (modules/geochemistry/test/tests/kernels/advection_1.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/symmetry_test/2D_symmetry.i)
- (test/tests/userobjects/shape_element_user_object/simple_shape_element_uo_test.i)
- (modules/richards/test/tests/dirac/bh_lumped_07.i)
- (test/tests/materials/derivative_material_interface/construction_order.i)
- (test/tests/bcs/misc_bcs/weak_gradient_bc_test.i)
- (modules/porous_flow/test/tests/capillary_pressure/vangenuchten1.i)
- (modules/porous_flow/test/tests/hysteresis/hys_pc_01.i)
- (test/tests/functions/image_function/image_3d_subset.i)
- (test/tests/controls/control_piecewise/controlled_piecewise.i)
- (test/tests/kernels/conservative_advection/none_in_all_out.i)
- (modules/porous_flow/test/tests/newton_cooling/nc02.i)
- (modules/richards/test/tests/dirac/bh27.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_2D.i)
- (modules/phase_field/test/tests/functions/fourier_noise.i)
- (modules/porous_flow/test/tests/relperm/unity.i)
- (modules/combined/examples/phase_field-mechanics/interface_stress.i)
- (modules/level_set/test/tests/kernels/olsson_reinitialization/olsson_1d.i)
- (modules/level_set/examples/vortex/vortex_reinit.i)
- (modules/richards/test/tests/mass/m_fu_01.i)
- (modules/richards/test/tests/dirac/bh10.i)
- (test/tests/fvkernels/mms/advective-outflow/limited-advection.i)
- (modules/phase_field/test/tests/boundary_intersecting_features/boundary_intersecting_features.i)
- (modules/richards/test/tests/dirac/bh_fu_07.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/varying-eps-basic-kt-primitive.i)
- (test/tests/time_integrators/actually_explicit_euler_verification/ee-2d-linear.i)
- (modules/richards/test/tests/dirac/bh04.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/porous-hllc.i)
- (test/tests/time_steppers/timesequence_stepper/timesequence_failed_solve.i)
- (modules/porous_flow/test/tests/mass_conservation/mass10.i)
- (modules/richards/test/tests/buckley_leverett/bl21.i)
- (modules/porous_flow/test/tests/relperm/vangenuchten2.i)
- (test/tests/restart/restart_subapp_not_master/two_step_solve_master.i)
- (test/tests/interfacekernels/ik_displaced/different_jxw_displaced.i)
- (modules/porous_flow/test/tests/capillary_pressure/vangenuchten2.i)
- (test/tests/time_integrators/actually_explicit_euler_verification/ee-2d-quadratic.i)
- (test/tests/time_integrators/actually_explicit_euler_verification/ee-1d-quadratic.i)
- (modules/porous_flow/test/tests/heat_advection/heat_advection_1d_fully_saturated.i)
- (modules/porous_flow/test/tests/mass_conservation/mass01.i)
- (modules/porous_flow/examples/coal_mining/coarse_with_fluid.i)
- (test/tests/transfers/multiapp_projection_transfer/high_order_sub.i)
- (modules/combined/examples/periodic_strain/global_strain_pfm_3D.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_advection/jacobian_02.i)
- (modules/phase_field/examples/kim-kim-suzuki/kks_example_ternary.i)
- (test/tests/bcs/sin_bc/sin_dirichlet_test.i)
- (test/tests/misc/check_error/function_file_test12.i)
- (modules/phase_field/test/tests/grain_boundary_area/diagonal.i)
- (modules/porous_flow/examples/groundwater/ex02_steady_state.i)
- (modules/xfem/test/tests/moving_interface/ad_phase_transition_2d.i)
- (modules/richards/test/tests/theis/th_lumped_02.i)
- (modules/richards/test/tests/dirac/bh09.i)
- (test/tests/restart/restart_subapp_not_master/complete_solve_no_subapp.i)
- (modules/porous_flow/test/tests/relperm/corey4.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_2D_angle.i)
- (modules/richards/test/tests/sinks/s05.i)
- (python/chigger/tests/input/block_vars.i)
- (modules/richards/test/tests/buckley_leverett/bl01.i)
- (test/tests/functions/image_function/image_2d_elemental.i)
- (test/tests/materials/derivative_material_interface/ad_derivative_parsed_material.i)
- (modules/porous_flow/test/tests/sinks/s07.i)
- (test/tests/misc/check_error/function_file_test3.i)
- (modules/richards/test/tests/excav/ex02.i)
- (modules/richards/test/tests/user_objects/uo2.i)
- (test/tests/indicators/laplacian_jump_indicator/biharmonic_transient.i)
- (test/tests/auxkernels/solution_aux/aux_nonlinear_solution_xdr.i)
- (test/tests/misc/check_error/function_file_test2.i)
- (modules/porous_flow/test/tests/basic_advection/2phase.i)
- (modules/phase_field/test/tests/phase_field_kernels/SplitCHWRes.i)
- (test/tests/kernels/ad_coupled_value/ad_aux_coupled_value.i)
- (modules/richards/test/tests/gravity_head_2/gh_fu_02.i)
- (modules/phase_field/test/tests/GrandPotentialPFM/SinteringParabolic.i)
- (test/tests/auxkernels/linear_combination/test.i)
- (modules/porous_flow/test/tests/mass_conservation/mass08.i)
- (modules/phase_field/test/tests/MultiPhase/switchingfunction3phasematerial.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/free-flow-hllc.i)
- (test/tests/markers/two_circle_marker/two_circle_marker_gaussian_ic.i)
- (modules/xfem/test/tests/switching_material/one_cut_stationary.i)
- (test/tests/kernels/mass_lumping/mass_lumping_jacobian.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_2D.i)
- (test/tests/time_integrators/rk-2/1d-linear.i)
- (modules/porous_flow/examples/co2_intercomparison/1Dradial/properties.i)
- (modules/phase_field/examples/multiphase/DerivativeMultiPhaseMaterial.i)
- (test/tests/misc/check_error/function_file_test16.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/varying-eps-basic-kt-mixed.i)
- (modules/navier_stokes/test/tests/finite_volume/pins/mms/porosity_change/1d-rc-continuous.i)
- (test/tests/functions/image_function/threshold.i)
- (modules/level_set/examples/rotating_circle/circle_rotate_supg.i)
- (modules/phase_field/test/tests/free_energy_material/RegularSolutionFreeEnergy_plog.i)
- (modules/porous_flow/test/tests/jacobian/fflux10.i)
- (modules/richards/test/tests/buckley_leverett/bl01_lumped.i)
- (test/tests/materials/derivative_material_interface/ad_construction_order.i)
- (modules/xfem/test/tests/moving_interface/phase_transition_3d.i)
- (modules/richards/test/tests/user_objects/uo1.i)
- (test/tests/bcs/coupled_var_neumann/coupled_var_neumann.i)
- (modules/porous_flow/test/tests/heat_advection/heat_advection_1d_KT.i)
- (modules/porous_flow/test/tests/numerical_diffusion/fully_saturated_action.i)
- (modules/porous_flow/test/tests/heat_advection/heat_advection_1d.i)
- (python/peacock/tests/common/spherical_average.i)
- (test/tests/misc/check_error/function_file_test6.i)
- (modules/richards/test/tests/user_objects/uo3.i)
- (test/tests/functions/solution_function/solution_function_test.i)
- (modules/fsi/test/tests/fsi_acoustics/1D_fluid_only/1D_fluid_only.i)
- (test/tests/functions/solution_function/solution_function_scale_transl.i)
- (test/tests/time_integrators/actually_explicit_euler_verification/ee-1d-linear.i)
- (test/tests/mortar/continuity-2d-conforming/equalgradient.i)
- (modules/porous_flow/test/tests/dirackernels/pls03_action.i)
- (test/tests/restart/restart_subapp_not_master/two_step_solve_sub.i)
- (modules/navier_stokes/test/tests/finite_volume/pins/mms/porosity_change/2d-rc-continuous.i)
- (test/tests/kernels/mass_lumping/mass_lumping.i)
- (test/tests/time_steppers/function_dt/function_dt_no_interpolation.i)
- (modules/tensor_mechanics/test/tests/interface_stress/multi.i)
- (modules/phase_field/test/tests/MultiPhase/thirdphasesuppressionmaterial.i)
- (test/tests/postprocessors/displaced_mesh/side.i)
- (test/tests/misc/check_error/function_file_test1.i)
- (modules/porous_flow/test/tests/dispersion/disp01_heavy.i)
- (modules/fluid_properties/test/tests/co2/co2.i)
- (test/tests/functions/image_function/crop.i)
- (test/tests/nodalkernels/constraint_enforcement/upper-and-lower-bound.i)
- (test/tests/misc/check_error/function_conflict.i)
- (modules/phase_field/test/tests/MultiPhase/asymmetriccrosstermbarrierfunction.i)
- (modules/combined/test/tests/CHSplitFlux/flux_gb.i)
- (modules/porous_flow/examples/tidal/atm_tides.i)
- (test/tests/functions/solution_function/solution_function_rot2.i)
- (test/tests/functions/image_function/threshold_adapt.i)
- (modules/phase_field/test/tests/ExpressionBuilderCoupledVectorTest/testCoupledVector.i)
- (test/tests/auxkernels/time_derivative/time_derivative_nl.i)
- (modules/porous_flow/test/tests/chemistry/2species_equilibrium.i)
- (test/tests/auxkernels/grad_component/grad_component_monomial.i)
- (modules/chemical_reactions/examples/calcium_bicarbonate/calcium_bicarbonate.i)
- (modules/chemical_reactions/test/tests/aqueous_equilibrium/2species.i)
- (modules/richards/test/tests/gravity_head_2/gh04.i)
- (modules/combined/test/tests/DiffuseCreep/strain_gb_relax.i)
- (modules/porous_flow/test/tests/energy_conservation/heat02.i)
- (test/tests/fvkernels/fv_burgers/fv_burgers.i)
- (test/tests/time_integrators/explicit-euler/ee-2d-linear-adapt.i)
- (test/tests/ics/array_function_ic/array_function_ic_test.i)
- (modules/chemical_reactions/test/tests/parser/equilibrium_action.i)
- (modules/richards/test/tests/sinks/q2p01.i)
- (modules/geochemistry/test/tests/nodal_void_volume/nodal_void_volume_adaptive.i)
- (test/tests/bcs/sin_bc/sin_neumann_test.i)
- (modules/tensor_mechanics/test/tests/CylindricalRankTwoAux/test.i)
- (modules/navier_stokes/test/tests/bcs/advection_bc/2d_advection_bc.i)
- (test/tests/postprocessors/variable_inner_product/variable_inner_product.i)
- (modules/phase_field/examples/interfacekernels/interface_fluxbc.i)
- (test/tests/functions/constant_function/constant_function_test.i)
- (modules/navier_stokes/test/tests/finite_volume/cns/userobject/HLLC/hllc_uo_1D.i)
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- (modules/richards/test/tests/dirac/bh_fu_04.i)
- (modules/porous_flow/test/tests/jacobian/linear_por.i)
- (modules/porous_flow/examples/tidal/atm_tides_open_hole.i)
- (modules/porous_flow/test/tests/relperm/brooks_corey2.i)
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- (modules/combined/test/tests/DiffuseCreep/stress_flux_n_gb_relax.i)
- (modules/porous_flow/test/tests/hysteresis/hys_pc_03.i)
- (test/tests/time_integrators/explicit-euler/ee-2d-linear.i)
- (modules/richards/test/tests/jacobian_2/jn17.i)
- (modules/richards/test/tests/jacobian_2/jn_lumped_17.i)
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- (modules/porous_flow/test/tests/basic_advection/except2.i)
- (test/tests/functions/parsed/mms_transient_coupled.i)
- (test/tests/misc/check_error/function_file_test9.i)
- (modules/porous_flow/examples/ates/ates.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_1D_adaptivity.i)
- (modules/combined/examples/phase_field-mechanics/kks_mechanics_KHS.i)
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- (modules/porous_flow/test/tests/newton_cooling/nc06.i)
- (tutorials/tutorial03_verification/app/test/tests/step04_mms/2d_mms_spatial.i)
- (test/tests/kernels/conservative_advection/full_upwinding_2D.i)
- (test/tests/transfers/multiapp_userobject_transfer/two_pipe_sub.i)
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- (test/tests/misc/check_error/function_file_test5.i)
- (test/tests/kernels/material_derivatives/material_derivatives_test.i)
- (modules/richards/test/tests/buckley_leverett/bl01_adapt.i)
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- (modules/porous_flow/test/tests/capillary_pressure/vangenuchten3.i)
- (modules/porous_flow/examples/lava_lamp/2phase_convection.i)
- (modules/phase_field/test/tests/phase_field_kernels/ADAllenCahnVariableL.i)
- (modules/geochemistry/test/tests/kernels/time_deriv_2.i)
- (test/tests/bcs/mat_neumann_bc/ad_mat_neumann.i)
- (test/tests/misc/check_error/missing_function_file_test.i)
- (tutorials/darcy_thermo_mech/step04_velocity_aux/tests/auxkernels/velocity_aux/velocity_aux.i)
- (test/tests/transfers/multiapp_vector_pp_transfer/master.i)
- (modules/chemical_reactions/test/tests/aqueous_equilibrium/2species_without_action.i)
- (test/tests/misc/check_error/function_file_test15.i)
- (test/tests/functions/image_function/error/check_error.i)
- (modules/level_set/test/tests/functions/olsson_plane/olsson_plane.i)
- (modules/richards/test/tests/theis/th_lumped_22.i)
- (test/tests/ics/lagrange_ic/3d_second_order.i)
- (modules/richards/test/tests/uo_egs/seff1.i)
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- (test/tests/auxkernels/diffusion_flux/normal_diffusion_flux.i)
- (modules/porous_flow/examples/groundwater/ex02_abstraction.i)
- (test/tests/functions/image_function/component.i)
- (modules/level_set/examples/rotating_circle/circle_rotate_master.i)
- (modules/heat_conduction/test/tests/verify_against_analytical/ad_1D_transient.i)
- (test/tests/bcs/coupled_var_neumann/on_off.i)
- (modules/combined/test/tests/multiphase_mechanics/twophasestress.i)
- (modules/combined/examples/periodic_strain/global_strain_pfm.i)
- (modules/combined/test/tests/GBDependentTensors/gb_property.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_advection/jacobian_03.i)
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- (modules/porous_flow/test/tests/flux_limited_TVD_pflow/jacobian_05.i)
- (modules/combined/examples/phase_field-mechanics/kks_mechanics_VTS.i)
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- (modules/porous_flow/test/tests/aux_kernels/darcy_velocity.i)
- (test/tests/vectorpostprocessors/spherical_average/spherical_average.i)
- (modules/porous_flow/examples/tutorial/06.i)
- (modules/porous_flow/examples/multiapp_fracture_flow/diffusion_multiapp/two_vars.i)
- (modules/porous_flow/test/tests/mass_conservation/mass02.i)
- (modules/tensor_mechanics/test/tests/interface_stress/test.i)
- (test/tests/kernels/conservative_advection/no_upwinding_2D.i)
- (modules/porous_flow/test/tests/capillary_pressure/brooks_corey2.i)
- (test/tests/time_integrators/actually_explicit_euler_verification/ee-1d-quadratic-neumann.i)
- (modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_2D_trimesh.i)
- (modules/combined/test/tests/surface_tension_KKS/surface_tension_VDWgas.i)
- (modules/richards/test/tests/excav/ex01.i)
(test/tests/functions/image_function/image_mesh_2d.i)
[Mesh]
type = ImageMesh
dim = 2
file = stack/test_00.png
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
# ImageFunction gets its file range parameters from ImageMesh,
# when it is present. This prevents duplicating information in
# input files.
type = ImageFunction
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/phase_field/test/tests/automatic_differentiation/admatreaction.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[Variables]
[./u]
[./InitialCondition]
type = FunctionIC
function = cos(x*2*pi)
[../]
[../]
[./v]
[./InitialCondition]
type = FunctionIC
function = sin(x*2*pi)
[../]
[../]
[]
[Kernels]
[./dudt]
type = ADTimeDerivative
variable = u
[../]
[./dvdt]
type = ADTimeDerivative
variable = v
[../]
[./u]
type = ADMatReaction
variable = u
#v = v
[../]
[./v]
type = ADMatReaction
variable = v
[../]
[]
[Materials]
[./L]
type = ADTestDerivativeFunction
function = F3
f_name = L
op = 'u v'
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Debug]
show_var_residual_norms = true
[]
[Executioner]
type = Transient
solve_type = NEWTON
dt = 0.1
num_steps = 5
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/hysteresis/hys_sat_03.i)
# 1-phase hysteresis. Saturation calculation. Primary drying curve with low_extension_type = exponential
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 10
nx = 100
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = pp
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = '1 - 2 * x'
[]
[]
[BCs]
[pp]
type = FunctionDirichletBC
variable = pp
function = '1 - 2 * x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = pp
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
[]
[saturation_calculator]
type = PorousFlow1PhaseHysP
alpha_d = 10.0
alpha_w = 10.0
n_d = 1.1
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 7.0
low_extension_type = exponential
porepressure = pp
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[saturation]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[saturation]
type = PorousFlowPropertyAux
variable = saturation
property = saturation
phase = 0
[]
[]
[VectorPostprocessors]
[sat]
type = LineValueSampler
start_point = '0.5 0 0'
end_point = '9.5 0 0'
num_points = 10
sort_by = x
variable = 'saturation pp'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(modules/richards/test/tests/dirac/bh08.i)
# fully-saturated
# production
# with anisotropic, but diagonal, permeability
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh02.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = 1
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 2E-12 0 0 0 1E-12'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 0.5
dt = 1E-2
solve_type = NEWTON
[]
[Outputs]
file_base = bh08
exodus = false
csv = true
execute_on = timestep_end
[]
(modules/fsi/test/tests/fsi_acoustics/wave_height_bc/wave_height_bc.i)
# Test for `FluidFreeSurfaceBC` BC with only the fluid domain. The domain is 3D with
# lengths 1 X 1 X 0.01 meters. It is subjected to a 2D Gaussian initial condition
# with the peak at the midpoint (0.5, 0.5, 0.01). Wave heights are recorded at the
# midpoint at different times. The recorded wave heights should match with the values
# that are provided.
# Input parameters:
# Dimensions = 3
# Lengths = 1 X 1 X 0.01 meters
# Fluid speed of sound = 1500 m/s
# Initial condition = 0.00001*exp(-((x-0.5)/0.1)^2-((y-0.5)/0.1)^2)
# Fluid domain = true
# Fluid BCs = pressures are zero on all the four edges of the domain and `FluidFreeSurfaceBC` is applied on the front
# Structural domain = false
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 3
nx = 15
ny = 15
nz = 1
xmax = 1
ymax = 1
zmax = 0.01
[]
[]
[GlobalParams]
[]
[Variables]
[./p]
[../]
[]
[AuxVariables]
[./Wave1]
[../]
[]
[Kernels]
[./diffusion]
type = Diffusion
variable = 'p'
[../]
[./inertia]
type = AcousticInertia
variable = p
[../]
[]
[AuxKernels]
[./waves]
type = WaveHeightAuxKernel
variable = 'Wave1'
pressure = p
density = 1e-6
gravity = 9.81
execute_on = timestep_end
[../]
[]
[BCs]
[./leftright_pressure]
type = DirichletBC
variable = p
boundary = 'left right top bottom'
value = 0
[../]
[./free]
type = FluidFreeSurfaceBC
variable = p
boundary = 'front'
alpha = '0.1'
[]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = 'p'
function = initial_cond
boundary = 'front'
[../]
[]
[Functions]
[./initial_cond]
type = ParsedFunction
value = '0.00001*exp(-((x-0.5)/0.1)^2-((y-0.5)/0.1)^2)'
[../]
[]
[Materials]
[./co_sq]
type = GenericConstantMaterial
prop_names = inv_co_sq
prop_values = 4.44e-7
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = 'lu superlu_dist'
start_time = 0.0
end_time = 0.2
dt = 0.005
dtmin = 0.00001
nl_abs_tol = 1e-12
nl_rel_tol = 1e-12
l_tol = 1e-12
l_max_its = 25
timestep_tolerance = 1e-8
automatic_scaling = true
[TimeIntegrator]
type = NewmarkBeta
[]
[]
[Postprocessors]
[./W1]
type = PointValue
point = '0.5 0.5 0.01'
variable = Wave1
[../]
[]
[Outputs]
csv = true
exodus = true
perf_graph = true
print_linear_residuals = true
[]
(modules/combined/test/tests/DiffuseCreep/variable_base_eigen_strain.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 50
ny = 2
xmin = 0
xmax = 10
ymin = 0
ymax = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);0.1+0.01*v'
[../]
[../]
[./mu]
[../]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[AuxVariables]
[./gb]
family = LAGRANGE
order = FIRST
[../]
[./eigen_strain_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./eigen_strain_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_yy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Kernels]
[./conc]
type = CHSplitConcentration
variable = c
mobility = mobility_prop
chemical_potential_var = mu
[../]
[./chempot]
type = CHSplitChemicalPotential
variable = mu
chemical_potential_prop = mu_prop
c = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[./TensorMechanics]
displacements = 'disp_x disp_y'
[../]
[]
[AuxKernels]
[./gb]
type = FunctionAux
variable = gb
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);v'
[../]
[./eigenstrain_xx]
type = RankTwoAux
variable = eigen_strain_xx
rank_two_tensor = eigenstrain
index_i = 0
index_j = 0
[../]
[./eigenstrain_yy]
type = RankTwoAux
variable = eigen_strain_yy
rank_two_tensor = eigenstrain
index_i = 1
index_j = 1
[../]
[./stress_xx]
type = RankTwoAux
variable = stress_xx
rank_two_tensor = stress
index_i = 0
index_j = 0
[../]
[./stress_yy]
type = RankTwoAux
variable = stress_yy
rank_two_tensor = stress
index_i = 1
index_j = 1
[../]
[]
[Materials]
[./chemical_potential]
type = DerivativeParsedMaterial
block = 0
f_name = mu_prop
args = c
function = 'c'
derivative_order = 1
[../]
[./var_dependence]
type = DerivativeParsedMaterial
block = 0
function = 'c*(1.0-c)'
args = c
f_name = var_dep
derivative_order = 1
[../]
[./mobility]
type = CompositeMobilityTensor
block = 0
M_name = mobility_prop
tensors = diffusivity
weights = var_dep
args = c
[../]
[./phase_normal]
type = PhaseNormalTensor
phase = gb
normal_tensor_name = gb_normal
[../]
[./aniso_tensor]
type = GBDependentAnisotropicTensor
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = aniso_tensor
[../]
[./diffusivity]
type = GBDependentDiffusivity
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = diffusivity
[../]
[./eigenstrain_prefactor]
type = DerivativeParsedMaterial
block = 0
function = 'c-0.1'
args = c
f_name = eigenstrain_prefactor
derivative_order = 1
[../]
[./eigenstrain]
type = ComputeVariableBaseEigenStrain
base_tensor_property_name = aniso_tensor
prefactor = eigenstrain_prefactor
eigenstrain_name = eigenstrain
[../]
[./strain]
type = ComputeIncrementalSmallStrain
displacements = 'disp_x disp_y'
eigenstrain_names = eigenstrain
[../]
[./stress]
type = ComputeStrainIncrementBasedStress
[../]
[./elasticity_tensor]
type = ComputeElasticityTensor
C_ijkl = '120.0 80.0'
fill_method = symmetric_isotropic
[../]
[]
[BCs]
[./Periodic]
[./cbc]
auto_direction = 'x y'
variable = c
[../]
[../]
[./fix_x]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[./fix_y]
type = DirichletBC
variable = disp_y
boundary = bottom
value = 0
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -ksp_grmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
nl_rel_tol = 1e-10
nl_max_its = 5
l_tol = 1e-4
l_max_its = 20
dt = 1
num_steps = 5
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(test/tests/time_integrators/explicit-euler/ee-2d-quadratic.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 10
ny = 10
elem_type = QUAD9
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = ((x*x)+(y*y))-(4*t)
[../]
[./exact_fn]
type = ParsedFunction
value = t*((x*x)+(y*y))
[../]
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[BCs]
active = 'all'
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1 2 3'
function = exact_fn
implicit = true
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
scheme = 'explicit-euler'
solve_type = 'LINEAR'
l_tol = 1e-13
start_time = 0.0
num_steps = 20
dt = 0.00005
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/combined/test/tests/phase_field_fracture/crack2d_vi_solver.i)
#This input uses PhaseField-Nonconserved Action to add phase field fracture bulk rate kernels
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 20
ny = 20
xmax = 1
ymax = 1
[]
[]
[GlobalParams]
displacements = 'disp_x disp_y'
[]
[Modules]
[./PhaseField]
[./Nonconserved]
[./c]
free_energy = F
kappa = kappa_op
mobility = L
[../]
[../]
[../]
[./TensorMechanics]
[./Master]
[./mech]
add_variables = true
strain = SMALL
additional_generate_output = 'stress_yy'
save_in = 'resid_x resid_y'
[../]
[../]
[../]
[]
[ICs]
[./c_ic]
type = FunctionIC
function = ic
variable = c
[../]
[]
[Functions]
[./ic]
type = ParsedFunction
value = 'if(x<0.5 & y < 0.55 & y > 0.45,1, 0)'
[../]
[]
[AuxVariables]
[./resid_x]
[../]
[./resid_y]
[../]
[./bounds_dummy]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./solid_x]
type = PhaseFieldFractureMechanicsOffDiag
variable = disp_x
component = 0
c = c
[../]
[./solid_y]
type = PhaseFieldFractureMechanicsOffDiag
variable = disp_y
component = 1
c = c
[../]
[]
[BCs]
[./ydisp]
type = FunctionDirichletBC
variable = disp_y
boundary = top
function = 't'
[../]
[./yfix]
type = DirichletBC
variable = disp_y
boundary = bottom
value = 0
[../]
[./xfix]
type = DirichletBC
variable = disp_x
boundary = 'top bottom'
value = 0
[../]
[]
[Materials]
[./pfbulkmat]
type = GenericConstantMaterial
prop_names = 'gc_prop l visco'
prop_values = '1e-3 0.04 1e-4'
[../]
[./define_mobility]
type = ParsedMaterial
material_property_names = 'gc_prop visco'
f_name = L
function = '1.0/(gc_prop * visco)'
[../]
[./define_kappa]
type = ParsedMaterial
material_property_names = 'gc_prop l'
f_name = kappa_op
function = 'gc_prop * l'
[../]
[./elasticity_tensor]
type = ComputeElasticityTensor
C_ijkl = '120.0 80.0'
fill_method = symmetric_isotropic
[../]
[./damage_stress]
type = ComputeLinearElasticPFFractureStress
c = c
E_name = 'elastic_energy'
D_name = 'degradation'
F_name = 'local_fracture_energy'
decomposition_type = strain_spectral
use_snes_vi_solver = true
[../]
[./degradation]
type = DerivativeParsedMaterial
f_name = degradation
args = 'c'
function = '(1.0-c)^2*(1.0 - eta) + eta'
constant_names = 'eta'
constant_expressions = '0.0'
derivative_order = 2
[../]
[./local_fracture_energy]
type = DerivativeParsedMaterial
f_name = local_fracture_energy
args = 'c'
material_property_names = 'gc_prop l'
function = 'c^2 * gc_prop / 2 / l'
derivative_order = 2
[../]
[./fracture_driving_energy]
type = DerivativeSumMaterial
args = c
sum_materials = 'elastic_energy local_fracture_energy'
derivative_order = 2
f_name = F
[../]
[]
[Postprocessors]
[./resid_x]
type = NodalSum
variable = resid_x
boundary = 2
[../]
[./resid_y]
type = NodalSum
variable = resid_y
boundary = 2
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Bounds]
[./c_upper_bound]
type = ConstantBoundsAux
variable = bounds_dummy
bounded_variable = c
bound_type = upper
bound_value = 1.0
[../]
[./c_lower_bound]
type = VariableOldValueBoundsAux
variable = bounds_dummy
bounded_variable = c
bound_type = lower
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -snes_type'
petsc_options_value = 'lu vinewtonrsls'
nl_rel_tol = 1e-8
l_max_its = 10
nl_max_its = 10
dt = 1e-4
dtmin = 1e-4
num_steps = 2
[]
[Outputs]
exodus = true
[]
(test/tests/misc/check_error/function_file_test8.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
xy_data = '1 2 3'
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(test/tests/kernels/ad_mat_diffusion/1D_transient.i)
# This test solves a 1D transient heat equation
# The error is calculated by comparing to the analytical solution
# The problem setup and analytical solution are taken from "Advanced Engineering
# Mathematics, 10th edition" by Erwin Kreyszig.
# http://www.amazon.com/Advanced-Engineering-Mathematics-Erwin-Kreyszig/dp/0470458364
# It is Example 1 in section 12.6 on page 561
[Mesh]
type = GeneratedMesh
dim = 1
nx = 160
xmax = 80
[]
[Variables]
[./T]
[../]
[]
[ICs]
[./T_IC]
type = FunctionIC
variable = T
function = '100*sin(pi*x/80)'
[../]
[]
[Kernels]
[./diff]
type = MatDiffusion
variable = T
diffusivity = 0.95
[../]
[./dt]
type = CoefTimeDerivative
variable = T
Coefficient = 0.82064
[../]
[]
[BCs]
[./sides]
type = DirichletBC
variable = T
boundary = 'left right'
value = 0
[../]
[]
[Executioner]
type = Transient
dt = 1e-2
end_time = 1
[]
[Postprocessors]
[./error]
type = NodalL2Error
function = '100*sin(pi*x/80)*exp(-0.95/(0.092*8.92)*pi^2/80^2*t)'
variable = T
outputs = console
[../]
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/sinks/s_fu_03.i)
# with fully_upwind = true
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
fully_upwind = true
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.5
al = 1
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.2
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[AuxVariables]
[./seff]
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 2
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-lfout-rfout-mf)/2/(mi+mf))
vars = 'mi mf lfout rfout'
vals = 'mass_init mass_fin left_flux_out right_flux_out'
[../]
[]
[Postprocessors]
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./mass_fin]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./left_flux_out]
type = RichardsPiecewiseLinearSinkFlux
boundary = left
variable = pressure
pressures = '-1 1'
bare_fluxes = '1E2 2E2'
use_mobility = true
use_relperm = true
[../]
[./right_flux_out]
type = RichardsPiecewiseLinearSinkFlux
boundary = right
variable = pressure
pressures = '-1 1'
bare_fluxes = '1E2 2E2'
use_mobility = true
use_relperm = true
[../]
[./p0]
type = PointValue
point = '0 0 0'
variable = pressure
[../]
[./s0]
type = PointValue
point = '0 0 0'
variable = seff
[../]
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
[BCs]
[./left_flux]
type = RichardsPiecewiseLinearSink
boundary = left
pressures = '-1 1'
bare_fluxes = '1E2 2E2'
variable = pressure
use_mobility = true
use_relperm = true
[../]
[./right_flux]
type = RichardsPiecewiseLinearSink
boundary = right
pressures = '-1 1'
bare_fluxes = '1E2 2E2'
variable = pressure
use_mobility = true
use_relperm = true
[../]
[]
[Kernels]
active = 'richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[]
[AuxKernels]
[./seff_auxk]
type = RichardsSeffAux
variable = seff
seff_UO = SeffVG
pressure_vars = 'pressure'
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 2.1E-5 2.2E-5 2.1E-5 0.1E-5 3.3E-5 2.2E-5 3.3E-5 2E-5'
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-10 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 2E-3
end_time = 0.2
[]
[Outputs]
file_base = s_fu_03
csv = true
execute_on = timestep_end
[]
(test/tests/vectorpostprocessors/element_value_sampler/fv_element_value_sampler.i)
# Tests the ElementValueSampler vector post-processor. In this test, 2 FV
# variables are given distributions by a function and are output to a CSV file.
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
ny = 2
[]
[Functions]
[./u_fn]
type = ParsedFunction
value = '2 * x + 3 * y'
[../]
[./v_fn]
type = ParsedFunction
value = 'x + y'
[../]
[]
[AuxVariables]
[./u]
family = MONOMIAL
order = CONSTANT
fv = true
[../]
[./v]
family = MONOMIAL
order = CONSTANT
fv = true
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = u
function = u_fn
[../]
[./v_ic]
type = FunctionIC
variable = v
function = v_fn
[../]
[]
[VectorPostprocessors]
[./element_value_sampler]
type = ElementValueSampler
variable = 'u v'
sort_by = id
execute_on = 'initial'
[../]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
file_base = 'element_value_sampler'
csv = true
execute_on = 'initial'
[]
(test/tests/postprocessors/displaced_mesh/elemental.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
ny = 2
displacements = 'ux uy'
[]
[AuxVariables]
[./ux]
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[./uy]
[./InitialCondition]
type = FunctionIC
function = y
[../]
[../]
[./c]
initial_condition = 1
[../]
[]
[Variables]
[./a]
[../]
[]
[Kernels]
[./a]
type = Diffusion
variable = a
[../]
[]
[Postprocessors]
[./without]
type = ElementIntegralVariablePostprocessor
variable = c
execute_on = initial
[../]
[./with]
type = ElementIntegralVariablePostprocessor
variable = c
use_displaced_mesh = true
execute_on = initial
[../]
[]
[Problem]
solve = false
[]
[Executioner]
type = Transient
num_steps = 0
[]
[Outputs]
[./out]
type = Exodus
[../]
[]
(modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_3D.i)
# Using flux-limited TVD advection ala Kuzmin and Turek, employing PorousFlow Kernels and UserObjects, with superbee flux-limiter
# 3D version
[Mesh]
type = GeneratedMesh
dim = 3
nx = 10
xmin = 0
xmax = 1
ny = 4
ymin = 0
ymax = 0.5
nz = 3
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowFluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = advective_flux_calculator_0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowFluxLimitedTVDAdvection
variable = porepressure
advective_flux_calculator = advective_flux_calculator_1
[]
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[advective_flux_calculator_0]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 0
[]
[advective_flux_calculator_1]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0.5 2'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 0.3
dt = 6E-2
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
print_linear_residuals = false
[out]
type = CSV
execute_on = final
[]
[]
(tutorials/tutorial03_verification/app/test/tests/step04_mms/2d_mms_temporal.i)
[ICs]
active = 'mms'
[mms]
type = FunctionIC
variable = T
function = mms_exact
[]
[]
[BCs]
active = 'mms'
[mms]
type = FunctionDirichletBC
variable = T
boundary = 'left right top bottom'
function = mms_exact
[]
[]
[Kernels]
[mms]
type = HeatSource
variable = T
function = mms_force
[]
[]
[Functions]
[mms_force]
type = ParsedFunction
value = '-3.08641975308642e-5*x*y*cp*rho*exp(-3.08641975308642e-5*t) - shortwave*exp(y*kappa)*sin((1/2)*x*pi)*sin((1/3600)*pi*t/hours)'
vars = 'rho cp k kappa shortwave hours'
vals = '150 2000 0.01 40 650 9'
[]
[mms_exact]
type = ParsedFunction
value = 'x*y*exp(-3.08641975308642e-5*t)'
[]
[]
[Outputs]
csv = true
[]
[Postprocessors]
[error]
type = ElementL2Error
variable = T
function = mms_exact
[]
[delta_t]
type = TimestepSize
[]
[]
(modules/phase_field/test/tests/GrandPotentialPFM/SinteringBase.i)
#input file to test the materials GrandPotentialTensorMaterial and GrandPotentialSinteringMaterial
[Mesh]
type = GeneratedMesh
dim = 2
nx = 17
ny = 17
xmin = 0
xmax = 680
ymin = 0
ymax = 680
[]
[GlobalParams]
op_num = 4
var_name_base = gr
int_width = 40
[]
[Variables]
[./w]
[../]
[./phi]
[../]
[./PolycrystalVariables]
[../]
[]
[AuxVariables]
[./bnds]
[../]
[./T]
order = CONSTANT
family = MONOMIAL
[./InitialCondition]
type = FunctionIC
variable = T
function = f_T
[../]
[../]
[]
[ICs]
[./phi_IC]
type = SpecifiedSmoothCircleIC
variable = phi
x_positions = '190 490 190 490'
y_positions = '190 190 490 490'
z_positions = ' 0 0 0 0'
radii = '150 150 150 150'
invalue = 0
outvalue = 1
[../]
[./gr0_IC]
type = SmoothCircleIC
variable = gr0
x1 = 190
y1 = 190
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[./gr1_IC]
type = SmoothCircleIC
variable = gr1
x1 = 490
y1 = 190
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[./gr2_IC]
type = SmoothCircleIC
variable = gr2
x1 = 190
y1 = 490
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[./gr3_IC]
type = SmoothCircleIC
variable = gr3
x1 = 490
y1 = 490
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[]
[Functions]
[./f_T]
type = ConstantFunction
value = 1600
[../]
[]
[Materials]
# Free energy coefficients for parabolic curves
[./ks]
type = ParsedMaterial
f_name = ks
args = 'T'
constant_names = 'a b'
constant_expressions = '-0.0025 157.16'
function = 'a*T + b'
[../]
[./kv]
type = ParsedMaterial
f_name = kv
material_property_names = 'ks'
function = '10*ks'
[../]
# Diffusivity and mobilities
[./chiD]
type = GrandPotentialTensorMaterial
f_name = chiD
solid_mobility = L
void_mobility = Lv
chi = chi
surface_energy = 19.7
c = phi
T = T
D0 = 2.0e11
GBmob0 = 1.4759e9
Q = 2.77
Em = 2.40
bulkindex = 1
gbindex = 20
surfindex = 100
outputs = exodus
[../]
# Equilibrium vacancy concentration
[./cs_eq]
type = DerivativeParsedMaterial
f_name = cs_eq
args = 'gr0 gr1 gr2 gr3 T'
constant_names = 'Ef c_GB kB'
constant_expressions = '2.69 0.189 8.617343e-5'
function = 'bnds:=gr0^2 + gr1^2 + gr2^2 + gr3^2; exp(-Ef/kB/T) + 4.0 * c_GB * (1 - bnds)^2'
[../]
# Everything else
[./sintering]
type = GrandPotentialSinteringMaterial
chemical_potential = w
void_op = phi
Temperature = T
surface_energy = 19.7
grainboundary_energy = 9.86
void_energy_coefficient = kv
solid_energy_coefficient = ks
equilibrium_vacancy_concentration = cs_eq
solid_energy_model = PARABOLIC
[../]
[]
[Kernels]
[./dt_gr0]
type = TimeDerivative
variable = gr0
[../]
[./dt_gr1]
type = TimeDerivative
variable = gr1
[../]
[./dt_gr2]
type = TimeDerivative
variable = gr2
[../]
[./dt_gr3]
type = TimeDerivative
variable = gr3
[../]
[./dt_phi]
type = TimeDerivative
variable = phi
[../]
[./dt_w]
type = TimeDerivative
variable = w
[../]
[]
[AuxKernels]
[./bnds_aux]
type = BndsCalcAux
variable = bnds
execute_on = 'initial timestep_end'
[../]
[./T_aux]
type = FunctionAux
variable = T
function = f_T
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = JFNK
dt = 1
num_steps = 1
[]
[Outputs]
exodus = true
[]
(test/tests/fvkernels/fv_constant_scalar_advection/2D_constant_scalar_advection.i)
[Mesh]
[./gen_mesh]
type = GeneratedMeshGenerator
dim = 2
xmin = 0
xmax = 2
ymin = 0
ymax = 4
nx = 10
ny = 20
[../]
[]
[Problem]
kernel_coverage_check = off
[]
[Variables]
[./v]
family = MONOMIAL
order = CONSTANT
fv = true
[../]
[]
[ICs]
[./v_ic]
type = FunctionIC
variable = v
function = 'r2 := (x - 0.5)*(x - 0.5) + (y - 0.3)*(y - 0.3); exp(-r2 * 20)'
[../]
[]
[FVKernels]
[./advection]
type = FVAdvection
variable = v
velocity = '1 0.5 0'
[../]
[./time]
type = FVTimeKernel
variable = v
[../]
[]
[FVBCs]
[./fv_outflow]
type = FVConstantScalarOutflowBC
velocity = '1 0.5 0'
variable = v
boundary = 'right top'
[../]
[]
[Executioner]
type = Transient
petsc_options = '-snes_converged_reason'
num_steps = 10
dt = 0.25
nl_rel_tol = 1e-12
[]
[Outputs]
exodus = true
[]
(modules/heat_conduction/test/tests/verify_against_analytical/1D_transient.i)
# This test solves a 1D transient heat equation
# The error is caclulated by comparing to the analytical solution
# The problem setup and analytical solution are taken from "Advanced Engineering
# Mathematics, 10th edition" by Erwin Kreyszig.
# http://www.amazon.com/Advanced-Engineering-Mathematics-Erwin-Kreyszig/dp/0470458364
# It is Example 1 in section 12.6 on page 561
[Mesh]
type = GeneratedMesh
dim = 1
nx = 160
xmax = 80
[]
[Variables]
[./T]
[../]
[]
[ICs]
[./T_IC]
type = FunctionIC
variable = T
function = '100*sin(pi*x/80)'
[../]
[]
[Kernels]
[./HeatDiff]
type = HeatConduction
variable = T
[../]
[./HeatTdot]
type = HeatConductionTimeDerivative
variable = T
[../]
[]
[BCs]
[./sides]
type = DirichletBC
variable = T
boundary = 'left right'
value = 0
[../]
[]
[Materials]
[./k]
type = GenericConstantMaterial
prop_names = 'thermal_conductivity'
prop_values = '0.95' #copper in cal/(cm sec C)
[../]
[./cp]
type = GenericConstantMaterial
prop_names = 'specific_heat'
prop_values = '0.092' #copper in cal/(g C)
[../]
[./rho]
type = GenericConstantMaterial
prop_names = 'density'
prop_values = '8.92' #copper in g/(cm^3)
[../]
[]
[Postprocessors]
[./error]
type = NodalL2Error
function = '100*sin(pi*x/80)*exp(-0.95/(0.092*8.92)*pi^2/80^2*t)'
variable = T
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
l_tol = 1e-6
dt = 2
end_time = 100
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/basic_advection/1phase.i)
# Basic advection of u in a 1-phase situation
#
# grad(P) = -2
# density * gravity = 4 * 0.25
# grad(P) - density * gravity = -3
# permeability = 5
# viscosity = 150
# so Darcy velocity = 0.1
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[P]
[]
[]
[ICs]
[P]
type = FunctionIC
variable = P
function = '2*(1-x)'
[]
[u]
type = FunctionIC
variable = u
function = 'if(x<0.1,1,0)'
[]
[]
[Kernels]
[u_dot]
type = TimeDerivative
variable = u
[]
[u_advection]
type = PorousFlowBasicAdvection
variable = u
phase = 0
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = ''
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e9
density0 = 4
thermal_expansion = 0
viscosity = 150.0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = P
capillary_pressure = pc
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '5 0 0 0 5 0 0 0 5'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 0
phase = 0
[]
[darcy_velocity]
type = PorousFlowDarcyVelocityMaterial
gravity = '0.25 0 0'
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 1
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = 0
variable = u
[]
[]
[Preconditioning]
[basic]
type = SMP
full = true
petsc_options_iname = '-pc_type -snes_rtol'
petsc_options_value = ' lu 1E-10'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 5
[]
[Outputs]
exodus = true
print_linear_residuals = false
[]
(test/tests/functions/image_function/flip_dual.i)
[Mesh]
uniform_refine = 1
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 20
ny = 40
ymax = 2
[]
[top]
type = SubdomainBoundingBoxGenerator
input = gen
top_right = '1 2 0'
bottom_left = '0 1 0'
block_id = 1
[]
[]
[Variables]
[u]
[]
[]
[Functions]
[top]
type = ImageFunction
origin = '0 1 0'
file_base = stack/test
file_suffix = png
flip_y = true
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
dimensions = '1 1 0'
[]
[bottom]
type = ImageFunction
origin = '0 0 0'
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
dimensions = '1 1 0'
[]
[]
[ICs]
[top_ic]
function = top
variable = u
type = FunctionIC
block = 1
[]
[bottom_ic]
function = bottom
variable = u
type = FunctionIC
block = 0
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/uo_egs/relperm.i)
# Outputs a relative permeability curve into an exodus file
# and into a CSV file.
# In the exodus file, the relperm will be a function of "x", and
# this "x" is actually effective saturation.
# In the CSV file you will find the relperm at the "x" point
# specified by you below.
#
# You may specify:
# - the "type" of relative permeability in the UserObjects block
# - the parameters of this relative permeability curve in the UserObjects block
# - the "x" point (which is effective saturation) that you want to extract
# the relative permeability at, if you want a value at a particular point
[UserObjects]
[./relperm]
type = RichardsRelPermPower
simm = 0.1
n = 3
[../]
[]
[Postprocessors]
[./point_val]
type = PointValue
execute_on = timestep_begin
point = '0.5 0 0'
variable = relperm
[../]
[]
############################
# You should not need to change any of the stuff below
############################
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = x
[../]
[]
[AuxVariables]
[./relperm]
[../]
[]
[AuxKernels]
[./relperm_AuxK]
type = RichardsRelPermAux
variable = relperm
relperm_UO = relperm
execute_on = timestep_begin
seff_var = u
[../]
[]
[Kernels]
[./dummy]
type = Diffusion
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
num_steps = 0
[]
[Outputs]
file_base = relperm
[./csv]
type = CSV
[../]
[./exodus]
type = Exodus
hide = u
[../]
[]
(test/tests/userobjects/toggle_mesh_adaptivity/toggle_mesh_adaptivity_gaussian_ic_stop_time.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./gaussian_ic]
type = FunctionIC
variable = u
function = gaussian_2d
[../]
[]
[Functions]
[./gaussian_2d]
type = ParsedFunction
value = exp(-((x-x0)*(x-x0)+(y-y0)*(y-y0))/2.0/sigma/sigma)
vars = 'sigma x0 y0'
vals = '0.05 0.35 0.25'
[../]
[]
[Kernels]
[./diff]
type = CoefDiffusion
variable = u
coef = 0.02
[../]
[./time]
type = TimeDerivative
variable = u
[../]
[]
[BCs]
[./Periodic]
[./all]
variable = u
auto_direction = 'x y'
[../]
[../]
[]
[Executioner]
type = Transient
num_steps = 4
dt = 0.1
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Adaptivity]
initial_steps = 1
initial_marker = marker
cycles_per_step = 1
marker = marker
max_h_level = 2
stop_time = 0.0
[./Markers]
[./marker]
type = CircleMarker
point = '0.35 0.25 0'
radius = 0.2
inside = refine
outside = coarsen
[../]
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
print_mesh_changed_info = true
[../]
[]
(modules/porous_flow/test/tests/numerical_diffusion/pffltvd_action.i)
# Using flux-limited TVD advection ala Kuzmin and Turek, employing PorousFlow Kernels and UserObjects, with superbee flux-limiter
# Using the PorousFlowFullySaturated Action
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[PorousFlowFullySaturated]
porepressure = porepressure
coupling_type = Hydro
fp = the_simple_fluid
mass_fraction_vars = tracer
stabilization = KT
flux_limiter_type = superbee
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
file_base = pffltvd_out
[out]
type = CSV
execute_on = final
[]
[]
(modules/phase_field/examples/kim-kim-suzuki/kks_example_noflux.i)
#
# KKS simple example in the split form
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 150
ny = 15
nz = 0
xmin = -25
xmax = 25
ymin = -2.5
ymax = 2.5
zmin = 0
zmax = 0
elem_type = QUAD4
[]
[AuxVariables]
[./Fglobal]
order = CONSTANT
family = MONOMIAL
[../]
[]
[Variables]
# order parameter
[./eta]
order = FIRST
family = LAGRANGE
[../]
# solute concentration
[./c]
order = FIRST
family = LAGRANGE
[../]
# chemical potential
[./w]
order = FIRST
family = LAGRANGE
[../]
# Liquid phase solute concentration
[./cl]
order = FIRST
family = LAGRANGE
initial_condition = 0.1
[../]
# Solid phase solute concentration
[./cs]
order = FIRST
family = LAGRANGE
initial_condition = 0.9
[../]
[]
[Functions]
[./ic_func_eta]
type = ParsedFunction
value = '0.5*(1.0-tanh((x)/sqrt(2.0)))'
[../]
[./ic_func_c]
type = ParsedFunction
value = '0.9*(0.5*(1.0-tanh(x/sqrt(2.0))))^3*(6*(0.5*(1.0-tanh(x/sqrt(2.0))))^2-15*(0.5*(1.0-tanh(x/sqrt(2.0))))+10)+0.1*(1-(0.5*(1.0-tanh(x/sqrt(2.0))))^3*(6*(0.5*(1.0-tanh(x/sqrt(2.0))))^2-15*(0.5*(1.0-tanh(x/sqrt(2.0))))+10))'
[../]
[]
[ICs]
[./eta]
variable = eta
type = FunctionIC
function = ic_func_eta
[../]
[./c]
variable = c
type = FunctionIC
function = ic_func_c
[../]
[]
[Materials]
# Free energy of the liquid
[./fl]
type = DerivativeParsedMaterial
f_name = fl
args = 'cl'
function = '(0.1-cl)^2'
[../]
# Free energy of the solid
[./fs]
type = DerivativeParsedMaterial
f_name = fs
args = 'cs'
function = '(0.9-cs)^2'
[../]
# h(eta)
[./h_eta]
type = SwitchingFunctionMaterial
h_order = HIGH
eta = eta
[../]
# g(eta)
[./g_eta]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta
[../]
# constant properties
[./constants]
type = GenericConstantMaterial
prop_names = 'M L eps_sq'
prop_values = '0.7 0.7 1.0 '
[../]
[]
[Kernels]
active = 'PhaseConc ChemPotSolute CHBulk ACBulkF ACBulkC ACInterface dcdt detadt ckernel'
# enforce c = (1-h(eta))*cl + h(eta)*cs
[./PhaseConc]
type = KKSPhaseConcentration
ca = cl
variable = cs
c = c
eta = eta
[../]
# enforce pointwise equality of chemical potentials
[./ChemPotSolute]
type = KKSPhaseChemicalPotential
variable = cl
cb = cs
fa_name = fl
fb_name = fs
[../]
#
# Cahn-Hilliard Equation
#
[./CHBulk]
type = KKSSplitCHCRes
variable = c
ca = cl
fa_name = fl
w = w
[../]
[./dcdt]
type = CoupledTimeDerivative
variable = w
v = c
[../]
[./ckernel]
type = SplitCHWRes
mob_name = M
variable = w
[../]
#
# Allen-Cahn Equation
#
[./ACBulkF]
type = KKSACBulkF
variable = eta
fa_name = fl
fb_name = fs
w = 1.0
args = 'cl cs'
[../]
[./ACBulkC]
type = KKSACBulkC
variable = eta
ca = cl
cb = cs
fa_name = fl
[../]
[./ACInterface]
type = ACInterface
variable = eta
kappa_name = eps_sq
[../]
[./detadt]
type = TimeDerivative
variable = eta
[../]
[]
[AuxKernels]
[./GlobalFreeEnergy]
variable = Fglobal
type = KKSGlobalFreeEnergy
fa_name = fl
fb_name = fs
w = 1.0
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm ilu nonzero'
l_max_its = 100
nl_max_its = 100
num_steps = 50
dt = 0.1
[]
#
# Precondition using handcoded off-diagonal terms
#
[Preconditioning]
[./full]
type = SMP
full = true
[../]
[]
[VectorPostprocessors]
[./c]
type = LineValueSampler
start_point = '-25 0 0'
end_point = '25 0 0'
variable = c
num_points = 151
sort_by = id
execute_on = timestep_end
[../]
[./eta]
type = LineValueSampler
start_point = '-25 0 0'
end_point = '25 0 0'
variable = eta
num_points = 151
sort_by = id
execute_on = timestep_end
[../]
[]
[Outputs]
exodus = true
[./csv]
type = CSV
execute_on = final
[../]
[]
(test/tests/ics/function_ic/parsed_function.i)
#
# Test the automatically generated gradients in ParsedFunction and the gradient pass-through in FunctionIC
# OLD MOOSE behavior was for parsed_function to behave the sam eas parsed_zerograd_function
# NEW MOOSE behavior is for parsed_function to behave the same as parsed_grad_function
#
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 3.141
ymin = 0
ymax = 3.141
nx = 10
ny = 10
[]
[Variables]
[./u]
order = THIRD
family = HERMITE
[../]
[]
[Functions]
[./parsed_function]
type = ParsedFunction
value = 'sin(x)-cos(y/2)'
[../]
[./parsed_grad_function]
type =ParsedGradFunction
value = 'sin(x)-cos(y/2)'
grad_x = 'cos(x)'
grad_y = 'sin(y/2)/2'
[../]
[./parsed_zerograd_function]
type = ParsedGradFunction
value = 'sin(x)-cos(y/2)'
grad_x = '0'
grad_y = '0'
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = 'u'
function = parsed_function
[../]
[]
[Executioner]
type = Steady
[]
[Problem]
solve = false
[]
[Outputs]
file_base = parsed
[./OverSampling]
type = Exodus
refinements = 3
[../]
[]
(modules/porous_flow/examples/coal_mining/fine_with_fluid.i)
#################################################################
#
# NOTE:
# The mesh for this model is too large for the MOOSE repository
# so is kept in the the large_media submodule
#
#################################################################
#
# Strata deformation and fluid flow aaround a coal mine - 3D model
#
# A "half model" is used. The mine is 400m deep and
# just the roof is studied (-400<=z<=0). The mining panel
# sits between 0<=x<=150, and 0<=y<=1000, so this simulates
# a coal panel that is 300m wide and 1000m long. The outer boundaries
# are 1km from the excavation boundaries.
#
# The excavation takes 0.5 years.
#
# The boundary conditions for this simulation are:
# - disp_x = 0 at x=0 and x=1150
# - disp_y = 0 at y=-1000 and y=1000
# - disp_z = 0 at z=-400, but there is a time-dependent
# Young modulus that simulates excavation
# - wc_x = 0 at y=-1000 and y=1000
# - wc_y = 0 at x=0 and x=1150
# - no flow at x=0, z=-400 and z=0
# - fixed porepressure at y=-1000, y=1000 and x=1150
# That is, rollers on the sides, free at top,
# and prescribed at bottom in the unexcavated portion.
#
# A single-phase unsaturated fluid is used.
#
# The small strain formulation is used.
#
# All stresses are measured in MPa, and time units are measured in years.
#
# The initial porepressure is hydrostatic with P=0 at z=0, so
# Porepressure ~ - 0.01*z MPa, where the fluid has density 1E3 kg/m^3 and
# gravity = = 10 m.s^-2 = 1E-5 MPa m^2/kg.
# To be more accurate, i use
# Porepressure = -bulk * log(1 + g*rho0*z/bulk)
# where bulk=2E3 MPa and rho0=1Ee kg/m^3.
# The initial stress is consistent with the weight force from undrained
# density 2500 kg/m^3, and fluid porepressure, and a Biot coefficient of 0.7, ie,
# stress_zz^effective = 0.025*z + 0.7 * initial_porepressure
# The maximum and minimum principal horizontal effective stresses are
# assumed to be equal to 0.8*stress_zz.
#
# Material properties:
# Young's modulus = 8 GPa
# Poisson's ratio = 0.25
# Cosserat layer thickness = 1 m
# Cosserat-joint normal stiffness = large
# Cosserat-joint shear stiffness = 1 GPa
# MC cohesion = 2 MPa
# MC friction angle = 35 deg
# MC dilation angle = 8 deg
# MC tensile strength = 1 MPa
# MC compressive strength = 100 MPa
# WeakPlane cohesion = 0.1 MPa
# WeakPlane friction angle = 30 deg
# WeakPlane dilation angle = 10 deg
# WeakPlane tensile strength = 0.1 MPa
# WeakPlane compressive strength = 100 MPa softening to 1 MPa at strain = 1
# Fluid density at zero porepressure = 1E3 kg/m^3
# Fluid bulk modulus = 2E3 MPa
# Fluid viscosity = 1.1E-3 Pa.s = 1.1E-9 MPa.s = 3.5E-17 MPa.year
#
[GlobalParams]
perform_finite_strain_rotations = false
displacements = 'disp_x disp_y disp_z'
Cosserat_rotations = 'wc_x wc_y wc_z'
PorousFlowDictator = dictator
biot_coefficient = 0.7
[]
[Mesh]
[file]
type = FileMeshGenerator
file = fine.e
[]
[xmin]
type = SideSetsAroundSubdomainGenerator
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
new_boundary = xmin
normal = '-1 0 0'
input = file
[]
[xmax]
type = SideSetsAroundSubdomainGenerator
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
new_boundary = xmax
normal = '1 0 0'
input = xmin
[]
[ymin]
type = SideSetsAroundSubdomainGenerator
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
new_boundary = ymin
normal = '0 -1 0'
input = xmax
[]
[ymax]
type = SideSetsAroundSubdomainGenerator
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
new_boundary = ymax
normal = '0 1 0'
input = ymin
[]
[zmax]
type = SideSetsAroundSubdomainGenerator
block = 30
new_boundary = zmax
normal = '0 0 1'
input = ymax
[]
[zmin]
type = SideSetsAroundSubdomainGenerator
block = 2
new_boundary = zmin
normal = '0 0 -1'
input = zmax
[]
[excav]
type = SubdomainBoundingBoxGenerator
input = zmin
block_id = 1
bottom_left = '0 0 -400'
top_right = '150 1000 -397'
[]
[roof]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 3
paired_block = 1
input = excav
new_boundary = roof
[]
[]
[Variables]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[wc_x]
[]
[wc_y]
[]
[porepressure]
scaling = 1E-5
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = ini_pp
[]
[]
[Kernels]
[cx_elastic]
type = CosseratStressDivergenceTensors
use_displaced_mesh = false
variable = disp_x
component = 0
[]
[cy_elastic]
type = CosseratStressDivergenceTensors
use_displaced_mesh = false
variable = disp_y
component = 1
[]
[cz_elastic]
type = CosseratStressDivergenceTensors
use_displaced_mesh = false
variable = disp_z
component = 2
[]
[x_couple]
type = StressDivergenceTensors
use_displaced_mesh = false
variable = wc_x
displacements = 'wc_x wc_y wc_z'
component = 0
base_name = couple
[]
[y_couple]
type = StressDivergenceTensors
use_displaced_mesh = false
variable = wc_y
displacements = 'wc_x wc_y wc_z'
component = 1
base_name = couple
[]
[x_moment]
type = MomentBalancing
use_displaced_mesh = false
variable = wc_x
component = 0
[]
[y_moment]
type = MomentBalancing
use_displaced_mesh = false
variable = wc_y
component = 1
[]
[gravity]
type = Gravity
use_displaced_mesh = false
variable = disp_z
value = -10E-6 # remember this is in MPa
[]
[poro_x]
type = PorousFlowEffectiveStressCoupling
use_displaced_mesh = false
variable = disp_x
component = 0
[]
[poro_y]
type = PorousFlowEffectiveStressCoupling
use_displaced_mesh = false
variable = disp_y
component = 1
[]
[poro_z]
type = PorousFlowEffectiveStressCoupling
use_displaced_mesh = false
component = 2
variable = disp_z
[]
[poro_vol_exp]
type = PorousFlowMassVolumetricExpansion
use_displaced_mesh = false
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
variable = porepressure
fluid_component = 0
[]
[mass0]
type = PorousFlowMassTimeDerivative
use_displaced_mesh = false
fluid_component = 0
variable = porepressure
[]
[flux]
type = PorousFlowAdvectiveFlux
use_displaced_mesh = false
variable = porepressure
gravity = '0 0 -10E-6'
fluid_component = 0
[]
[]
[AuxVariables]
[saturation]
order = CONSTANT
family = MONOMIAL
[]
[darcy_x]
order = CONSTANT
family = MONOMIAL
[]
[darcy_y]
order = CONSTANT
family = MONOMIAL
[]
[darcy_z]
order = CONSTANT
family = MONOMIAL
[]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[wc_z]
[]
[stress_xx]
order = CONSTANT
family = MONOMIAL
[]
[stress_xy]
order = CONSTANT
family = MONOMIAL
[]
[stress_xz]
order = CONSTANT
family = MONOMIAL
[]
[stress_yx]
order = CONSTANT
family = MONOMIAL
[]
[stress_yy]
order = CONSTANT
family = MONOMIAL
[]
[stress_yz]
order = CONSTANT
family = MONOMIAL
[]
[stress_zx]
order = CONSTANT
family = MONOMIAL
[]
[stress_zy]
order = CONSTANT
family = MONOMIAL
[]
[stress_zz]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_xx]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_xy]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_xz]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_yx]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_yy]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_yz]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_zx]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_zy]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_zz]
order = CONSTANT
family = MONOMIAL
[]
[perm_xx]
order = CONSTANT
family = MONOMIAL
[]
[perm_yy]
order = CONSTANT
family = MONOMIAL
[]
[perm_zz]
order = CONSTANT
family = MONOMIAL
[]
[mc_shear]
order = CONSTANT
family = MONOMIAL
[]
[mc_tensile]
order = CONSTANT
family = MONOMIAL
[]
[wp_shear]
order = CONSTANT
family = MONOMIAL
[]
[wp_tensile]
order = CONSTANT
family = MONOMIAL
[]
[wp_shear_f]
order = CONSTANT
family = MONOMIAL
[]
[wp_tensile_f]
order = CONSTANT
family = MONOMIAL
[]
[mc_shear_f]
order = CONSTANT
family = MONOMIAL
[]
[mc_tensile_f]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[saturation_water]
type = PorousFlowPropertyAux
variable = saturation
property = saturation
phase = 0
execute_on = timestep_end
[]
[darcy_x]
type = PorousFlowDarcyVelocityComponent
variable = darcy_x
gravity = '0 0 -10E-6'
component = x
[]
[darcy_y]
type = PorousFlowDarcyVelocityComponent
variable = darcy_y
gravity = '0 0 -10E-6'
component = y
[]
[darcy_z]
type = PorousFlowDarcyVelocityComponent
variable = darcy_z
gravity = '0 0 -10E-6'
component = z
[]
[porosity]
type = PorousFlowPropertyAux
property = porosity
variable = porosity
execute_on = timestep_end
[]
[stress_xx]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_xx
index_i = 0
index_j = 0
execute_on = timestep_end
[]
[stress_xy]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_xy
index_i = 0
index_j = 1
execute_on = timestep_end
[]
[stress_xz]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_xz
index_i = 0
index_j = 2
execute_on = timestep_end
[]
[stress_yx]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_yx
index_i = 1
index_j = 0
execute_on = timestep_end
[]
[stress_yy]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_yy
index_i = 1
index_j = 1
execute_on = timestep_end
[]
[stress_yz]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_yz
index_i = 1
index_j = 2
execute_on = timestep_end
[]
[stress_zx]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_zx
index_i = 2
index_j = 0
execute_on = timestep_end
[]
[stress_zy]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_zy
index_i = 2
index_j = 1
execute_on = timestep_end
[]
[stress_zz]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_zz
index_i = 2
index_j = 2
execute_on = timestep_end
[]
[total_strain_xx]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_xx
index_i = 0
index_j = 0
execute_on = timestep_end
[]
[total_strain_xy]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_xy
index_i = 0
index_j = 1
execute_on = timestep_end
[]
[total_strain_xz]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_xz
index_i = 0
index_j = 2
execute_on = timestep_end
[]
[total_strain_yx]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_yx
index_i = 1
index_j = 0
execute_on = timestep_end
[]
[total_strain_yy]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_yy
index_i = 1
index_j = 1
execute_on = timestep_end
[]
[total_strain_yz]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_yz
index_i = 1
index_j = 2
execute_on = timestep_end
[]
[total_strain_zx]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_zx
index_i = 2
index_j = 0
execute_on = timestep_end
[]
[total_strain_zy]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_zy
index_i = 2
index_j = 1
execute_on = timestep_end
[]
[total_strain_zz]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_zz
index_i = 2
index_j = 2
execute_on = timestep_end
[]
[perm_xx]
type = PorousFlowPropertyAux
property = permeability
variable = perm_xx
row = 0
column = 0
execute_on = timestep_end
[]
[perm_yy]
type = PorousFlowPropertyAux
property = permeability
variable = perm_yy
row = 1
column = 1
execute_on = timestep_end
[]
[perm_zz]
type = PorousFlowPropertyAux
property = permeability
variable = perm_zz
row = 2
column = 2
execute_on = timestep_end
[]
[mc_shear]
type = MaterialStdVectorAux
index = 0
property = mc_plastic_internal_parameter
variable = mc_shear
execute_on = timestep_end
[]
[mc_tensile]
type = MaterialStdVectorAux
index = 1
property = mc_plastic_internal_parameter
variable = mc_tensile
execute_on = timestep_end
[]
[wp_shear]
type = MaterialStdVectorAux
index = 0
property = wp_plastic_internal_parameter
variable = wp_shear
execute_on = timestep_end
[]
[wp_tensile]
type = MaterialStdVectorAux
index = 1
property = wp_plastic_internal_parameter
variable = wp_tensile
execute_on = timestep_end
[]
[mc_shear_f]
type = MaterialStdVectorAux
index = 6
property = mc_plastic_yield_function
variable = mc_shear_f
execute_on = timestep_end
[]
[mc_tensile_f]
type = MaterialStdVectorAux
index = 0
property = mc_plastic_yield_function
variable = mc_tensile_f
execute_on = timestep_end
[]
[wp_shear_f]
type = MaterialStdVectorAux
index = 0
property = wp_plastic_yield_function
variable = wp_shear_f
execute_on = timestep_end
[]
[wp_tensile_f]
type = MaterialStdVectorAux
index = 1
property = wp_plastic_yield_function
variable = wp_tensile_f
execute_on = timestep_end
[]
[]
[BCs]
[no_x]
type = DirichletBC
variable = disp_x
boundary = 'xmin xmax'
value = 0.0
[]
[no_y]
type = DirichletBC
variable = disp_y
boundary = 'ymin ymax'
value = 0.0
[]
[no_z]
type = DirichletBC
variable = disp_z
boundary = zmin
value = 0.0
[]
[no_wc_x]
type = DirichletBC
variable = wc_x
boundary = 'ymin ymax'
value = 0.0
[]
[no_wc_y]
type = DirichletBC
variable = wc_y
boundary = 'xmin xmax'
value = 0.0
[]
[fix_porepressure]
type = FunctionDirichletBC
variable = porepressure
boundary = 'ymin ymax xmax'
function = ini_pp
[]
[roof_porepressure]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
pt_vals = '-1E3 1E3'
multipliers = '-1 1'
fluid_phase = 0
flux_function = roof_conductance
boundary = roof
[]
[roof]
type = StickyBC
variable = disp_z
min_value = -3.0
boundary = roof
[]
[]
[Functions]
[ini_pp]
type = ParsedFunction
vars = 'bulk p0 g rho0'
vals = '2E3 0.0 1E-5 1E3'
value = '-bulk*log(exp(-p0/bulk)+g*rho0*z/bulk)'
[]
[ini_xx]
type = ParsedFunction
vars = 'bulk p0 g rho0 biot'
vals = '2E3 0.0 1E-5 1E3 0.7'
value = '0.8*(2500*10E-6*z+biot*(-bulk*log(exp(-p0/bulk)+g*rho0*z/bulk)))'
[]
[ini_zz]
type = ParsedFunction
vars = 'bulk p0 g rho0 biot'
vals = '2E3 0.0 1E-5 1E3 0.7'
value = '2500*10E-6*z+biot*(-bulk*log(exp(-p0/bulk)+g*rho0*z/bulk))'
[]
[excav_sideways]
type = ParsedFunction
vars = 'end_t ymin ymax minval maxval slope'
vals = '0.5 0 1000.0 1E-9 1 10'
# excavation face at ymin+(ymax-ymin)*min(t/end_t,1)
# slope is the distance over which the modulus reduces from maxval to minval
value = 'if(y<ymin+(ymax-ymin)*min(t/end_t,1),minval,if(y<ymin+(ymax-ymin)*min(t/end_t,1)+slope,minval+(maxval-minval)*(y-(ymin+(ymax-ymin)*min(t/end_t,1)))/slope,maxval))'
[]
[density_sideways]
type = ParsedFunction
vars = 'end_t ymin ymax minval maxval'
vals = '0.5 0 1000.0 0 2500'
value = 'if(y<ymin+(ymax-ymin)*min(t/end_t,1),minval,maxval)'
[]
[roof_conductance]
type = ParsedFunction
vars = 'end_t ymin ymax maxval minval'
vals = '0.5 0 1000.0 1E7 0'
value = 'if(y<ymin+(ymax-ymin)*min(t/end_t,1),maxval,minval)'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure disp_x disp_y disp_z'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1 # MPa^-1
[]
[mc_coh_strong_harden]
type = TensorMechanicsHardeningExponential
value_0 = 1.99 # MPa
value_residual = 2.01 # MPa
rate = 1.0
[]
[mc_fric]
type = TensorMechanicsHardeningConstant
value = 0.61 # 35deg
[]
[mc_dil]
type = TensorMechanicsHardeningConstant
value = 0.15 # 8deg
[]
[mc_tensile_str_strong_harden]
type = TensorMechanicsHardeningExponential
value_0 = 1.0 # MPa
value_residual = 1.0 # MPa
rate = 1.0
[]
[mc_compressive_str]
type = TensorMechanicsHardeningCubic
value_0 = 100 # Large!
value_residual = 100
internal_limit = 0.1
[]
[wp_coh_harden]
type = TensorMechanicsHardeningCubic
value_0 = 0.05
value_residual = 0.05
internal_limit = 10
[]
[wp_tan_fric]
type = TensorMechanicsHardeningConstant
value = 0.26 # 15deg
[]
[wp_tan_dil]
type = TensorMechanicsHardeningConstant
value = 0.18 # 10deg
[]
[wp_tensile_str_harden]
type = TensorMechanicsHardeningCubic
value_0 = 0.05
value_residual = 0.05
internal_limit = 10
[]
[wp_compressive_str_soften]
type = TensorMechanicsHardeningCubic
value_0 = 100
value_residual = 1
internal_limit = 1.0
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E3
density0 = 1000
thermal_expansion = 0
viscosity = 3.5E-17
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[eff_fluid_pressure]
type = PorousFlowEffectiveFluidPressure
[]
[vol_strain]
type = PorousFlowVolumetricStrain
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity_for_aux]
type = PorousFlowPorosity
at_nodes = false
fluid = true
mechanical = true
ensure_positive = true
porosity_zero = 0.02
solid_bulk = 5.3333E3
[]
[porosity_bulk]
type = PorousFlowPorosity
fluid = true
mechanical = true
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
ensure_positive = true
porosity_zero = 0.02
solid_bulk = 5.3333E3
[]
[porosity_excav]
type = PorousFlowPorosityConst
block = 1
porosity = 1.0
[]
[permeability_bulk]
type = PorousFlowPermeabilityKozenyCarman
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
poroperm_function = kozeny_carman_phi0
k0 = 1E-15
phi0 = 0.02
n = 2
m = 2
[]
[permeability_excav]
type = PorousFlowPermeabilityConst
block = 1
permeability = '0 0 0 0 0 0 0 0 0'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 4
s_res = 0.4
sum_s_res = 0.4
phase = 0
[]
[elasticity_tensor_0]
type = ComputeLayeredCosseratElasticityTensor
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
young = 8E3 # MPa
poisson = 0.25
layer_thickness = 1.0
joint_normal_stiffness = 1E9 # huge
joint_shear_stiffness = 1E3 # MPa
[]
[elasticity_tensor_1]
type = ComputeLayeredCosseratElasticityTensor
block = 1
young = 8E3 # MPa
poisson = 0.25
layer_thickness = 1.0
joint_normal_stiffness = 1E9 # huge
joint_shear_stiffness = 1E3 # MPa
elasticity_tensor_prefactor = excav_sideways
[]
[strain]
type = ComputeCosseratIncrementalSmallStrain
eigenstrain_names = ini_stress
[]
[ini_stress]
type = ComputeEigenstrainFromInitialStress
eigenstrain_name = ini_stress
initial_stress = 'ini_xx 0 0 0 ini_xx 0 0 0 ini_zz'
[]
[stress_0]
type = ComputeMultipleInelasticCosseratStress
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
inelastic_models = 'mc wp'
cycle_models = true
relative_tolerance = 2.0
absolute_tolerance = 1E6
max_iterations = 1
tangent_operator = nonlinear
perform_finite_strain_rotations = false
[]
[stress_1]
type = ComputeMultipleInelasticCosseratStress
block = 1
inelastic_models = ''
relative_tolerance = 2.0
absolute_tolerance = 1E6
max_iterations = 1
tangent_operator = nonlinear
perform_finite_strain_rotations = false
[]
[mc]
type = CappedMohrCoulombCosseratStressUpdate
warn_about_precision_loss = false
host_youngs_modulus = 8E3
host_poissons_ratio = 0.25
base_name = mc
tensile_strength = mc_tensile_str_strong_harden
compressive_strength = mc_compressive_str
cohesion = mc_coh_strong_harden
friction_angle = mc_fric
dilation_angle = mc_dil
max_NR_iterations = 100000
smoothing_tol = 0.1 # MPa # Must be linked to cohesion
yield_function_tol = 1E-9 # MPa. this is essentially the lowest possible without lots of precision loss
perfect_guess = true
min_step_size = 1.0
[]
[wp]
type = CappedWeakPlaneCosseratStressUpdate
warn_about_precision_loss = false
base_name = wp
cohesion = wp_coh_harden
tan_friction_angle = wp_tan_fric
tan_dilation_angle = wp_tan_dil
tensile_strength = wp_tensile_str_harden
compressive_strength = wp_compressive_str_soften
max_NR_iterations = 10000
tip_smoother = 0.05
smoothing_tol = 0.05 # MPa # Note, this must be tied to cohesion, otherwise get no possible return at cone apex
yield_function_tol = 1E-11 # MPa. this is essentially the lowest possible without lots of precision loss
perfect_guess = true
min_step_size = 1.0E-3
[]
[undrained_density_0]
type = GenericConstantMaterial
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
prop_names = density
prop_values = 2500
[]
[undrained_density_1]
type = GenericFunctionMaterial
block = 1
prop_names = density
prop_values = density_sideways
[]
[]
[Preconditioning]
[SMP]
type = SMP
full = true
[]
[]
[Postprocessors]
[min_roof_disp]
type = NodalExtremeValue
boundary = roof
value_type = min
variable = disp_z
[]
[min_roof_pp]
type = NodalExtremeValue
boundary = roof
value_type = min
variable = porepressure
[]
[min_surface_disp]
type = NodalExtremeValue
boundary = zmax
value_type = min
variable = disp_z
[]
[min_surface_pp]
type = NodalExtremeValue
boundary = zmax
value_type = min
variable = porepressure
[]
[max_perm_zz]
type = ElementExtremeValue
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30'
variable = perm_zz
[]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
petsc_options = '-snes_converged_reason'
# best overall
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
# best if you don't have mumps:
#petsc_options_iname = '-pc_type -pc_asm_overlap -sub_pc_type -ksp_type -ksp_gmres_restart'
#petsc_options_value = ' asm 2 lu gmres 200'
# very basic:
#petsc_options_iname = '-pc_type -ksp_type -ksp_gmres_restart'
#petsc_options_value = ' bjacobi gmres 200'
line_search = bt
nl_abs_tol = 1e-3
nl_rel_tol = 1e-5
l_max_its = 200
nl_max_its = 30
start_time = 0.0
dt = 0.0025
end_time = 0.5
[]
[Outputs]
interval = 1
print_linear_residuals = true
exodus = true
csv = true
console = true
[]
(modules/porous_flow/examples/tutorial/06_KT.i)
# Darcy flow with a tracer
[Mesh]
[annular]
type = AnnularMeshGenerator
nr = 10
rmin = 1.0
rmax = 10
growth_r = 1.4
nt = 4
dmin = 0
dmax = 90
[]
[make3D]
type = MeshExtruderGenerator
extrusion_vector = '0 0 12'
num_layers = 3
bottom_sideset = 'bottom'
top_sideset = 'top'
input = annular
[]
[shift_down]
type = TransformGenerator
transform = TRANSLATE
vector_value = '0 0 -6'
input = make3D
[]
[aquifer]
type = SubdomainBoundingBoxGenerator
block_id = 1
bottom_left = '0 0 -2'
top_right = '10 10 2'
input = shift_down
[]
[injection_area]
type = ParsedGenerateSideset
combinatorial_geometry = 'x*x+y*y<1.01'
included_subdomain_ids = 1
new_sideset_name = 'injection_area'
input = 'aquifer'
[]
[rename]
type = RenameBlockGenerator
old_block_id = '0 1'
new_block_name = 'caps aquifer'
input = 'injection_area'
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[porepressure]
[]
[tracer_concentration]
[]
[]
[ICs]
[tracer_concentration]
type = FunctionIC
function = '0.5*if(x*x+y*y<1.01,1,0)'
variable = tracer_concentration
[]
[]
[PorousFlowFullySaturated]
porepressure = porepressure
coupling_type = Hydro
gravity = '0 0 0'
fp = the_simple_fluid
mass_fraction_vars = tracer_concentration
stabilization = KT
flux_limiter_type = superbee
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1E6
boundary = injection_area
[]
[constant_outer_porepressure]
type = DirichletBC
variable = porepressure
value = 0
boundary = rmax
[]
[injected_tracer]
type = DirichletBC
variable = tracer_concentration
value = 0.5
boundary = injection_area
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
viscosity = 1.0E-3
density0 = 1000.0
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability_aquifer]
type = PorousFlowPermeabilityConst
block = aquifer
permeability = '1E-14 0 0 0 1E-14 0 0 0 1E-14'
[]
[permeability_caps]
type = PorousFlowPermeabilityConst
block = caps
permeability = '1E-15 0 0 0 1E-15 0 0 0 1E-16'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 1E6
dt = 1E5
nl_rel_tol = 1E-14
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/theis/th21.i)
# two-phase, fully-saturated
# production
[Mesh]
type = FileMesh
file = th01_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '0.5 1 2 10'
x = '0 1 10 100'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-5
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_pressure
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[DiracKernels]
[./bh]
type = RichardsPolyLineSink
pressures = '-1E9 1E9'
fluxes = '200 200'
point_file = th01.points
SumQuantityUO = total_outflow_mass
variable = pwater
[../]
[]
[Postprocessors]
[./flow_report]
type = RichardsPlotQuantity
uo = total_outflow_mass
[../]
[./p50]
type = PointValue
variable = pwater
point = '50 0 0'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E5
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
mat_porosity = 0.1
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 1E-5'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-6 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 100
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = th21
csv = true
[]
(modules/geochemistry/test/tests/kernels/time_deriv_1.i)
# An initial concentration field in a material with constant porosity is subjected to a constant source
# porosity * d(concentration)/dt = source
# The result is checked vs the expected solution, which is conc = conc_old + dt * source / porosity
[Mesh]
type = GeneratedMesh
dim = 3
nx = 2
ny = 4
nz = 2
[]
[Variables]
[conc]
[]
[]
[Kernels]
[dot]
type = GeochemistryTimeDerivative
porosity = porosity
variable = conc
[]
[source]
type = BodyForce
function = 3.0
variable = conc
[]
[]
[ICs]
[conc]
type = FunctionIC
function = 'z * z + 4 * x * x * x + y'
variable = conc
[]
[]
[AuxVariables]
[porosity]
[]
[expected]
[]
[should_be_zero]
[]
[]
[AuxKernels]
[porosity]
type = FunctionAux
function = '6.0'
variable = porosity
[]
[expected]
type = FunctionAux
function = 'z * z + 4 * x * x * x + y + 2.0 * 3.0 / 6.0'
variable = expected
[]
[should_be_zero]
type = ParsedAux
args = 'expected conc'
function = 'expected - conc'
variable = should_be_zero
[]
[]
[Postprocessors]
[error]
type = NodalL2Norm
variable = should_be_zero
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 2
end_time = 2
[]
[Outputs]
csv = true
[]
(test/tests/functions/image_function/shift_and_scale.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
shift = -62735.0
scale = 0.0001
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(test/tests/multiapps/grid-sequencing/vi-fine-alone.i)
l=10
nx=80
num_steps=2
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[bounds][]
[]
[Bounds]
[./u_upper_bounds]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = upper
bound_value = ${l}
[../]
[./u_lower_bounds]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = lower
bound_value = 0
[../]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x'
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = u
[]
[diff]
type = Diffusion
variable = u
[]
[ffn]
type = BodyForce
variable = u
function = 'if(x<5,-1,1)'
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 0
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = ${l}
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options = '-snes_vi_monitor'
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type -snes_type'
petsc_options_value = '0 30 asm 16 basic vinewtonrsls'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
active = 'upper_violations lower_violations'
[upper_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = ${fparse 10+1e-8}
comparator = 'greater'
[]
[lower_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = -1e-8
comparator = 'less'
[]
[nls]
type = NumNonlinearIterations
[]
[cum_nls]
type = CumulativeValuePostprocessor
postprocessor = nls
[]
[]
(modules/level_set/examples/vortex/vortex.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmax = 1
ymax = 1
nx = 16
ny = 16
uniform_refine = 2
elem_type = QUAD9
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[AuxKernels]
[./vec]
type = VectorFunctionAux
variable = velocity
function = velocity_func
execute_on = 'INITIAL TIMESTEP_END'
[../]
[]
[Variables]
[./phi]
family = LAGRANGE
order = FIRST
[../]
[]
[Functions]
[./phi_exact]
type = LevelSetOlssonBubble
epsilon = 0.01184
center = '0.5 0.75 0'
radius = 0.15
[../]
[./velocity_func]
type = LevelSetOlssonVortex
reverse_time = 2
[../]
[]
[ICs]
[./phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[../]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./advection]
type = LevelSetAdvection
velocity = velocity
variable = phi
[../]
[]
[Postprocessors]
[./area]
type = LevelSetVolume
threshold = 0.5
variable = phi
location = outside
execute_on = 'initial timestep_end'
[../]
[./cfl]
type = LevelSetCFLCondition
velocity = velocity
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
start_time = 0
end_time = 2
scheme = crank-nicolson
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
[./TimeStepper]
type = PostprocessorDT
postprocessor = cfl
scale = 0.8
[../]
[]
[Outputs]
csv = true
exodus = true
[]
(test/tests/multiapps/grid-sequencing/vi-fine.i)
l=10
nx=80
num_steps=2
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[bounds][]
[]
[Bounds]
[./u_upper_bounds]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = upper
bound_value = ${l}
[../]
[./u_lower_bounds]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = lower
bound_value = 0
[../]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x'
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = u
[]
[diff]
type = Diffusion
variable = u
[]
[ffn]
type = BodyForce
variable = u
function = 'if(x<5,-1,1)'
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 0
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = ${l}
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options = '-snes_vi_monitor'
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type -snes_type'
petsc_options_value = '0 30 asm 16 basic vinewtonrsls'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
active = 'upper_violations lower_violations'
[upper_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = ${fparse 10+1e-8}
comparator = 'greater'
[]
[lower_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = -1e-8
comparator = 'less'
[]
[nls]
type = NumNonlinearIterations
[]
[cum_nls]
type = CumulativeValuePostprocessor
postprocessor = nls
[]
[]
[MultiApps]
[./coarse]
type = TransientMultiApp
app_type = MooseTestApp
execute_on = timestep_begin
positions = '0 0 0'
input_files = vi-coarse.i
[../]
[]
[Transfers]
[./mesh_function_begin]
type = MultiAppMeshFunctionTransfer
direction = from_multiapp
multi_app = coarse
source_variable = u
variable = u
execute_on = timestep_begin
[../]
[]
(test/tests/time_steppers/timesequence_stepper/timesequence_restart2.i)
[Mesh]
file = timesequence_restart1_cp/0002_mesh.cpr
[]
[Problem]
restart_file_base = timesequence_restart1_cp/0002
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
end_time = 4.0
[./TimeStepper]
type = TimeSequenceStepper
time_sequence = '0 0.85 1.3 2 4'
[../]
[]
[Outputs]
exodus = true
[]
(modules/phase_field/test/tests/free_energy_material/RegularSolutionFreeEnergy_const_T.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmax = 1
[]
[Variables]
[./c]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = c
[../]
[]
[BCs]
[./left]
type = FunctionDirichletBC
variable = c
boundary = left
function = x
[../]
[./right]
type = FunctionDirichletBC
variable = c
boundary = right
function = x
[../]
[]
[Materials]
[./free_energy]
type = RegularSolutionFreeEnergy
f_name = F
c = c
outputs = out
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
l_max_its = 1
nl_max_its = 1
nl_abs_tol = 1
[]
[Outputs]
execute_on = 'timestep_end'
[./out]
type = Exodus
execute_on = timestep_end
[../]
[]
(test/tests/vectorpostprocessors/volume_histogram/volume_histogram.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 200
xmin = -5
xmax = 5
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x<2&x>-2'
[../]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[]
[BCs]
[./all]
type = DirichletBC
variable = c
boundary = 'left right'
value = 0
[../]
[]
[VectorPostprocessors]
[./histo]
type = VolumeHistogram
variable = c
min_value = 0
max_value = 1.1
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
num_steps = 2
dt = 1
solve_type = PJFNK
[]
[Outputs]
execute_on = 'initial timestep_end'
csv = true
[]
(modules/porous_flow/test/tests/relperm/corey3.i)
# Test Corey relative permeability curve by varying saturation over the mesh
# Residual saturation of phase 0: s0r = 0.2
# Residual saturation of phase 1: s1r = 0.3
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
family = LAGRANGE
order = FIRST
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityCorey
phase = 0
n = 2
s_res = 0.2
sum_s_res = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
s_res = 0.3
sum_s_res = 0.5
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-8
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(modules/rdg/test/tests/advection_1d/rdgP0.i)
# This test demonstrates the advection of a tracer in 1D using the RDG module.
# There is no slope limiting. Changing the SlopeLimiting scheme to minmod, mc,
# or superbee means that a linear reconstruction is performed, and the slope
# limited according to the scheme chosen. Doing this produces RDG(P0P1) and
# substantially reduces numerical diffusion
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[Variables]
[./tracer]
order = CONSTANT
family = MONOMIAL
[../]
[]
[ICs]
[./tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[../]
[]
[UserObjects]
[./lslope]
type = AEFVSlopeLimitingOneD
execute_on = 'linear'
scheme = 'none' #none | minmod | mc | superbee
u = tracer
[../]
[./internal_side_flux]
type = AEFVUpwindInternalSideFlux
execute_on = 'linear'
velocity = 0.1
[../]
[./free_outflow_bc]
type = AEFVFreeOutflowBoundaryFlux
execute_on = 'linear'
velocity = 0.1
[../]
[]
[Kernels]
[./dot]
type = TimeDerivative
variable = tracer
[../]
[]
[DGKernels]
[./concentration]
type = AEFVKernel
variable = tracer
component = 'concentration'
flux = internal_side_flux
u = tracer
[../]
[]
[BCs]
[./concentration]
type = AEFVBC
boundary = 'left right'
variable = tracer
component = 'concentration'
flux = free_outflow_bc
u = tracer
[../]
[]
[Materials]
[./aefv]
type = AEFVMaterial
slope_limiting = lslope
u = tracer
[../]
[]
[VectorPostprocessors]
[./tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 100
sort_by = x
variable = tracer
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
end_time = 6
dt = 6E-1
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
#exodus = true
csv = true
execute_on = final
[]
(modules/navier_stokes/test/tests/finite_volume/cns/shock_tube_2D_cavity/hllc_sod_shocktube_2D.i)
rho_left = 1
E_left = 2.501505578
u_left = 1e-15
rho_right = 0.125
E_right = 1.999770935
u_right = 1e-15
x_sep = 35
[GlobalParams]
fp = fp
[]
[Mesh]
[./cartesian]
type = CartesianMeshGenerator
dim = 2
dx = '40 20'
ix = '200 100'
dy = '1 20 2 20 1'
iy = '4 100 10 100 4'
subdomain_id = '0 0
0 1
1 1
0 1
0 0'
[../]
[./wall]
type = SideSetsBetweenSubdomainsGenerator
input = cartesian
primary_block = 1
paired_block = 0
new_boundary = 'wall'
[../]
[./delete]
type = BlockDeletionGenerator
input = wall
block = 0
[../]
[]
[Modules]
[./FluidProperties]
[./fp]
type = IdealGasFluidProperties
allow_imperfect_jacobians = true
[../]
[../]
[]
[Variables]
[./rho]
order = CONSTANT
family = MONOMIAL
fv = true
[../]
[./rho_u]
order = CONSTANT
family = MONOMIAL
fv = true
[../]
[./rho_v]
order = CONSTANT
family = MONOMIAL
fv = true
[../]
[./rho_E]
order = CONSTANT
family = MONOMIAL
fv = true
[../]
[]
[AuxVariables]
[./Ma]
order = CONSTANT
family = MONOMIAL
[../]
[./p]
order = CONSTANT
family = MONOMIAL
[../]
[./v_norm]
order = CONSTANT
family = MONOMIAL
[../]
[./temperature]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./Ma_aux]
type = NSMachAux
variable = Ma
fluid_properties = fp
use_material_properties = true
[../]
[./p_aux]
type = ADMaterialRealAux
variable = p
property = pressure
[../]
[./v_norm_aux]
type = ADMaterialRealAux
variable = v_norm
property = speed
[../]
[./temperature_aux]
type = ADMaterialRealAux
variable = temperature
property = T_fluid
[../]
[]
[FVKernels]
[./mass_time]
type = FVTimeKernel
variable = rho
[../]
[./mass_advection]
type = CNSFVMassHLLC
variable = rho
[../]
[./momentum_x_time]
type = FVTimeKernel
variable = rho_u
[../]
[./momentum_x_advection]
type = CNSFVMomentumHLLC
variable = rho_u
momentum_component = x
[../]
[./momentum_y_time]
type = FVTimeKernel
variable = rho_v
[../]
[./momentum_y_advection]
type = CNSFVMomentumHLLC
variable = rho_v
momentum_component = y
[../]
[./fluid_energy_time]
type = FVTimeKernel
variable = rho_E
[../]
[./fluid_energy_advection]
type = CNSFVFluidEnergyHLLC
variable = rho_E
[../]
[]
[FVBCs]
[./mom_x_pressure]
type = CNSFVMomImplicitPressureBC
variable = rho_u
momentum_component = x
boundary = 'left right wall'
[../]
[./mom_y_pressure]
type = CNSFVMomImplicitPressureBC
variable = rho_v
momentum_component = y
boundary = 'wall'
[../]
[]
[ICs]
[./rho_ic]
type = FunctionIC
variable = rho
function = 'if (x < ${x_sep}, ${rho_left}, ${rho_right})'
[../]
[./rho_u_ic]
type = FunctionIC
variable = rho_u
function = 'if (x < ${x_sep}, ${fparse rho_left * u_left}, ${fparse rho_right * u_right})'
[../]
[./rho_E_ic]
type = FunctionIC
variable = rho_E
function = 'if (x < ${x_sep}, ${fparse E_left * rho_left}, ${fparse E_right * rho_right})'
[../]
[]
[Materials]
[./var_mat]
type = ConservedVarValuesMaterial
rho = rho
rhou = rho_u
rhov = rho_v
rho_et = rho_E
fp = fp
[../]
[./sound_speed]
type = SoundspeedMat
fp = fp
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
[../]
[]
[Postprocessors]
[./cfl_dt]
type = ADCFLTimeStepSize
c_names = 'sound_speed'
vel_names = 'speed'
[../]
[]
[Executioner]
type = Transient
end_time = 100
[TimeIntegrator]
type = ExplicitSSPRungeKutta
order = 2
[]
l_tol = 1e-8
[./TimeStepper]
type = PostprocessorDT
postprocessor = cfl_dt
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/mass_conservation/mass05.i)
# Checking that the mass postprocessor correctly calculates the mass
# of each component in each phase, as well as the total mass of each
# component in all phases.
# 2phase, 2component, constant porosity
[Mesh]
type = GeneratedMesh
dim = 1
nx = 2
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[sat]
[]
[]
[AuxVariables]
[massfrac_ph0_sp0]
initial_condition = 0.3
[]
[massfrac_ph1_sp0]
initial_condition = 0.55
[]
[]
[ICs]
[pinit]
type = ConstantIC
value = 1
variable = pp
[]
[satinit]
type = FunctionIC
function = 1-x
variable = sat
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = sat
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp sat'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 0.1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = pp
phase1_saturation = sat
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac_ph0_sp0 massfrac_ph1_sp0'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[comp0_phase0_mass]
type = PorousFlowFluidMass
fluid_component = 0
phase = 0
[]
[comp0_phase1_mass]
type = PorousFlowFluidMass
fluid_component = 0
phase = 1
[]
[comp0_total_mass]
type = PorousFlowFluidMass
fluid_component = 0
[]
[comp0_total_mass2]
type = PorousFlowFluidMass
fluid_component = 0
phase = '0 1'
[]
[comp1_phase0_mass]
type = PorousFlowFluidMass
fluid_component = 1
phase = 0
[]
[comp1_phase1_mass]
type = PorousFlowFluidMass
fluid_component = 1
phase = 1
[]
[comp1_total_mass]
type = PorousFlowFluidMass
fluid_component = 1
[]
[comp1_total_mass2]
type = PorousFlowFluidMass
fluid_component = 1
phase = '0 1'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
nl_abs_tol = 1e-16
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = mass05
csv = true
[]
(modules/ray_tracing/test/tests/raykernels/variable_integral_ray_kernel/variable_integral_ray_kernel.i)
[Mesh]
[gmg]
type = GeneratedMeshGenerator
dim = 2
nx = 5
ny = 5
xmax = 5
ymax = 5
[]
[]
[Variables/u]
[InitialCondition]
type = FunctionIC
variable = u
function = '(x < 2) * (x + 2 * y) + (x >= 2) * (2 * x + 2 * y - 2)'
[]
[]
[AuxVariables/aux]
order = CONSTANT
family = MONOMIAL
[InitialCondition]
type = FunctionIC
variable = u_ag
function = 'x + y + cos(x)'
[]
[]
[UserObjects]
[study]
type = RepeatableRayStudy
names = 'diag
top_across
bottom_across
partial'
start_points = '0 0 0
0 5 0
0 0 0
0.5 0.5 0'
end_points = '5 5 0
5 5 0
5 0 0
4.5 0.5 0'
[]
[]
[RayKernels]
[variable_integral]
type = VariableIntegralRayKernel
study = study
variable = u
[]
[aux_variable_integral]
type = VariableIntegralRayKernel
study = study
variable = aux
[]
[]
[Postprocessors]
[diag_value]
type = RayIntegralValue
ray_kernel = variable_integral
ray = diag
[]
[top_across_value]
type = RayIntegralValue
ray_kernel = variable_integral
ray = top_across
[]
[bottom_across_value]
type = RayIntegralValue
ray_kernel = variable_integral
ray = bottom_across
[]
[partial_value]
type = RayIntegralValue
ray_kernel = variable_integral
ray = partial
[]
[aux_diag_value]
type = RayIntegralValue
ray_kernel = aux_variable_integral
ray = diag
[]
[aux_top_across_value]
type = RayIntegralValue
ray_kernel = aux_variable_integral
ray = top_across
[]
[aux_bottom_across_value]
type = RayIntegralValue
ray_kernel = aux_variable_integral
ray = bottom_across
[]
[aux_partial_value]
type = RayIntegralValue
ray_kernel = aux_variable_integral
ray = partial
[]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = false
csv = true
[]
(test/tests/materials/derivative_material_interface/ad_parsed_material.i)
#
# Test the parsed function free enery Allen-Cahn Bulk kernel
#
[Mesh]
type = GeneratedMesh
dim = 2
[]
[Variables]
[./eta]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[]
[Kernels]
[./diff]
type = ADMatDiffusion
variable = eta
diffusivity = F
[../]
[./dt]
type = TimeDerivative
variable = eta
[../]
[]
[Materials]
[./consts]
type = ADParsedMaterial
args = 'eta'
function ='(eta-0.5)^2'
outputs = exodus
[../]
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(test/tests/time_integrators/tvdrk2/1d-linear.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 20
elem_type = EDGE2
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x
[../]
[./exact_fn]
type = ParsedFunction
value = t*x
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = u
function = ic
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
[./TimeIntegrator]
type = ExplicitTVDRK2
[../]
solve_type = 'LINEAR'
start_time = 0.0
num_steps = 10
dt = 0.001
l_tol = 1e-15
[]
[Outputs]
exodus = true
perf_graph = true
[]
(modules/richards/test/tests/buckley_leverett/bl22.i)
# two-phase version
# super-sharp front version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1E-4 1E-3 1E-2 2E-2 5E-2 6E-2 0.1 0.2'
x = '0 1E-2 1E-1 1 5 20 40 41'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-4
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-4
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[./bounds_dummy]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[./richardsppenalty]
type = RichardsPPenalty
variable = pgas
a = 1E-18
lower_var = pwater
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_water
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_gas
[../]
[]
[BCs]
[./left_w]
type = DirichletBC
variable = pwater
boundary = left
value = 1E6
[../]
[./left_g]
type = DirichletBC
variable = pgas
boundary = left
value = 1E6
[../]
[./right_w]
type = DirichletBC
variable = pwater
boundary = right
value = -100000
[../]
[./right_g]
type = DirichletBC
variable = pgas
boundary = right
value = 0
[../]
[]
[Functions]
[./initial_water]
type = ParsedFunction
value = 1000000*(1-min(x/5,1))-100000*(max(x-5,0)/max(abs(x-5),1E-10))
[../]
[./initial_gas]
type = ParsedFunction
value = max(1000000*(1-x/5),0)+1000
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 1E-6'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./standard]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_rtol -ksp_atol'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 20 1E-20 1E-20'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 50
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
execute_on = 'timestep_end'
file_base = bl22
print_linear_converged_reason = false
print_nonlinear_converged_reason = false
[./exodus]
type = Exodus
interval = 100000
hide = pgas
execute_on = 'initial final timestep_end'
[../]
[]
(modules/porous_flow/test/tests/sinks/s09_fully_saturated.i)
# Apply a piecewise-linear sink flux to the right-hand side and watch fluid flow to it
#
# This test has a single phase with two components. The test initialises with
# the porous material fully filled with component=1. The left-hand side is fixed
# at porepressure=1 and mass-fraction of the zeroth component being unity.
# The right-hand side has a very strong piecewise-linear flux that keeps the
# porepressure~0 at that side. Fluid mass is extracted by this flux in proportion
# to the fluid component mass fraction.
#
# Therefore, the zeroth fluid component will flow from left to right (down the
# pressure gradient).
#
# The important DE is
# porosity * dc/dt = (perm / visc) * grad(P) * grad(c)
# which is true for c = mass-fraction, and very large bulk modulus of the fluid.
# For grad(P) constant in time and space (as in this example) this is just the
# advection equation for c, with velocity = perm / visc / porosity. The parameters
# are chosen to velocity = 1 m/s.
# In the numerical world, and especially with full upwinding, the advection equation
# suffers from diffusion. In this example, the diffusion is obvious when plotting
# the mass-fraction along the line, but the average velocity of the front is still
# correct at 1 m/s.
# This test uses the FullySaturated version of the flow Kernel. This does not
# suffer from as much numerical diffusion as the standard PorousFlow Kernel since
# it does not employ any upwinding.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp frac'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Variables]
[pp]
[]
[frac]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = 1-x
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = frac
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = pp
[]
[flux0]
type = PorousFlowFullySaturatedDarcyFlow
fluid_component = 0
gravity = '0 0 0'
variable = frac
[]
[flux1]
type = PorousFlowFullySaturatedDarcyFlow
fluid_component = 1
gravity = '0 0 0'
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1e10 # need large in order for constant-velocity advection
density0 = 1 # almost irrelevant, except that the ability of the right BC to keep P fixed at zero is related to density_P0
thermal_expansion = 0
viscosity = 11
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = frac
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 1.1 0 0 0 1.1'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2 # irrelevant in this fully-saturated situation
phase = 0
[]
[]
[BCs]
[lhs_fixed_a]
type = DirichletBC
boundary = 'left'
variable = frac
value = 1
[]
[lhs_fixed_b]
type = DirichletBC
boundary = 'left'
variable = pp
value = 1
[]
[flux0]
type = PorousFlowPiecewiseLinearSink
boundary = 'right'
pt_vals = '-100 100'
multipliers = '-1 1'
variable = frac # the zeroth comonent
mass_fraction_component = 0
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 1E4
[]
[flux1]
type = PorousFlowPiecewiseLinearSink
boundary = 'right'
pt_vals = '-100 100'
multipliers = '-1 1'
variable = pp # comonent 1
mass_fraction_component = 1
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 1E4
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10000 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-2
end_time = 1
nl_rel_tol = 1E-11
nl_abs_tol = 1E-11
[]
[VectorPostprocessors]
[mf]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 100
sort_by = x
variable = frac
[]
[]
[Outputs]
file_base = s09_fully_saturated
[console]
type = Console
execute_on = 'nonlinear linear'
[]
[csv]
type = CSV
sync_times = '0.1 0.5 1'
sync_only = true
[]
interval = 10
[]
(modules/level_set/test/tests/verification/1d_level_set_mms/level_set_mms.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = 0
xmax = 32
nx = 64
uniform_refine = 0
[]
[Variables]
[./phi]
[../]
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[ICs]
[./phi_ic]
function = phi_exact
variable = phi
type = FunctionIC
[../]
[./vel_ic]
type = VectorFunctionIC
variable = velocity
function = velocity_func
[]
[]
[Functions]
[./phi_exact]
type = ParsedFunction
value = 'a*exp(1/(10*t))*sin(2*pi*x/b) + 1'
vars = 'a b'
vals = '1 8'
[../]
[./phi_mms]
type = ParsedFunction
value = '-a*exp(1/(10*t))*sin(2*pi*x/b)/(10*t^2) + 2*pi*a*exp(1/(10*t))*cos(2*pi*x/b)/b'
vars = 'a b'
vals = '1 8'
[../]
[./velocity_func]
type = ParsedVectorFunction
value_x = '1'
value_y = '1'
[../]
[]
[Kernels]
[./phi_advection]
type = LevelSetAdvection
variable = phi
velocity = velocity
[../]
[./phi_time]
type = TimeDerivative
variable = phi
[../]
[./phi_forcing]
type = BodyForce
variable = phi
function = phi_mms
[../]
[]
[Postprocessors]
[./error]
type = ElementL2Error
function = phi_exact
variable = phi
[../]
[./h]
type = AverageElementSize
[../]
[./point]
type = PointValue
point = '0.1 0 0'
variable = phi
[../]
[]
[Executioner]
type = Transient
start_time = 1
dt = 0.01
end_time = 1.25
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
scheme = bdf2
nl_rel_tol = 1e-12
[]
[Outputs]
interval = 10
execute_on = 'timestep_end'
csv = true
[]
(modules/geochemistry/test/tests/kernels/dispersion_1.i)
# Dispersion of a step-function front of concentration
# The initial condition is such that the theoretical result is exactly
# c = erf(x/sqrt(4*t*D)), where D = hydrodynamic_dispersion
#
# The finite mesh resolution and large time-step size means this is only achieved approximately (increasing nx and decreasing results in the error decreasing, but note the series approximation to the error function means that the error should never be exactly zero)
por = 2.0 # this is the porosity. The result should not depend on por in this example since it appears in both terms of the PDE
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = -5
xmax = 5
[]
[Variables]
[conc]
[]
[]
[ICs]
[spike]
type = FunctionIC
variable = conc
function = 'if(x<=0.0, -1.0, 1.0)'
[]
[]
[Kernels]
[dot]
type = GeochemistryTimeDerivative
porosity = ${por}
variable = conc
[]
[disp]
type = GeochemistryDispersion
variable = conc
porosity = ${por}
tensor_coeff = '0.3 0 0 0 0 0 0 0 0'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 0.5
end_time = 1.0
[]
[AuxVariables]
[expected]
[]
[should_be_zero]
[]
[]
[AuxKernels]
[expected]
type = FunctionAux
variable = expected
function = erf
[]
[should_be_zero]
type = ParsedAux
args = 'expected conc'
function = 'expected - conc'
variable = should_be_zero
[]
[]
[Postprocessors]
[error]
type = ElementL2Norm
variable = should_be_zero
[]
[]
[Functions]
[erf]
type = ParsedFunction
# series expansion for evaluating the error function
value = 'xi := x / sqrt(4 * t * 0.3); expxi := exp(-xi * xi); if(x < 0.0, -1.0, if(x > 0.0, 1.0, 0.0)) * 2 / sqrt(pi) * sqrt(1 - expxi) * (sqrt(pi) / 2.0 + 31.0 * expxi / 200.0 - 341.0 * expxi * expxi / 8000.0)'
[]
[]
[Outputs]
exodus = true
execute_on = final
[]
(modules/phase_field/test/tests/misc/coupled_value_function_ic.i)
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 10
ny = 10
[]
[]
# Here we sum up the inverses of the ICs above. This should add up to 2.0 everywhere
[Functions]
[map]
type = ParsedFunction
value = 'x^2+y^3+log(z)+acos(t)'
[]
[]
[Variables]
[out]
[InitialCondition]
type = CoupledValueFunctionIC
function = map
v = 'v1 v2 a3 a4'
[]
[]
[v1]
[InitialCondition]
type = FunctionIC
function = x^(1/2)
[]
[]
[v2]
[InitialCondition]
type = FunctionIC
function = y^(1/3)
[]
[]
[]
[AuxVariables]
[a3]
[InitialCondition]
type = FunctionIC
function = exp(1-x)
[]
[]
[a4]
[InitialCondition]
type = FunctionIC
function = cos(1-y)
[]
[]
[]
[Postprocessors]
[out_min]
type = ElementExtremeValue
variable = out
value_type = min
[]
[out_max]
type = ElementExtremeValue
variable = out
value_type = max
[]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
execute_on = 'FINAL'
csv = true
[]
(test/tests/misc/check_error/wrong_displacement_order.i)
[Mesh]
type = GeneratedMesh
dim = 2
# Mesh uses second-order elements
elem_type = QUAD8
displacements = 'disp_x disp_y'
block_name = pore
block_id = 0
[]
[Variables]
[./temperature]
order = SECOND
[./InitialCondition]
type = ConstantIC
value = 0.0
[../]
[../]
[]
# We are *not* allowed to use FIRST-order displacement vars!
[AuxVariables]
[./disp_x]
[../]
[./disp_y]
[./InitialCondition]
type = FunctionIC
function = displ
[../]
[../]
[]
[Functions]
[./displ]
type = ParsedFunction
value = -1/2*x*(y-0.5)
[../]
[]
[Kernels]
[./diffusion]
type = Diffusion
variable = temperature
use_displaced_mesh = true
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = temperature
boundary = left
value = 1
use_displaced_mesh = true
[../]
[./right]
type = DirichletBC
variable = temperature
boundary = right
value = 0
use_displaced_mesh = true
[../]
[]
[Preconditioning]
[./SMP_PJFNK]
type = SMP
full = true
solve_type = PJFNK
[../]
[]
[Executioner]
type = Transient
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
line_search = none
nl_rel_tol = 1e-6
nl_max_its = 10
l_tol = 1e-8
l_max_its = 50
num_steps = 2 # 200
nl_abs_tol = 1e-10
nl_rel_step_tol = 1e-10
nl_abs_step_tol = 1e-10
[./TimeStepper]
type = ConstantDT
dt = 0.001
[../]
dtmin = .001
[]
[Outputs]
exodus = true
[]
(test/tests/functions/solution_function/solution_function_scale_mult.i)
# checking scale_multiplier
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
nx = 3
ymin = -1
ymax = 1
ny = 3
[]
[UserObjects]
[./solution_uo]
type = SolutionUserObject
mesh = square_with_u_equals_x.e
timestep = 1
system_variables = u
scale_multiplier = '2 2 0'
transformation_order = scale_multiplier
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = solution_fcn
[../]
[]
[Functions]
[./solution_fcn]
type = SolutionFunction
from_variable = u
solution = solution_uo
[../]
[]
[Kernels]
[./diff]
type = TimeDerivative
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
l_max_its = 800
nl_rel_tol = 1e-10
num_steps = 1
end_time = 1
dt = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = solution_function_scale_mult
exodus = true
[]
(modules/porous_flow/test/tests/numerical_diffusion/fltvd_no_antidiffusion.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek, but without any antidiffusion
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = none
u = tracer
velocity = '0.1 0 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-1
nl_abs_tol = 1E-8
nl_max_its = 500
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/richards/test/tests/dirac/bh_fu_08.i)
#fullyupwind
[Mesh]
type = FileMesh
file = bh07_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1000 10000'
x = '100 1000'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[BCs]
[./fix_outer]
type = DirichletBC
boundary = perimeter
variable = pressure
value = 1E7
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFullyUpwindFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh08.bh
borehole_length = 1
borehole_direction = '0 0 1'
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
re_constant = 0.1594
character = 2
fully_upwind = true
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
execute_on = 'initial timestep_end'
[../]
[./fluid_mass]
type = RichardsMass
variable = pressure
execute_on = 'initial timestep_end'
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-11 0 0 0 1E-11 0 0 0 1E-11'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 1000
solve_type = NEWTON
[./TimeStepper]
# get only marginally better results for smaller time steps
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh_fu_08
execute_on = 'initial timestep_end final'
interval = 10000
exodus = true
[]
(test/tests/fvkernels/mms/advective-outflow/kt-limited-advection.i)
a=1.1
c=343
max_abs_eig=${fparse c + a}
[Mesh]
[./gen_mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0.1
xmax = 1.1
nx = 2
[../]
[]
[Problem]
fv_bcs_integrity_check = false
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = exact
[]
[]
[Variables]
[./u]
two_term_boundary_expansion = true
type = MooseVariableFVReal
[../]
[]
[FVKernels]
[./advection_u]
type = FVKTLimitedAdvection
variable = u
velocity = '${a} 0 0'
limiter = 'vanLeer'
max_abs_eig = ${max_abs_eig}
add_artificial_diff = true
[../]
[body_u]
type = FVBodyForce
variable = u
function = 'forcing'
[]
[]
[FVBCs]
[left_u]
type = FVFunctionNeumannBC
boundary = 'left'
function = 'advection'
variable = u
[]
[diri_left]
type = FVFunctionDirichletBC
boundary = 'left'
function = 'exact'
variable = u
[]
[right]
type = FVConstantScalarOutflowBC
variable = u
velocity = '${a} 0 0'
boundary = 'right'
[]
[]
[Functions]
[exact]
type = ParsedFunction
value = 'cos(x)'
[]
[advection]
type = ParsedFunction
value = '${a} * cos(x)'
[]
[forcing]
type = ParsedFunction
value = '-${a} * sin(x)'
[]
[]
[Executioner]
type = Steady
petsc_options_iname = '-snes_linesearch_minlambda'
petsc_options_value = '1e-3'
nl_abs_tol = 1e-9
[]
[Outputs]
file_base = 'kt-limited-advection_out'
[csv]
type = CSV
execute_on = 'final'
[]
[exo]
type = Exodus
execute_on = 'final'
[]
[]
[Postprocessors]
[./L2u]
type = ElementL2Error
variable = u
function = exact
outputs = 'console csv'
execute_on = 'timestep_end'
[../]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(modules/phase_field/examples/kim-kim-suzuki/kks_example_dirichlet.i)
#
# KKS simple example in the split form
#
[Mesh]
type = GeneratedMesh
dim = 2
elem_type = QUAD4
nx = 50
ny = 2
nz = 0
xmin = 0
xmax = 20
ymin = 0
ymax = 0.4
zmin = 0
zmax = 0
[]
[AuxVariables]
[./Fglobal]
order = CONSTANT
family = MONOMIAL
[../]
[]
[Variables]
# order parameter
[./eta]
order = FIRST
family = LAGRANGE
[../]
# hydrogen concentration
[./c]
order = FIRST
family = LAGRANGE
[../]
# chemical potential
[./w]
order = FIRST
family = LAGRANGE
[../]
# Liquid phase solute concentration
[./cl]
order = FIRST
family = LAGRANGE
initial_condition = 0.1
[../]
# Solid phase solute concentration
[./cs]
order = FIRST
family = LAGRANGE
initial_condition = 0.9
[../]
[]
[Functions]
[./ic_func_eta]
type = ParsedFunction
value = 0.5*(1.0-tanh((x)/sqrt(2.0)))
[../]
[./ic_func_c]
type = ParsedFunction
value = '0.9*(0.5*(1.0-tanh(x/sqrt(2.0))))^3*(6*(0.5*(1.0-tanh(x/sqrt(2.0))))^2-15*(0.5*(1.0-tanh(x/sqrt(2.0))))+10)+0.1*(1-(0.5*(1.0-tanh(x/sqrt(2.0))))^3*(6*(0.5*(1.0-tanh(x/sqrt(2.0))))^2-15*(0.5*(1.0-tanh(x/sqrt(2.0))))+10))'
[../]
[]
[ICs]
[./eta]
variable = eta
type = FunctionIC
function = ic_func_eta
[../]
[./c]
variable = c
type = FunctionIC
function = ic_func_c
[../]
[]
[BCs]
[./left_c]
type = DirichletBC
variable = 'c'
boundary = 'left'
value = 0.5
[../]
[./left_eta]
type = DirichletBC
variable = 'eta'
boundary = 'left'
value = 0.5
[../]
[]
[Materials]
# Free energy of the liquid
[./fl]
type = DerivativeParsedMaterial
f_name = fl
args = 'cl'
function = '(0.1-cl)^2'
[../]
# Free energy of the solid
[./fs]
type = DerivativeParsedMaterial
f_name = fs
args = 'cs'
function = '(0.9-cs)^2'
[../]
# h(eta)
[./h_eta]
type = SwitchingFunctionMaterial
h_order = HIGH
eta = eta
[../]
# g(eta)
[./g_eta]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta
[../]
# constant properties
[./constants]
type = GenericConstantMaterial
prop_names = 'M L eps_sq'
prop_values = '0.7 0.7 1.0 '
[../]
[]
[Kernels]
# enforce c = (1-h(eta))*cl + h(eta)*cs
[./PhaseConc]
type = KKSPhaseConcentration
ca = cl
variable = cs
c = c
eta = eta
[../]
# enforce pointwise equality of chemical potentials
[./ChemPotSolute]
type = KKSPhaseChemicalPotential
variable = cl
cb = cs
fa_name = fl
fb_name = fs
[../]
#
# Cahn-Hilliard Equation
#
[./CHBulk]
type = KKSSplitCHCRes
variable = c
ca = cl
fa_name = fl
w = w
[../]
[./dcdt]
type = CoupledTimeDerivative
variable = w
v = c
[../]
[./ckernel]
type = SplitCHWRes
mob_name = M
variable = w
[../]
#
# Allen-Cahn Equation
#
[./ACBulkF]
type = KKSACBulkF
variable = eta
fa_name = fl
fb_name = fs
w = 1.0
args = 'cl cs'
[../]
[./ACBulkC]
type = KKSACBulkC
variable = eta
ca = cl
cb = cs
fa_name = fl
[../]
[./ACInterface]
type = ACInterface
variable = eta
kappa_name = eps_sq
[../]
[./detadt]
type = TimeDerivative
variable = eta
[../]
[]
[AuxKernels]
[./GlobalFreeEnergy]
variable = Fglobal
type = KKSGlobalFreeEnergy
fa_name = fl
fb_name = fs
w = 1.0
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm ilu nonzero'
l_max_its = 100
nl_max_its = 100
nl_abs_tol = 1e-10
end_time = 800
dt = 4.0
[]
#
# Precondition using handcoded off-diagonal terms
#
[Preconditioning]
[./full]
type = SMP
full = true
[../]
[]
[Postprocessors]
[./dofs]
type = NumDOFs
[../]
[./integral]
type = ElementL2Error
variable = eta
function = ic_func_eta
[../]
[]
[Outputs]
exodus = true
console = true
gnuplot = true
[]
(modules/phase_field/test/tests/GrandPotentialPFM/SinteringIdeal.i)
#input file to test the GrandPotentialSinteringMaterial using the ideal energy profile
[Mesh]
type = GeneratedMesh
dim = 2
nx = 17
ny = 10
xmin = 0
xmax = 660
ymin = 0
ymax = 380
[]
[GlobalParams]
op_num = 2
var_name_base = gr
int_width = 40
[]
[Variables]
[./w]
[./InitialCondition]
type = FunctionIC
variable = w
function = f_w
[../]
[../]
[./phi]
[../]
[./PolycrystalVariables]
[../]
[]
[AuxVariables]
[./T]
order = CONSTANT
family = MONOMIAL
[./InitialCondition]
type = FunctionIC
variable = T
function = f_T
[../]
[../]
[]
[ICs]
[./phi_IC]
type = SpecifiedSmoothCircleIC
variable = phi
x_positions = '190 470'
y_positions = '190 190'
z_positions = ' 0 0'
radii = '150 150'
invalue = 0
outvalue = 1
[../]
[./gr0_IC]
type = SmoothCircleIC
variable = gr0
x1 = 190
y1 = 190
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[./gr1_IC]
type = SmoothCircleIC
variable = gr1
x1 = 470
y1 = 190
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[]
[Functions]
[./f_T]
type = ConstantFunction
value = 1600
[../]
[./f_w]
type = ParsedFunction
value = '1.515e-7 * x'
[../]
[]
[Materials]
# Free energy coefficients for parabolic curve
[./kv]
type = ParsedMaterial
f_name = kv
args = 'T'
constant_names = 'a b'
constant_expressions = '-0.025 1571.6'
function = 'a*T + b'
[../]
# Diffusivity and mobilities
[./chiD]
type = GrandPotentialTensorMaterial
f_name = chiD
solid_mobility = L
void_mobility = Lv
chi = chi
surface_energy = 19.7
c = phi
T = T
D0 = 2.0e11
GBmob0 = 1.4759e9
Q = 2.77
Em = 2.40
bulkindex = 1
gbindex = 20
surfindex = 100
[../]
# Equilibrium vacancy concentration
[./cs_eq]
type = DerivativeParsedMaterial
f_name = cs_eq
args = 'gr0 gr1 T'
constant_names = 'Ef Egb kB'
constant_expressions = '2.69 2.1 8.617343e-5'
function = 'bnds:=gr0^2 + gr1^2; cb:=exp(-Ef/kB/T); cgb:=exp(-(Ef-Egb)/kB/T);
cb + 4.0*(cgb-cb)*(1.0 - bnds)^2'
[../]
# Everything else
[./sintering]
type = GrandPotentialSinteringMaterial
chemical_potential = w
void_op = phi
Temperature = T
surface_energy = 19.7
grainboundary_energy = 9.86
void_energy_coefficient = kv
equilibrium_vacancy_concentration = cs_eq
solid_energy_model = IDEAL
outputs = exodus
[../]
# Concentration is only meant for output
[./c]
type = ParsedMaterial
f_name = c
material_property_names = 'hs rhos hv rhov'
constant_names = 'Va'
constant_expressions = '0.04092'
function = 'Va*(hs*rhos + hv*rhov)'
outputs = exodus
[../]
[]
[Kernels]
[./dt_gr0]
type = TimeDerivative
variable = gr0
[../]
[./dt_gr1]
type = TimeDerivative
variable = gr1
[../]
[./dt_phi]
type = TimeDerivative
variable = phi
[../]
[./dt_w]
type = TimeDerivative
variable = w
[../]
[]
[AuxKernels]
[./T_aux]
type = FunctionAux
variable = T
function = f_T
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = JFNK
dt = 1
num_steps = 2
nl_abs_tol = 1e-10
[]
[Outputs]
exodus = true
[]
(modules/combined/test/tests/DiffuseCreep/stress.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 50
ny = 2
xmin = 0
xmax = 10
ymin = 0
ymax = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);0.1+0.1*v'
[../]
[../]
[./mu]
[../]
[./jx]
[../]
[./jy]
[../]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[AuxVariables]
[./gb]
family = LAGRANGE
order = FIRST
[../]
[./creep_strain_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./creep_strain_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./creep_strain_xy]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_xy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Kernels]
[./conc]
type = CHSplitConcentration
variable = c
mobility = mobility_prop
chemical_potential_var = mu
[../]
[./chempot]
type = CHSplitChemicalPotential
variable = mu
chemical_potential_prop = mu_prop
c = c
[../]
[./flux_x]
type = CHSplitFlux
variable = jx
component = 0
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./flux_y]
type = CHSplitFlux
variable = jy
component = 1
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[./TensorMechanics]
displacements = 'disp_x disp_y'
[../]
[]
[AuxKernels]
[./gb]
type = FunctionAux
variable = gb
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);v'
[../]
[./creep_strain_xx]
type = RankTwoAux
variable = creep_strain_xx
rank_two_tensor = creep_strain
index_i = 0
index_j = 0
[../]
[./creep_strain_yy]
type = RankTwoAux
variable = creep_strain_yy
rank_two_tensor = creep_strain
index_i = 1
index_j = 1
[../]
[./creep_strain_xy]
type = RankTwoAux
variable = creep_strain_xy
rank_two_tensor = creep_strain
index_i = 0
index_j = 1
[../]
[./stress_xx]
type = RankTwoAux
variable = stress_xx
rank_two_tensor = stress
index_i = 0
index_j = 0
[../]
[./stress_yy]
type = RankTwoAux
variable = stress_yy
rank_two_tensor = stress
index_i = 1
index_j = 1
[../]
[./stress_xy]
type = RankTwoAux
variable = stress_xy
rank_two_tensor = stress
index_i = 0
index_j = 1
[../]
[]
[Materials]
[./chemical_potential]
type = DerivativeParsedMaterial
block = 0
f_name = mu_prop
args = c
function = 'c'
derivative_order = 1
[../]
[./var_dependence]
type = DerivativeParsedMaterial
block = 0
function = 'c*(1.0-c)'
args = c
f_name = var_dep
derivative_order = 1
[../]
[./mobility]
type = CompositeMobilityTensor
block = 0
M_name = mobility_prop
tensors = diffusivity
weights = var_dep
args = c
[../]
[./phase_normal]
type = PhaseNormalTensor
phase = gb
normal_tensor_name = gb_normal
[../]
[./aniso_tensor]
type = GBDependentAnisotropicTensor
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = aniso_tensor
[../]
[./diffusivity]
type = GBDependentDiffusivity
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = diffusivity
[../]
[./diffuse_strain_increment]
type = FluxBasedStrainIncrement
xflux = jx
yflux = jy
gb = gb
property_name = diffuse
[../]
[./diffuse_creep_strain]
type = SumTensorIncrements
tensor_name = creep_strain
coupled_tensor_increment_names = diffuse
[../]
[./strain]
type = ComputeIncrementalSmallStrain
displacements = 'disp_x disp_y'
[../]
[./stress]
type = ComputeStrainIncrementBasedStress
inelastic_strain_names = creep_strain
[../]
[./elasticity_tensor]
type = ComputeElasticityTensor
C_ijkl = '120.0 80.0'
fill_method = symmetric_isotropic
[../]
[]
[BCs]
[./Periodic]
[./cbc]
auto_direction = 'x y'
variable = c
[../]
[../]
[./fix_x]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[./fix_y]
type = DirichletBC
variable = disp_y
boundary = bottom
value = 0
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -ksp_grmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
nl_rel_tol = 1e-10
nl_max_its = 5
l_tol = 1e-4
l_max_its = 20
dt = 1
num_steps = 5
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(test/tests/misc/check_error/function_file_test11.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_columns_more_data.csv #Will generate error because data has more than two columns
format = columns
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/richards/test/tests/buckley_leverett/bl20.i)
# two-phase version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 30
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '0.1 0.5 0.5 1 2 4'
x = '0 0.1 1 5 40 42'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-5
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[./bounds_dummy]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[./richardsppenalty]
type = RichardsPPenalty
variable = pgas
a = 1E-18
lower_var = pwater
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[Bounds]
[./pwater_upper_bounds]
type = ConstantBoundsAux
variable = bounds_dummy
bounded_variable = pwater
bound_type = upper
bound_value = 1E7
[../]
[./pwater_lower_bounds]
type = ConstantBoundsAux
variable = bounds_dummy
bounded_variable = pwater
bound_type = lower
bound_value = -310000
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_water
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_gas
[../]
[]
[BCs]
[./left_w]
type = DirichletBC
variable = pwater
boundary = left
value = 1E6
[../]
[./left_g]
type = DirichletBC
variable = pgas
boundary = left
value = 1E6
[../]
[./right_w]
type = DirichletBC
variable = pwater
boundary = right
value = -300000
[../]
[./right_g]
type = DirichletBC
variable = pgas
boundary = right
value = 0
[../]
[]
[Functions]
[./initial_water]
type = ParsedFunction
value = 1000000*(1-min(x/5,1))-300000*(max(x-5,0)/max(abs(x-5),1E-10))
[../]
[./initial_gas]
type = ParsedFunction
value = max(1000000*(1-x/5),0)+1000
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 1E-6'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'standard'
[./bounded]
# must use --use-petsc-dm command line argument
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type -ksp_rtol -ksp_atol'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 50 vinewtonssls 1E-20 1E-20'
[../]
[./standard]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -snes_atol -snes_rtol -snes_max_it -ksp_rtol -ksp_atol'
petsc_options_value = 'gmres asm lu NONZERO 1E-10 1E-10 20 1E-20 1E-20'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 50
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bl20
execute_on = 'initial timestep_end final'
interval = 10000
exodus = true
hide = pgas
[]
(modules/fluid_properties/test/tests/brine/brine_tabulated.i)
# Test BrineFluidProperties calculations of density, viscosity and thermal
# conductivity with a TabulatedFluidProperties water.
#
# Experimental density values from Pitzer et al, "Thermodynamic properties
# of aqueous sodium chloride solution", Journal of Physical and Chemical
# Reference Data, 13, 1-102 (1984)
#
# Experimental viscosity values from Phillips et al, "Viscosity of NaCl and
# other solutions up to 350C and 50MPa pressures", LBL-11586 (1980)
#
# Thermal conductivity values from Ozbek and Phillips, "Thermal conductivity of
# aqueous NaCl solutions from 20C to 330C", LBL-9086 (1980)
#
# --------------------------------------------------------------
# Pressure (Mpa) | 20 | 20 | 40
# Temperature (C) | 50 | 200 | 200
# NaCl molality (mol/kg) | 2 | 2 | 5
# NaCl mass fraction (kg/kg) | 0.1047 | 0.1047 | 0.2261
# --------------------------------------------------------------
# Expected values
# --------------------------------------------------------------
# Density (kg/m^3) | 1068.52 | 959.27 | 1065.58
# Viscosity (1e-6Pa.s) | 679.8 | 180.0 | 263.1
# Thermal conductivity (W/m/K) | 0.630 | 0.649 | 0.633
# --------------------------------------------------------------
# Calculated values
# --------------------------------------------------------------
# Density (kg/m^3) | 1067.18 | 958.68 | 1065.46
# Viscosity (1e-6 Pa.s) | 681.1 | 181.98 | 266.1
# Thermal conductivity (W/m/K) | 0.637 | 0.662 | 0.658
# --------------------------------------------------------------
#
# All results are within expected accuracy
[Mesh]
type = GeneratedMesh
dim = 2
nx = 3
ny = 1
xmax = 3
# This test uses ElementalVariableValue postprocessors on specific
# elements, so element numbering needs to stay unchanged
allow_renumbering = false
[]
[Variables]
[./dummy]
[../]
[]
[AuxVariables]
[./pressure]
family = MONOMIAL
order = CONSTANT
[../]
[./temperature]
family = MONOMIAL
order = CONSTANT
[../]
[./xnacl]
family = MONOMIAL
order = CONSTANT
[../]
[./density]
family = MONOMIAL
order = CONSTANT
[../]
[./enthalpy]
family = MONOMIAL
order = CONSTANT
[../]
[./internal_energy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Functions]
[./pic]
type = ParsedFunction
value = 'if(x<2,20e6, 40e6)'
[../]
[./tic]
type = ParsedFunction
value = 'if(x<1, 323.15, 473.15)'
[../]
[./xic]
type = ParsedFunction
value = 'if(x<2,0.1047, 0.2261)'
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
function = pic
variable = pressure
[../]
[./t_ic]
type = FunctionIC
function = tic
variable = temperature
[../]
[./x_ic]
type = FunctionIC
function = xic
variable = xnacl
[../]
[]
[AuxKernels]
[./density]
type = MaterialRealAux
variable = density
property = density
[../]
[./enthalpy]
type = MaterialRealAux
variable = enthalpy
property = enthalpy
[../]
[./internal_energy]
type = MaterialRealAux
variable = internal_energy
property = e
[../]
[]
[Modules]
[./FluidProperties]
[./water]
type = Water97FluidProperties
[../]
[./water_tab]
type = TabulatedFluidProperties
fp = water
save_file = false
[../]
[./brine]
type = BrineFluidProperties
water_fp = water_tab
[../]
[../]
[]
[Materials]
[./fp_mat]
type = MultiComponentFluidPropertiesMaterialPT
pressure = pressure
temperature = temperature
xmass = xnacl
fp = brine
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = dummy
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
[]
[Postprocessors]
[./density0]
type = ElementalVariableValue
variable = density
elementid = 0
[../]
[./density1]
type = ElementalVariableValue
variable = density
elementid = 1
[../]
[./density2]
type = ElementalVariableValue
variable = density
elementid = 2
[../]
[./enthalpy0]
type = ElementalVariableValue
variable = enthalpy
elementid = 0
[../]
[./enthalpy1]
type = ElementalVariableValue
variable = enthalpy
elementid = 1
[../]
[./enthalpy2]
type = ElementalVariableValue
variable = enthalpy
elementid = 2
[../]
[./e0]
type = ElementalVariableValue
variable = internal_energy
elementid = 0
[../]
[./e1]
type = ElementalVariableValue
variable = internal_energy
elementid = 1
[../]
[./e2]
type = ElementalVariableValue
variable = internal_energy
elementid = 2
[../]
[]
[Outputs]
csv = true
file_base = brine_out
[]
(test/tests/time_steppers/timesequence_stepper/csvtimesequence.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
end_time = 10
[./TimeStepper]
type = CSVTimeSequenceStepper
file_name = timesequence.csv
column_name = time1
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/sinks/s06.i)
# apply a half-cubic sink flux and observe the correct behavior
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1.1
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = x*(y+1)
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.3
density0 = 1.1
thermal_expansion = 0
viscosity = 1.1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[AuxVariables]
[flux_out]
[]
[]
[Functions]
[mass10]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)*if(pp>=0,1,pow(1+pow(-al*pp,1.0/(1-m)),-m))'
vars = 'vol por dens0 pp bulk al m'
vals = '0.25 0.1 1.1 p10 1.3 1.1 0.5'
[]
[rate10]
type = ParsedFunction
value = 'fcn*if(pp>center,m,if(pp<themin,0,m/c/c/c*(2*(pp-center)+c)*((pp-center)-c)*((pp-center)-c)))'
vars = 'm fcn pp center sd themin c'
vals = '2 3 p10 0.9 0.5 0.1 -0.8'
[]
[mass10_expect]
type = ParsedFunction
value = 'mass_prev-rate*area*dt'
vars = 'mass_prev rate area dt'
vals = 'm10_prev m10_rate 0.5 2E-3'
[]
[mass11]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)*if(pp>=0,1,pow(1+pow(-al*pp,1.0/(1-m)),-m))'
vars = 'vol por dens0 pp bulk al m'
vals = '0.25 0.1 1.1 p11 1.3 1.1 0.5'
[]
[rate11]
type = ParsedFunction
value = 'fcn*if(pp>center,m,if(pp<themin,0,m/c/c/c*(2*(pp-center)+c)*((pp-center)-c)*((pp-center)-c)))'
vars = 'm fcn pp center sd themin c'
vals = '2 3 p11 0.9 0.5 0.1 -0.8'
[]
[mass11_expect]
type = ParsedFunction
value = 'mass_prev-rate*area*dt'
vars = 'mass_prev rate area dt'
vals = 'm11_prev m11_rate 0.5 2E-3'
[]
[]
[Postprocessors]
[flux00]
type = PointValue
variable = flux_out
point = '0 0 0'
[]
[flux01]
type = PointValue
variable = flux_out
point = '0 1 0'
[]
[flux10]
type = PointValue
variable = flux_out
point = '1 0 0'
[]
[flux11]
type = PointValue
variable = flux_out
point = '1 1 0'
[]
[p00]
type = PointValue
point = '0 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p10]
type = PointValue
point = '1 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m10]
type = FunctionValuePostprocessor
function = mass10
execute_on = 'initial timestep_end'
[]
[m10_prev]
type = FunctionValuePostprocessor
function = mass10
execute_on = 'timestep_begin'
outputs = 'console'
[]
[m10_rate]
type = FunctionValuePostprocessor
function = rate10
execute_on = 'timestep_end'
[]
[m10_expect]
type = FunctionValuePostprocessor
function = mass10_expect
execute_on = 'timestep_end'
[]
[p01]
type = PointValue
point = '0 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p11]
type = PointValue
point = '1 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m11]
type = FunctionValuePostprocessor
function = mass11
execute_on = 'initial timestep_end'
[]
[m11_prev]
type = FunctionValuePostprocessor
function = mass11
execute_on = 'timestep_begin'
outputs = 'console'
[]
[m11_rate]
type = FunctionValuePostprocessor
function = rate11
execute_on = 'timestep_end'
[]
[m11_expect]
type = FunctionValuePostprocessor
function = mass11_expect
execute_on = 'timestep_end'
[]
[]
[BCs]
[flux]
type = PorousFlowHalfCubicSink
boundary = 'left right'
max = 2
cutoff = -0.8
center = 0.9
variable = pp
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 3
save_in = flux_out
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10000 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 2E-3
end_time = 6E-2
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s06
[console]
type = Console
execute_on = 'nonlinear linear'
interval = 5
[]
[csv]
type = CSV
execute_on = 'timestep_end'
interval = 3
[]
[]
(modules/porous_flow/test/tests/energy_conservation/except01.i)
# checking that the heat-energy postprocessor throws the correct error if the phase number is entered incorrectly
[Mesh]
type = GeneratedMesh
dim = 1
nx = 3
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[temp]
[]
[]
[ICs]
[tinit]
type = FunctionIC
function = '100*x'
variable = temp
[]
[pinit]
type = FunctionIC
function = x
variable = pp
[]
[]
[Kernels]
[dummyt]
type = TimeDerivative
variable = temp
[]
[dummyp]
type = TimeDerivative
variable = pp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
viscosity = 0.001
thermal_expansion = 0
cv = 1.3
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 2.2
density = 0.5
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[]
[Postprocessors]
[total_heat]
type = PorousFlowHeatEnergy
phase = 1
[]
[rock_heat]
type = PorousFlowHeatEnergy
[]
[fluid_heat]
type = PorousFlowHeatEnergy
include_porous_skeleton = false
phase = 0
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1 1 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = except01
csv = true
[]
(test/tests/auxkernels/solution_aux/aux_nonlinear_solution_adapt_xda.i)
[Mesh]
# This test uses SolutionUserObject which doesn't work with DistributedMesh.
type = FileMesh
file = aux_nonlinear_solution_adapt_out_0004_mesh.xda
parallel_type = replicated
[]
[Adaptivity]
marker = error_frac
steps = 2
[./Indicators]
[./jump_indicator]
type = GradientJumpIndicator
variable = u
[../]
[../]
[./Markers]
[./error_frac]
type = ErrorFractionMarker
indicator = jump_indicator
refine = 0.7
[../]
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./u_aux]
[../]
[]
[Functions]
[./u_xda_func]
type = SolutionFunction
solution = xda_u
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[AuxKernels]
[./aux_xda_kernel]
type = SolutionAux
variable = u_aux
solution = xda_u_aux
execute_on = initial
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[./right]
type = DirichletBC
variable = u
boundary = 2
value = 2
[../]
[]
[UserObjects]
[./xda_u_aux]
type = SolutionUserObject
system = aux0
mesh = aux_nonlinear_solution_adapt_out_0004_mesh.xda
es = aux_nonlinear_solution_adapt_out_0004.xda
system_variables = u_aux
execute_on = initial
[../]
[./xda_u]
type = SolutionUserObject
system = nl0
mesh = aux_nonlinear_solution_adapt_out_0004_mesh.xda
es = aux_nonlinear_solution_adapt_out_0004.xda
system_variables = u
execute_on = initial
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
nl_rel_tol = 1e-10
[]
[Outputs]
exodus = true
[]
[ICs]
[./u_func_ic]
function = u_xda_func
variable = u
type = FunctionIC
[../]
[]
(modules/porous_flow/test/tests/aux_kernels/darcy_velocity_lower.i)
# checking that the PorousFlowDarcyVelocityComponentLowerDimensional AuxKernel works as expected
# for the fully-saturated case (relative-permeability = 1)
# The fractured_block.e has size = 10x10x10, and a fracture running through its
# centre, with normal = (0, -sin(20deg), cos(20deg))
# Porepressure is initialised to grad(P) = (0, 0, 1)
# Fluid_density = 2
# viscosity = 10
# relative_permeability = 1
# permeability = (5, 5, 5) (in the bulk)
# permeability = (10, 10, 10) (in the fracture)
# aperture = 1
# gravity = (1, 0.5, 0.2)
# So Darcy velocity in the bulk = (1, 0.5, -0.3)
# in the fracture grad(P) = (0, 0.3213938, 0.11697778)
# In the fracture the projected gravity vector is
# tangential_gravity = (1, 0.5057899, 0.18409245)
# So the Darcy velocity in the fracture = (2, 0.690186, 0.251207)
[Mesh]
type = FileMesh
file = fractured_block.e
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '1 0.5 0.2'
[]
[Variables]
[pp]
[]
[]
[ICs]
[pinit]
type = FunctionIC
function = z
variable = pp
[]
[]
[Kernels]
[dummy]
type = TimeDerivative
variable = pp
[]
[]
[AuxVariables]
[bulk_vel_x]
order = CONSTANT
family = MONOMIAL
[]
[bulk_vel_y]
order = CONSTANT
family = MONOMIAL
[]
[bulk_vel_z]
order = CONSTANT
family = MONOMIAL
[]
[fracture_vel_x]
order = CONSTANT
family = MONOMIAL
block = 3
[]
[fracture_vel_y]
order = CONSTANT
family = MONOMIAL
block = 3
[]
[fracture_vel_z]
order = CONSTANT
family = MONOMIAL
block = 3
[]
[]
[AuxKernels]
[bulk_vel_x]
type = PorousFlowDarcyVelocityComponent
variable = bulk_vel_x
component = x
fluid_phase = 0
[]
[bulk_vel_y]
type = PorousFlowDarcyVelocityComponent
variable = bulk_vel_y
component = y
fluid_phase = 0
[]
[bulk_vel_z]
type = PorousFlowDarcyVelocityComponent
variable = bulk_vel_z
component = z
fluid_phase = 0
[]
[fracture_vel_x]
type = PorousFlowDarcyVelocityComponentLowerDimensional
variable = fracture_vel_x
component = x
fluid_phase = 0
[]
[fracture_vel_y]
type = PorousFlowDarcyVelocityComponentLowerDimensional
variable = fracture_vel_y
component = y
fluid_phase = 0
[]
[fracture_vel_z]
type = PorousFlowDarcyVelocityComponentLowerDimensional
variable = fracture_vel_z
component = z
fluid_phase = 0
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1E16
viscosity = 10
density0 = 2
thermal_expansion = 0
[]
[]
[]
[Postprocessors]
[bulk_vel_x]
type = ElementAverageValue
block = 1
variable = bulk_vel_x
[]
[bulk_vel_y]
type = ElementAverageValue
block = 1
variable = bulk_vel_y
[]
[bulk_vel_z]
type = ElementAverageValue
block = 1
variable = bulk_vel_z
[]
[fracture_vel_x]
type = ElementAverageValue
block = 3
variable = fracture_vel_x
[]
[fracture_vel_y]
type = ElementAverageValue
block = 3
variable = fracture_vel_y
[]
[fracture_vel_z]
type = ElementAverageValue
block = 3
variable = fracture_vel_z
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '5 0 0 0 5 0 0 0 5'
block = '1 2'
[]
[permeability_fracture]
type = PorousFlowPermeabilityConst
permeability = '10 0 0 0 10 0 0 0 10'
block = 3
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[Executioner]
type = Transient
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(test/tests/functions/image_function/subset.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
uniform_refine = 2
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
origin = '0.25 0.25 0'
dimensions = '0.5 0.5 0'
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(test/tests/dgkernels/dg_displacement/dg_displacement.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
displacements = 'disp_x disp_y'
[]
[Variables]
[./u]
order = FIRST
family = MONOMIAL
[../]
[]
[AuxVariables]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[Functions]
[./forcing_fn]
type = ParsedFunction
value = 2*pow(e,-x-(y*y))*(1-2*y*y)
[../]
[./exact_fn]
type = ParsedGradFunction
value = pow(e,-x-(y*y))
grad_x = -pow(e,-x-(y*y))
grad_y = -2*y*pow(e,-x-(y*y))
[../]
[./disp_func]
type = ParsedFunction
value = x
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[./abs]
type = Reaction
variable = u
[../]
[./forcing]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[DGKernels]
[./dg_diff]
type = DGDiffusion
variable = u
epsilon = -1
sigma = 6
use_displaced_mesh = true
[../]
[]
[BCs]
[./all]
type = DGFunctionDiffusionDirichletBC
variable = u
boundary = '0 1 2 3'
function = exact_fn
epsilon = -1
sigma = 6
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
nl_rel_tol = 1e-10
[]
[Outputs]
execute_on = 'timestep_end'
file_base = out
exodus = true
[]
[ICs]
[./disp_x_ic]
function = disp_func
variable = disp_x
type = FunctionIC
[../]
[]
(modules/porous_flow/test/tests/dispersion/disp01.i)
# Test dispersive part of PorousFlowDispersiveFlux kernel by setting diffusion
# coefficients to zero. A pressure gradient is applied over the mesh to give a
# uniform velocity. Gravity is set to zero.
# Mass fraction is set to 1 on the left hand side and 0 on the right hand side.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmax = 10
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[pp]
[]
[massfrac0]
[]
[]
[AuxVariables]
[velocity]
family = MONOMIAL
order = FIRST
[]
[]
[AuxKernels]
[velocity]
type = PorousFlowDarcyVelocityComponent
variable = velocity
component = x
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = pic
[]
[massfrac0]
type = ConstantIC
variable = massfrac0
value = 0
[]
[]
[Functions]
[pic]
type = ParsedFunction
value = 1.1e5-x*1e3
[]
[]
[BCs]
[xleft]
type = DirichletBC
value = 1
variable = massfrac0
boundary = left
[]
[xright]
type = DirichletBC
value = 0
variable = massfrac0
boundary = right
[]
[pright]
type = DirichletBC
variable = pp
boundary = right
value = 1e5
[]
[pleft]
type = DirichletBC
variable = pp
boundary = left
value = 1.1e5
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[adv0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pp
[]
[diff0]
type = PorousFlowDispersiveFlux
variable = pp
disp_trans = 0
disp_long = 0.2
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = massfrac0
[]
[adv1]
type = PorousFlowAdvectiveFlux
fluid_component = 1
variable = massfrac0
[]
[diff1]
type = PorousFlowDispersiveFlux
fluid_component = 1
variable = massfrac0
disp_trans = 0
disp_long = 0.2
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp massfrac0'
number_fluid_phases = 1
number_fluid_components = 2
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1e9
density0 = 1000
viscosity = 0.001
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseFullySaturated
porepressure = pp
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = massfrac0
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[poro]
type = PorousFlowPorosityConst
porosity = 0.3
[]
[diff]
type = PorousFlowDiffusivityConst
diffusion_coeff = '0 0'
tortuosity = 0.1
[]
[relp]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1e-9 0 0 0 1e-9 0 0 0 1e-9'
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu NONZERO 2 '
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 1e3
dtmax = 50
[TimeStepper]
type = IterationAdaptiveDT
growth_factor = 1.5
cutback_factor = 0.5
dt = 1
[]
[]
[VectorPostprocessors]
[xmass]
type = NodalValueSampler
sort_by = id
variable = massfrac0
[]
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/richards/test/tests/newton_cooling/nc02.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1000
ny = 1
xmin = 0
xmax = 100
ymin = 0
ymax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 1.0E6
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGnone]
type = RichardsSUPGnone
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Functions]
active = 'initial_pressure'
[./initial_pressure]
type = ParsedFunction
value = 2000000-x*1000000/100
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = pressure
boundary = left
value = 2E6
[../]
[./newton]
type = RichardsPiecewiseLinearSink
variable = pressure
boundary = right
pressures = '0 100000 200000 300000 400000 500000 600000 700000 800000 900000 1000000 1100000 1200000 1300000 1400000 1500000 1600000 1700000 1800000 1900000 2000000'
bare_fluxes = '0. 5.6677197748570516e-6 0.000011931518841831313 0.00001885408740732065 0.000026504708864284114 0.000034959953203725676 0.000044304443352900224 0.00005463170211001232 0.00006604508815181467 0.00007865883048198513 0.00009259917167338928 0.00010800563134618119 0.00012503240252705603 0.00014384989486488752 0.00016464644014777016 0.00018763017719085535 0.0002130311349595711 0.00024110353477682344 0.00027212833465544285 0.00030641604122040985 0.00034430981736352295'
use_mobility = false
use_relperm = false
[../]
[]
[Kernels]
active = 'richardsf'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-15 0 0 0 1E-15 0 0 0 1E-15'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGnone
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'andy'
[./andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-15 10000'
[../]
[]
[Executioner]
type = Steady
snesmf_reuse_base = false
[]
[Outputs]
execute_on = 'timestep_end'
file_base = nc02
exodus = true
[]
(modules/porous_flow/test/tests/relperm/vangenuchten1.i)
# Test van Genuchten relative permeability curve by varying saturation over the mesh
# van Genuchten exponent m = 0.5 for both phases
# No residual saturation in either phase
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityVG
phase = 0
m = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityVG
phase = 1
m = 0.5
wetting = false
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-7
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(test/tests/postprocessors/element_l1_error/element_l1_error.i)
# Tests the ElementL1Error post-processor.
#
# The Element L1 error is defined as follows:
# \sum\limits_i = int\limits_{\Omega_i} |y_{h,i} - y(x)| d\Omega
# where i is the element index and y_h is the approximate solution.
#
# This example uses 2 uniform elements on (0,10) with the following values:
# (0,5): y = 3, y_h = 5
# (5,10): y = 2, y_h = 6
# Thus the gold value is
# gold = 5*(5-3) + 5*(6-2) = 10 + 20 = 30
[Mesh]
type = GeneratedMesh
dim = 1
nx = 2
xmin = 0
xmax = 10
[]
[Variables]
[u]
order = CONSTANT
family = MONOMIAL
[]
[]
[ICs]
[u_ic]
type = FunctionIC
variable = u
function = u_ic_fn
[]
[]
[Functions]
[u_ic_fn]
type = ParsedFunction
value = 'if(x<5,5,6)'
[]
[u_exact_fn]
type = ParsedFunction
value = 'if(x<5,3,2)'
[]
[]
[Executioner]
type = Steady
[]
[Problem]
solve = false
[]
[Postprocessors]
[err]
type = ElementL1Error
variable = u
function = u_exact_fn
execute_on = 'initial'
[]
[]
[Outputs]
csv = true
execute_on = 'initial'
[]
(test/tests/kernels/material_coupled_force/material_coupled_force.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
nx = 10
ymin = 0
ymax = 2
ny = 10
[]
[Variables]
[./u]
[../]
[]
[AuxVariables]
[./v1]
initial_condition = 3
[../]
[./v2]
[../]
[]
[ICs]
[./v2_ic]
type = FunctionIC
variable = v2
function = v2_func
[../]
[]
[Functions]
[./v2_func]
type = ParsedFunction
value = 'x + 2 * y'
[../]
[./reference]
type = ParsedFunction
value = '3 * (-1) * 3.5 + (x + 2 * y) * 15 * 1.2'
[../]
[]
[Materials]
[./mat]
type = GenericConstantMaterial
prop_names = 'm1 m2'
prop_values = '-1 15'
[../]
[]
[Kernels]
[./reaction]
type = Reaction
variable = u
[../]
[./coupled]
type = MatCoupledForce
variable = u
v = 'v1 v2'
coef = '3.5 1.2'
material_properties = 'm1 m2'
[../]
[]
[Postprocessors]
[./error]
type = ElementL2Error
function = reference
variable = u
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/sinks/s01.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.5
al = 1 # same deal with PETScs constant state
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.2
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 2
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-lfout-rfout-mf)/2/(mi+mf))
vars = 'mi mf lfout rfout'
vals = 'mass_init mass_fin left_flux_out right_flux_out'
[../]
[]
[Postprocessors]
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./mass_fin]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./left_flux_out]
type = RichardsPiecewiseLinearSinkFlux
boundary = left
variable = pressure
pressures = '0 1'
bare_fluxes = '1 2'
use_mobility = false
use_relperm = false
[../]
[./right_flux_out]
type = RichardsPiecewiseLinearSinkFlux
boundary = right
variable = pressure
pressures = '0 1'
bare_fluxes = '1 2'
use_mobility = false
use_relperm = false
[../]
[./p0]
type = PointValue
point = '0 0 0'
variable = pressure
[../]
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
[BCs]
[./left_flux]
type = RichardsPiecewiseLinearSink
boundary = left
pressures = '0 1'
bare_fluxes = '1 2'
variable = pressure
use_mobility = false
use_relperm = false
[../]
[./right_flux]
type = RichardsPiecewiseLinearSink
boundary = right
pressures = '0 1'
bare_fluxes = '1 2'
variable = pressure
use_mobility = false
use_relperm = false
[../]
[]
[Kernels]
active = 'richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[]
[AuxVariables]
[./one]
initial_condition = 1
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 2E-3
end_time = 0.2
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s01
csv = true
execute_on = timestep_end
[]
(modules/richards/test/tests/dirac/bh05.i)
# unsaturated
# injection
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '500 500 1E1'
x = '4000 5000 6500'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh03.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = -1
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = -2E5
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 6500
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh05
exodus = false
csv = true
execute_on = timestep_end
[]
(modules/navier_stokes/test/tests/finite_volume/cns/mms/1d/hllc-mms.i)
[GlobalParams]
fp = fp
[]
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 1
xmin = .1
xmax = 1
nx = 2
[]
[]
[Variables]
[rho]
type = MooseVariableFVReal
[]
[rho_u]
type = MooseVariableFVReal
[]
[rho_et]
type = MooseVariableFVReal
[]
[]
[ICs]
[rho]
type = FunctionIC
variable = rho
function = 'cos(1.1*x)'
[]
[rho_u]
type = FunctionIC
variable = rho_u
function = '2*sin(1.1*x)'
[]
[rho_et]
type = FunctionIC
variable = rho_et
function = '3*cos(1.1*x)'
[]
[]
[FVKernels]
[mass_advection]
type = CNSFVMassHLLC
variable = rho
[]
[fake_diffusivity]
type = FVDiffusion
variable = rho
coeff = 1
[]
[mass_fn]
type = FVBodyForce
variable = rho
function = 'forcing_rho'
[]
[momentum_advection]
type = CNSFVMomentumHLLC
variable = rho_u
momentum_component = x
[]
[viscosity]
type = FVDiffusion
variable = rho_u
coeff = 1
[]
[momentum_fn]
type = FVBodyForce
variable = rho_u
function = 'forcing_rho_u'
[]
[fluid_energy_advection]
type = CNSFVFluidEnergyHLLC
variable = rho_et
[]
[fake_conduction]
type = FVDiffusion
variable = rho_et
coeff = 1
[]
[energy_fn]
type = FVBodyForce
variable = rho_et
function = 'forcing_rho_et'
[]
[]
[FVBCs]
[rho]
type = FVFunctionDirichletBC
boundary = 'left right'
variable = rho
function = 'exact_rho'
[]
[rho_u]
type = FVFunctionDirichletBC
boundary = 'left right'
variable = rho_u
function = 'exact_rho_u'
[]
[rho_et]
type = FVFunctionDirichletBC
boundary = 'left right'
variable = rho_et
function = 'exact_rho_et'
[]
[]
[Materials]
[var_mat]
type = ConservedVarValuesMaterial
rho = rho
rhou = rho_u
rho_et = rho_et
[]
[]
[Modules]
[FluidProperties]
[fp]
type = TestConservedVarFluidProperties
[]
[]
[]
[Functions]
[exact_rho]
type = ParsedFunction
value = 'cos(x)'
[]
[forcing_rho]
type = ParsedFunction
value = '3*cos(x)'
[]
[exact_rho_u]
type = ParsedFunction
value = '2*sin(x)'
[]
[forcing_rho_u]
type = ParsedFunction
value = '4*sin(x)^3/cos(x)^2 + 9*sin(x)'
[]
[exact_rho_et]
type = ParsedFunction
value = '3*cos(x)'
[]
[forcing_rho_et]
type = ParsedFunction
value = '11*cos(x)'
[]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
nl_rel_tol = 1e-12
[]
[Outputs]
exodus = true
csv = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho]
type = ElementL2Error
variable = rho
function = exact_rho
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho_u]
variable = rho_u
function = exact_rho_u
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho_et]
variable = rho_et
function = exact_rho_et
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(modules/phase_field/examples/fourier_noise.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 100
ny = 100
[]
[Variables]
[./c]
[../]
[]
[Functions]
[./fn]
type = FourierNoise
lambda = 0.1
[../]
[]
[ICs]
[./c]
type = FunctionIC
variable = c
function = fn
[../]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/dirac/bh_fu_02.i)
# fully-saturated
# production
# fullyupwind
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh02.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = 1
fully_upwind = true
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 0.5
dt = 1E-2
solve_type = NEWTON
[]
[Outputs]
file_base = bh_fu_02
exodus = false
csv = true
execute_on = timestep_end
[]
(modules/richards/test/tests/theis/th_lumped_01.i)
# fully-saturated
# production
# lumped
[Mesh]
type = FileMesh
file = th01_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '0.5 1 2 10'
x = '0 1 10 100'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsLumpedMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsPolyLineSink
pressures = '-1E9 1E9'
fluxes = '200 200'
point_file = th01.points
SumQuantityUO = total_outflow_mass
variable = pressure
[../]
[]
[Postprocessors]
[./flow_report]
type = RichardsPlotQuantity
uo = total_outflow_mass
[../]
[./p50]
type = PointValue
variable = pressure
point = '50 0 0'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E5
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-6 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 100
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
execute_on = 'timestep_end'
file_base = th_lumped_01
csv = true
[]
(test/tests/transfers/multiapp_conservative_transfer/primary_negative_adjuster.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
[]
[Variables]
[u]
[]
[]
[Kernels]
[diff]
type = Diffusion
variable = u
[]
[]
[BCs]
[left]
type = DirichletBC
variable = u
boundary = left
value = 0
[]
[right]
type = DirichletBC
variable = u
boundary = right
value = 1
[]
[]
[AuxVariables]
[var]
family = MONOMIAL
order = THIRD
[]
[]
[ICs]
[var_ic]
type = FunctionIC
variable = var
function = '-exp(x * y)'
[]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[MultiApps]
[sub]
type = FullSolveMultiApp
input_files = secondary_negative_adjuster.i
execute_on = timestep_end
[]
[]
[Postprocessors]
[from_postprocessor]
type = ElementIntegralVariablePostprocessor
variable = var
[]
[]
[Transfers]
[to_sub]
type = MultiAppMeshFunctionTransfer
direction = to_multiapp
source_variable = var
variable = var
multi_app = sub
from_postprocessors_to_be_preserved = 'from_postprocessor'
to_postprocessors_to_be_preserved = 'to_postprocessor'
[]
[]
[Outputs]
exodus = true
[]
(test/tests/nodalkernels/constraint_enforcement/vi-bounding.i)
l=10
nx=100
num_steps=10
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[bounds][]
[]
[Bounds]
[./u_upper_bounds]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = upper
bound_value = ${l}
[../]
[./u_lower_bounds]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = lower
bound_value = 0
[../]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x'
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = u
[]
[diff]
type = Diffusion
variable = u
[]
[ffn]
type = BodyForce
variable = u
function = 'if(x<5,-1,1)'
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 0
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = ${l}
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type -snes_type'
petsc_options_value = '0 30 asm 16 basic vinewtonrsls'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[upper_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = ${fparse 10+1e-8}
comparator = 'greater'
[]
[lower_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = -1e-8
comparator = 'less'
[]
[nls]
type = NumNonlinearIterations
[]
[cum_nls]
type = CumulativeValuePostprocessor
postprocessor = nls
[]
[]
(modules/porous_flow/test/tests/sinks/s01.i)
# apply a sink flux and observe the correct behavior
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = y+1
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.3
density0 = 1.1
thermal_expansion = 0
viscosity = 1.1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[AuxVariables]
[flux_out]
[]
[xval]
[]
[yval]
[]
[]
[ICs]
[xval]
type = FunctionIC
variable = xval
function = x
[]
[yval]
type = FunctionIC
variable = yval
function = y
[]
[]
[Functions]
[mass00]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)'
vars = 'vol por dens0 pp bulk'
vals = '0.25 0.1 1.1 p00 1.3'
[]
[mass01]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)'
vars = 'vol por dens0 pp bulk'
vals = '0.25 0.1 1.1 p01 1.3'
[]
[expected_mass_change00]
type = ParsedFunction
value = 'fcn*perm*dens0*exp(pp/bulk)/visc*area*dt'
vars = 'fcn perm dens0 pp bulk visc area dt'
vals = '6 1 1 0 1.3 1 0.5 1E-3'
[]
[]
[Postprocessors]
[p00]
type = PointValue
point = '0 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m00]
type = FunctionValuePostprocessor
function = mass00
execute_on = 'initial timestep_end'
[]
[del_m00]
type = FunctionValuePostprocessor
function = expected_mass_change00
execute_on = 'timestep_end'
[]
[p10]
type = PointValue
point = '1 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p01]
type = PointValue
point = '0 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m01]
type = FunctionValuePostprocessor
function = mass01
execute_on = 'initial timestep_end'
[]
[p11]
type = PointValue
point = '1 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[]
[BCs]
[flux]
type = PorousFlowSink
boundary = 'left'
variable = pp
use_mobility = false
use_relperm = true
fluid_phase = 0
flux_function = 6
save_in = flux_out
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10000 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-3
end_time = 1E-2
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s01
[console]
type = Console
execute_on = 'nonlinear linear'
[]
[csv]
type = CSV
execute_on = 'initial timestep_end'
[]
[]
(modules/phase_field/test/tests/feature_flood_test/parallel_feature_count.i)
[Mesh]
type = ImageMesh
dim = 2
file = spiral_16x16.png
scale_to_one = false
[]
[Variables]
[./u]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxVariables]
[./feature]
order = CONSTANT
family = MONOMIAL
[../]
[./proc_id]
order = CONSTANT
family = MONOMIAL
[../]
[./feature_ghost]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./nodal_flood_aux]
type = FeatureFloodCountAux
variable = feature
flood_counter = flood_count_pp
execute_on = 'initial timestep_end'
[../]
[./proc_id]
type = ProcessorIDAux
variable = proc_id
execute_on = 'initial timestep_end'
[../]
[./ghost]
type = FeatureFloodCountAux
variable = feature_ghost
field_display = GHOSTED_ENTITIES
flood_counter = flood_count_pp
execute_on = 'initial timestep_end'
[../]
[]
[Functions]
[./tif]
type = ImageFunction
component = 0
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
function = tif
variable = u
[../]
[]
[Postprocessors]
[./flood_count_pp]
type = FeatureFloodCount
variable = u
threshold = 1.0
execute_on = 'initial timestep_end'
[../]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
csv = true
[]
(modules/porous_flow/test/tests/capillary_pressure/brooks_corey1.i)
# Test Brooks-Corey capillary pressure curve by varying saturation over the mesh
# lambda = 2, sat_lr = 0.1, log_extension = false
[Mesh]
type = GeneratedMesh
dim = 1
nx = 500
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[p0aux]
family = MONOMIAL
order = CONSTANT
[]
[p1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[p0]
type = PorousFlowPropertyAux
property = pressure
phase = 0
variable = p0aux
[]
[p1]
type = PorousFlowPropertyAux
property = pressure
phase = 1
variable = p1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureBC
lambda = 2
log_extension = false
pe = 1e5
sat_lr = 0.1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityVG
phase = 0
m = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux p0aux p1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 500
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-6
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(test/tests/time_integrators/dirk/dirk-2d-heat.i)
#
# Testing a solution that is second order in space and first order in time.
#
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
ymin = 0
ymax = 1
nx = 20
ny = 20
elem_type = QUAD9
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = exact_fn
[../]
[../]
[]
[Functions]
[./forcing_fn]
type = ParsedFunction
value = ((x*x)+(y*y))-(4*t)
[../]
[./exact_fn]
type = ParsedFunction
value = t*((x*x)+(y*y))
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1 2 3'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
start_time = 0.0
end_time = 1.0
dt = 1.0
nl_abs_tol=1e-13
nl_rel_tol=1e-13
[./TimeIntegrator]
type = LStableDirk2
[../]
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(modules/xfem/test/tests/moving_interface/phase_transition_2d.i)
[GlobalParams]
order = FIRST
family = LAGRANGE
[]
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 11
ny = 1
xmin = 0.0
xmax = 20.0
ymin = 0.0
ymax = 5.0
elem_type = QUAD4
[]
[]
[XFEM]
qrule = volfrac
output_cut_plane = true
[]
[UserObjects]
[velocity]
type = XFEMPhaseTransitionMovingInterfaceVelocity
diffusivity_at_positive_level_set = 5
diffusivity_at_negative_level_set = 1
equilibrium_concentration_jump = 1
value_at_interface_uo = value_uo
[]
[value_uo]
type = NodeValueAtXFEMInterface
variable = 'u'
interface_mesh_cut_userobject = 'cut_mesh'
execute_on = TIMESTEP_END
level_set_var = ls
[]
[cut_mesh]
type = InterfaceMeshCut2DUserObject
mesh_file = flat_interface_1d.e
interface_velocity_uo = velocity
heal_always = true
[]
[]
[Variables]
[u]
[]
[]
[ICs]
[ic_u]
type = FunctionIC
variable = u
function = 'if(x<5.01, 2, 1)'
[]
[]
[AuxVariables]
[ls]
order = FIRST
family = LAGRANGE
[]
[]
[Constraints]
[u_constraint]
type = XFEMEqualValueAtInterface
geometric_cut_userobject = 'cut_mesh'
use_displaced_mesh = false
variable = u
value = 2
alpha = 1e6
[]
[]
[Kernels]
[diff]
type = MatDiffusion
variable = u
diffusivity = diffusion_coefficient
[]
[time]
type = TimeDerivative
variable = u
[]
[]
[AuxKernels]
[ls]
type = MeshCutLevelSetAux
mesh_cut_user_object = cut_mesh
variable = ls
execute_on = 'TIMESTEP_BEGIN'
[]
[]
[Materials]
[diffusivity_A]
type = GenericConstantMaterial
prop_names = A_diffusion_coefficient
prop_values = 5
[]
[diffusivity_B]
type = GenericConstantMaterial
prop_names = B_diffusion_coefficient
prop_values = 1
[]
[diff_combined]
type = LevelSetBiMaterialReal
levelset_positive_base = 'A'
levelset_negative_base = 'B'
level_set_var = ls
prop_name = diffusion_coefficient
[]
[]
[BCs]
# Define boundary conditions
[left_u]
type = DirichletBC
variable = u
value = 2
boundary = left
[]
[right_u]
type = NeumannBC
variable = u
boundary = right
value = 0
[]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
line_search = 'none'
l_tol = 1e-3
nl_max_its = 15
nl_rel_tol = 1e-9
nl_abs_tol = 1e-9
start_time = 0.0
dt = 1
num_steps = 5
max_xfem_update = 1
[]
[Outputs]
execute_on = timestep_end
exodus = true
perf_graph = true
csv = true
[]
(test/tests/functions/image_function/flip_quad.i)
[Mesh]
uniform_refine = 1
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 20
ny = 20
xmax = 2
ymax = 2
[]
# Define block IDs for the four quadrants in CCW order:
# 1=top_right
# 2=top_left
# 3=bottom_left
# 4=bottom_right
[top_right_modifier]
input = gen
type = SubdomainBoundingBoxGenerator
top_right = '2 2 0'
bottom_left = '1 1 0'
block_id = 1
[]
[top_left_modifier]
input = top_right_modifier
type = SubdomainBoundingBoxGenerator
top_right = '1 2 0'
bottom_left = '0 1 0'
block_id = 2
[]
[bottom_left_modifier]
input = top_left_modifier
type = SubdomainBoundingBoxGenerator
top_right = '1 1 0'
bottom_left = '0 0 0'
block_id = 3
[]
[bottom_right_modifier]
input = bottom_left_modifier
type = SubdomainBoundingBoxGenerator
top_right = '2 1 0'
bottom_left = '1 0 0'
block_id = 4
[]
[]
[Variables]
[u]
family = MONOMIAL
order = CONSTANT
[]
[]
[Functions]
[bottom_left_func]
type = ImageFunction
file_base = stack/test
flip_x = true
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
file_suffix = png
origin = '0 0 0'
dimensions = '1 1 0'
[]
[top_left_func]
type = ImageFunction
file_base = stack/test
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
file_suffix = png
origin = '0 1 0'
dimensions = '1 1 0'
flip_x = true
flip_y = true
[]
[top_right_func]
type = ImageFunction
origin = '1 1 0'
file_base = stack/test
file_suffix = png
flip_y = true
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
dimensions = '1 1 0'
[]
[bottom_right_func]
type = ImageFunction
origin = '1 0 0'
file_base = stack/test
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
file_suffix = png
dimensions = '1 1 0'
[]
[]
[ICs]
# Defined the same way as the MeshGenerators
[top_right_ic]
function = top_right_func
variable = u
type = FunctionIC
block = 1
[]
[top_left_ic]
function = top_left_func
variable = u
type = FunctionIC
block = 2
[]
[bottom_left_ic]
function = bottom_left_func
variable = u
type = FunctionIC
block = 3
[]
[bottom_right_ic]
function = bottom_right_func
variable = u
type = FunctionIC
block = 4
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/mass/m01.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 2
xmin = -1
xmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.5
al = 1
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.2
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = x
[../]
[]
[Postprocessors]
[./total_mass]
type = RichardsMass
variable = pressure
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1 1 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-10
end_time = 1E-10
[]
[Outputs]
execute_on = 'timestep_end'
file_base = m01
csv = true
[]
(modules/chemical_reactions/test/tests/aqueous_equilibrium/1species_without_action.i)
# Simple equilibrium reaction example.
# This simulation is identical to 1species.i, but explicitly includes the AuxVariables,
# AuxKernels, and Kernels that the action in 1species.i adds
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
[]
[Variables]
[./a]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1e-2
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
variable = a
[../]
[../]
[]
[AuxVariables]
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[./pa2]
[../]
[]
[AuxKernels]
[./pa2eq]
type = AqueousEquilibriumRxnAux
variable = pa2
v = a
sto_v = 2
log_k = 1
[../]
[]
[ICs]
[./pressure]
type = FunctionIC
variable = pressure
function = 2-x
[../]
[]
[Kernels]
[./a_ie]
type = PrimaryTimeDerivative
variable = a
[../]
[./a_diff]
type = PrimaryDiffusion
variable = a
[../]
[./a_conv]
type = PrimaryConvection
variable = a
p = pressure
[../]
[./aeq]
type = CoupledBEEquilibriumSub
variable = a
log_k = 1
weight = 2
sto_u = 2
[../]
[./adiff]
type = CoupledDiffusionReactionSub
variable = a
log_k = 1
weight = 2
sto_u = 2
[../]
[./aconv]
type = CoupledConvectionReactionSub
variable = a
log_k = 1
weight = 2
sto_u = 2
p = pressure
[../]
[]
[BCs]
[./a_right]
type = ChemicalOutFlowBC
variable = a
boundary = right
[../]
[]
[Materials]
[./porous]
type = GenericConstantMaterial
prop_names = 'diffusivity conductivity porosity'
prop_values = '1e-4 1e-4 0.2'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
nl_abs_tol = 1e-12
start_time = 0.0
end_time = 100
dt = 10.0
[]
[Outputs]
file_base = 1species_out
exodus = true
perf_graph = true
print_linear_residuals = true
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
(test/tests/nodalkernels/constraint_enforcement/ad-upper-and-lower-bound.i)
l=10
nx=100
num_steps=10
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[lm_upper]
[]
[lm_lower]
[]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x'
[]
[]
[Kernels]
[time]
type = ADTimeDerivative
variable = u
[]
[diff]
type = ADDiffusion
variable = u
[]
[ffn]
type = ADBodyForce
variable = u
function = 'if(x<5,-1,1)'
[]
[]
[NodalKernels]
[upper_bound]
type = ADUpperBoundNodalKernel
variable = lm_upper
v = u
exclude_boundaries = 'left right'
upper_bound = 10
[]
[forces_from_upper]
type = ADCoupledForceNodalKernel
variable = u
v = lm_upper
coef = -1
[]
[lower_bound]
type = ADLowerBoundNodalKernel
variable = lm_lower
v = u
exclude_boundaries = 'left right'
lower_bound = 0
[]
[forces_from_lower]
type = ADCoupledForceNodalKernel
variable = u
v = lm_lower
coef = 1
[]
[]
[BCs]
[left]
type = ADDirichletBC
boundary = left
value = 0
variable = u
[]
[right]
type = ADDirichletBC
boundary = right
value = ${l}
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type'
petsc_options_value = '0 30 asm 16 basic'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[active_upper_lm]
type = GreaterThanLessThanPostprocessor
variable = lm_upper
execute_on = 'nonlinear timestep_end'
value = 1e-8
comparator = 'greater'
[]
[upper_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = ${fparse 10+1e-8}
comparator = 'greater'
[]
[active_lower_lm]
type = GreaterThanLessThanPostprocessor
variable = lm_lower
execute_on = 'nonlinear timestep_end'
value = 1e-8
comparator = 'greater'
[]
[lower_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = -1e-8
comparator = 'less'
[]
[nls]
type = NumNonlinearIterations
[]
[cum_nls]
type = CumulativeValuePostprocessor
postprocessor = nls
[]
[]
(test/tests/kernels/conservative_advection/none_in_none_out.i)
# Using ConservativeAdvection with full upwinding
# This demonstrates BCs (no BCs) that allow no mass to
# enter or exit the domain.
# Total mass remains constant and the pulse advects
# with the correct velocity
[Mesh]
type = GeneratedMesh
dim = 1
xmin = 0
xmax = 10
nx = 10
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./u]
type = FunctionIC
variable = u
function = 'if(x<5,x,10-x)'
[../]
[]
[Kernels]
[./dot]
type = MassLumpedTimeDerivative
variable = u
[../]
[./advection]
type = ConservativeAdvection
variable = u
upwinding_type = full
velocity = '1 0 0'
[../]
[]
[Postprocessors]
[./total_mass]
type = VariableInnerProduct
variable = u
second_variable = 1
[../]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 10
l_tol = 1E-14
[]
[Outputs]
csv = true
[]
(modules/richards/test/tests/dirac/st01.i)
# fully-saturated
# production
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./stream_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./stream]
type = RichardsPolyLineSink
pressures = '0.2E7 0.8E7'
fluxes = '1 2'
point_file = st01.stream
SumQuantityUO = stream_total_outflow_mass
variable = pressure
[../]
[]
[Postprocessors]
[./stream_report]
type = RichardsPlotQuantity
uo = stream_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '0 0 0'
execute_on = timestep_end
[../]
[]
[Functions]
active = 'mass_bal_fcn initial_pressure'
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 stream_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 2.5
dt = 0.1
solve_type = NEWTON
[]
[Outputs]
file_base = st01
exodus = false
csv = true
execute_on = timestep_end
[]
(modules/tensor_mechanics/test/tests/elasticitytensor/composite.i)
# This input file is designed to test the RankTwoAux and RankFourAux
# auxkernels, which report values out of the Tensors used in materials
# properties.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
xmax = 1
[]
[AuxVariables]
[./c]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[./C1111_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./C1122_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./C1133_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./C3313_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./dC1111_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./dC1122_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./dC1133_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./dC3313_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./d2C1111_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./d2C1122_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./d2C1133_aux]
order = CONSTANT
family = MONOMIAL
[../]
[./d2C3313_aux]
order = CONSTANT
family = MONOMIAL
[../]
[]
#[Kernels]
# [./diff]
# type = Diffusion
# variable = diffused
# [../]
#[]
[AuxKernels]
[./matl_C1111]
type = RankFourAux
rank_four_tensor = elasticity_tensor
index_i = 0
index_j = 0
index_k = 0
index_l = 0
variable = C1111_aux
execute_on = initial
[../]
[./matl_C1122]
type = RankFourAux
rank_four_tensor = elasticity_tensor
index_i = 0
index_j = 0
index_k = 1
index_l = 1
variable = C1122_aux
execute_on = initial
[../]
[./matl_C1133]
type = RankFourAux
rank_four_tensor = elasticity_tensor
index_i = 0
index_j = 0
index_k = 2
index_l = 2
variable = C1133_aux
execute_on = initial
[../]
[./matl_C3313]
type = RankFourAux
rank_four_tensor = elasticity_tensor
index_i = 2
index_j = 2
index_k = 0
index_l = 2
variable = C3313_aux
execute_on = initial
[../]
[./matl_dC1111]
type = RankFourAux
rank_four_tensor = delasticity_tensor/dc
index_i = 0
index_j = 0
index_k = 0
index_l = 0
variable = dC1111_aux
execute_on = initial
[../]
[./matl_dC1122]
type = RankFourAux
rank_four_tensor = delasticity_tensor/dc
index_i = 0
index_j = 0
index_k = 1
index_l = 1
variable = dC1122_aux
execute_on = initial
[../]
[./matl_dC1133]
type = RankFourAux
rank_four_tensor = delasticity_tensor/dc
index_i = 0
index_j = 0
index_k = 2
index_l = 2
variable = dC1133_aux
execute_on = initial
[../]
[./matl_dC3313]
type = RankFourAux
rank_four_tensor = delasticity_tensor/dc
index_i = 2
index_j = 2
index_k = 0
index_l = 2
variable = dC3313_aux
execute_on = initial
[../]
[./matl_d2C1111]
type = RankFourAux
rank_four_tensor = d^2elasticity_tensor/dc^2
index_i = 0
index_j = 0
index_k = 0
index_l = 0
variable = d2C1111_aux
execute_on = initial
[../]
[./matl_d2C1122]
type = RankFourAux
rank_four_tensor = d^2elasticity_tensor/dc^2
index_i = 0
index_j = 0
index_k = 1
index_l = 1
variable = d2C1122_aux
execute_on = initial
[../]
[./matl_d2C1133]
type = RankFourAux
rank_four_tensor = d^2elasticity_tensor/dc^2
index_i = 0
index_j = 0
index_k = 2
index_l = 2
variable = d2C1133_aux
execute_on = initial
[../]
[./matl_d2C3313]
type = RankFourAux
rank_four_tensor = d^2elasticity_tensor/dc^2
index_i = 2
index_j = 2
index_k = 0
index_l = 2
variable = d2C3313_aux
execute_on = initial
[../]
[]
[Materials]
[./Ca]
type = ComputeElasticityTensor
base_name = Ca
block = 0
fill_method = symmetric21
C_ijkl ='1111 .1122 1133 1123 1113 1112 2222 2233 2223 2213 2212 3333 3323 3313 3312 2323 2313 2312 1313 1312 1212'
[../]
[./Cb]
type = ComputeElasticityTensor
base_name = Cb
block = 0
fill_method = symmetric21
C_ijkl ='.1111 1122 .1133 .1123 .1113 .1112 .2222 .2233 .2223 .2213 .2212 .3333 .3323 .3313 .3312 .2323 .2313 .2312 .1313 .1312 .1212'
[../]
[./Fa]
type = DerivativeParsedMaterial
block = 0
f_name = Fa
function = c^2
args = c
[../]
[./Fb]
type = DerivativeParsedMaterial
block = 0
f_name = Fb
function = (1-c)^3
args = c
[../]
[./C]
type = CompositeElasticityTensor
block = 0
args = c
tensors = 'Ca Cb'
weights = 'Fa Fb'
[../]
[]
[Problem]
kernel_coverage_check = false
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(test/tests/ics/hermite_ic/hermite_ic.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
[]
[Variables]
[./u]
order = THIRD
family = HERMITE
[../]
[]
[Functions]
[./afunc]
type = ParsedFunction
value = x^2
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Outputs]
exodus = true
[]
[ICs]
[./func_ic]
function = afunc
variable = u
type = FunctionIC
[../]
[]
(test/tests/scaling/residual-based/residual-based.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = '1000 * (1 - x)'
[]
[]
[Variables]
[./u]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[rxn]
type = PReaction
power = 2
variable = u
[]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 1000
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 0
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
verbose = true
automatic_scaling = true
resid_vs_jac_scaling_param = 1
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/jacobian_2/jn_fu_17.i)
# two phase
# water saturated
# gravity = true
# supg = true
# transient = true
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1.0 # notice small quantity, so the PETSc constant state works
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 0.5
bulk_mod = 0.5 # notice small quantity, so the PETSc constant state works
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1 # notice small quantity, so the PETSc constant state works
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1 # notice small quantity, so the PETSc constant state works
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.2
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.1
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.15
[../]
[./SatGas]
type = RichardsSat
s_res = 0.05
sum_s_res = 0.15
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 0.01
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
block = 0
function = init_p
[../]
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
block = 0
function = init_p
[../]
[../]
[]
[Functions]
[./init_p]
type = ParsedFunction
value = x+0.6*y+0.3*z
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFullyUpwindFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFullyUpwindFlux
variable = pgas
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
viscosity = '1E-3 0.5E-3'
gravity = '1 2 3'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000 test'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-5
[]
[Outputs]
execute_on = 'timestep_end'
file_base = jn17
exodus = false
[]
(modules/level_set/examples/vortex/vortex_supg.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmax = 1
ymax = 1
nx = 16
ny = 16
uniform_refine = 2
elem_type = QUAD9
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[AuxKernels]
[./vec]
type = VectorFunctionAux
variable = velocity
function = velocity_func
execute_on = 'INITIAL TIMESTEP_END'
[../]
[]
[Variables]
[./phi]
family = LAGRANGE
order = FIRST
[../]
[]
[Functions]
[./phi_exact]
type = LevelSetOlssonBubble
epsilon = 0.01184
center = '0.5 0.75 0'
radius = 0.15
[../]
[./velocity_func]
type = LevelSetOlssonVortex
reverse_time = 2
[../]
[]
[ICs]
[./phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[../]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./advection]
type = LevelSetAdvection
velocity = velocity
variable = phi
[../]
[./advection_supg]
type = LevelSetAdvectionSUPG
velocity = velocity
variable = phi
[../]
[./time_supg]
type = LevelSetTimeDerivativeSUPG
velocity = velocity
variable = phi
[../]
[]
[Postprocessors]
[./area]
type = LevelSetVolume
threshold = 0.5
variable = phi
location = outside
execute_on = 'initial timestep_end'
[../]
[./cfl]
type = LevelSetCFLCondition
velocity = velocity
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
start_time = 0
end_time = 2
scheme = crank-nicolson
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
[./TimeStepper]
type = PostprocessorDT
postprocessor = cfl
scale = 0.8
[../]
[]
[Outputs]
csv = true
exodus = true
[]
(modules/porous_flow/test/tests/poroperm/poro_hm.i)
# Test that porosity is correctly calculated.
# Porosity = biot + (phi0 - biot) * exp(-vol_strain + (biot_prime - 1) / solid_bulk * (porepressure - ref_pressure))
# The parameters used are:
# biot = 0.7
# biot_prime = 0.75
# phi0 = 0.5
# vol_strain = 0.5
# solid_bulk = 0.3
# porepressure = 2
# ref_pressure = 3
# which yield porosity = 0.420877515
[Mesh]
type = GeneratedMesh
dim = 3
[]
[GlobalParams]
PorousFlowDictator = dictator
displacements = 'disp_x disp_y disp_z'
biot_coefficient = 0.7
[]
[Variables]
[porepressure]
initial_condition = 2
[]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[]
[ICs]
[disp_x]
type = FunctionIC
function = '0.5 * x'
variable = disp_x
[]
[]
[Kernels]
[dummy_p]
type = TimeDerivative
variable = porepressure
[]
[dummy_x]
type = TimeDerivative
variable = disp_x
[]
[dummy_y]
type = TimeDerivative
variable = disp_y
[]
[dummy_z]
type = TimeDerivative
variable = disp_z
[]
[]
[AuxVariables]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[porosity]
type = PorousFlowPropertyAux
property = porosity
variable = porosity
[]
[]
[Postprocessors]
[porosity]
type = PointValue
variable = porosity
point = '0 0 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = 3
[]
[eff_fluid_pressure]
type = PorousFlowEffectiveFluidPressure
[]
[total_strain]
type = ComputeSmallStrain
[]
[vol_strain]
type = PorousFlowVolumetricStrain
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[porosity]
type = PorousFlowPorosity
fluid = true
mechanical = true
ensure_positive = false
porosity_zero = 0.5
solid_bulk = 0.3
reference_porepressure = 3
biot_coefficient_prime = 0.75
[]
[]
[Executioner]
solve_type = Newton
type = Transient
num_steps = 1
[]
[Outputs]
csv = true
[]
(test/tests/userobjects/solution_user_object/discontinuous_value_solution_uo_p1.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
ymin = 0
ymax = 1
nx = 2
ny = 2
[]
[Variables]
[./u]
[../]
[]
[AuxVariables]
[./discontinuous_variable]
order = CONSTANT
family = MONOMIAL
[../]
[./continuous_variable]
order = FIRST
family = LAGRANGE
[../]
[]
[Functions]
[./discontinuous_function]
type = ParsedFunction
value = 'if(x<0.5,3,5)'
[../]
[./continuous_function]
type = ParsedFunction
value = 'if(x<0.5,x,2*x-0.5)'
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[ICs]
[./discontinuous_variable]
type = FunctionIC
variable = discontinuous_variable
function = discontinuous_function
[../]
[./continuous_variable]
type = FunctionIC
variable = continuous_variable
function = continuous_function
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 0
[../]
[./one]
type = DirichletBC
variable = u
boundary = 'right top bottom'
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Outputs]
file_base = discontinuous_value_solution_uo_p1
exodus = true
[]
(modules/richards/test/tests/uo_egs/density.i)
# Outputs a density relationship into an exodus file
# and into a CSV file.
# In the exodus file, the density will be a function of "x", and
# this "x" is actually porepressure
# In the CSV file you will find the density at the "x" point
# specified by you below.
#
# You may specify:
# - the "type" of density in the UserObjects block
# - the parameters of this density function in the UserObjects block
# - the "x" point (which is porepressure) that you want to extract
# the density at, if you want a value at a particular point
# - the range of "x" values (which is porepressure values) may be
# changed in the Mesh block, below
[UserObjects]
[./density]
type = RichardsDensityVDW
a = 0.2303
b = 4.31E-5
molar_mass = 16.04246E-3
temperature = 293
[../]
[]
[Postprocessors]
[./point_val]
type = PointValue
execute_on = timestep_begin
# note this point must lie inside the mesh below
point = '1 0 0'
variable = density
[../]
[]
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
# the following specify the range of porepressure
xmin = -1E6
xmax = 1E7
[]
############################
# You should not need to change any of the stuff below
############################
[Variables]
[./u]
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = x
[../]
[]
[AuxVariables]
[./density]
[../]
[]
[AuxKernels]
[./density_AuxK]
type = RichardsDensityAux
variable = density
density_UO = density
execute_on = timestep_begin
pressure_var = u
[../]
[]
[Kernels]
[./dummy]
type = Diffusion
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
num_steps = 0
[]
[Outputs]
file_base = density
[./csv]
type = CSV
[../]
[./exodus]
type = Exodus
hide = u
[../]
[]
(test/tests/kernels/ad_mat_diffusion/ad_1D_transient.i)
# This test solves a 1D transient heat equation
# The error is caclulated by comparing to the analytical solution
# The problem setup and analytical solution are taken from "Advanced Engineering
# Mathematics, 10th edition" by Erwin Kreyszig.
# http://www.amazon.com/Advanced-Engineering-Mathematics-Erwin-Kreyszig/dp/0470458364
# It is Example 1 in section 12.6 on page 561
[Mesh]
type = GeneratedMesh
dim = 1
nx = 160
xmax = 80
[]
[Variables]
[./T]
[../]
[]
[ICs]
[./T_IC]
type = FunctionIC
variable = T
function = '100*sin(pi*x/80)'
[../]
[]
[Kernels]
[./diff]
type = ADMatDiffusion
variable = T
diffusivity = diffusivity
[../]
[./dt]
type = CoefTimeDerivative
variable = T
Coefficient = 0.82064
[../]
[]
[BCs]
[./sides]
type = DirichletBC
variable = T
boundary = 'left right'
value = 0
[../]
[]
[Materials]
[./k]
type = ADGenericConstantMaterial
prop_names = 'diffusivity'
prop_values = '0.95'
[../]
[]
[Executioner]
type = Transient
dt = 1e-2
end_time = 1
[]
[Postprocessors]
[./error]
type = NodalL2Error
function = '100*sin(pi*x/80)*exp(-0.95/(0.092*8.92)*pi^2/80^2*t)'
variable = T
outputs = console
[../]
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/buckley_leverett/bl01_lumped_fu.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2.0E6
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.8
al = 1E-4
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[AuxKernels]
active = 'calculate_seff'
[./calculate_seff]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffVG
pressure_vars = pressure
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[BCs]
active = 'left'
[./left]
type = DirichletBC
variable = pressure
boundary = left
value = 980000
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsLumpedMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFullyUpwindFlux
variable = pressure
[../]
[]
[Functions]
active = 'initial_pressure'
[./initial_pressure]
type = ParsedFunction
value = max((1000000-x/5*1000000)-20000,-20000)
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'andy'
[./andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 20'
[../]
[]
[Executioner]
type = Transient
end_time = 50
dt = 2
snesmf_reuse_base = false
[]
[Outputs]
file_base = bl01_lumped_fu
execute_on = 'initial timestep_end final'
interval = 10000
exodus = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_2D_angle.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek, with antidiffusion from superbee flux limiting
# 2D version with velocity = (0.1, 0.2, 0)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
xmin = 0
xmax = 1
ny = 10
ymin = 0
ymax = 1
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1 | x > 0.3 | y < 0.1 | y > 0.3, 0, 1)'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '0.1 0.2 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 2
dt = 0.1
[]
[Outputs]
print_linear_residuals = false
[out]
type = Exodus
execute_on = 'initial final'
[]
[]
(modules/porous_flow/test/tests/chemistry/2species_equilibrium_2phase.i)
# Using a two-phase system (see 2species_equilibrium for the single-phase)
# The saturations, porosity, mass fractions, tortuosity and diffusion coefficients are chosen so that the results are identical to 2species_equilibrium
#
# PorousFlow analogy of chemical_reactions/test/tests/aqueous_equilibrium/2species.i
#
# Simple equilibrium reaction example to illustrate the use of PorousFlowMassFractionAqueousEquilibriumChemistry
#
# In this example, two primary species a and b are transported by diffusion and convection
# from the left of the porous medium, reacting to form two equilibrium species pa2 and pab
# according to the equilibrium reaction:
#
# reactions = '2a = pa2 rate = 10^2
# a + b = pab rate = 10^-2'
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
[]
[Variables]
[a]
order = FIRST
family = LAGRANGE
[InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[]
[]
[b]
order = FIRST
family = LAGRANGE
[InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[]
[]
[]
[AuxVariables]
[eqm_k0]
initial_condition = 1E2
[]
[eqm_k1]
initial_condition = 1E-2
[]
[pressure0]
[]
[saturation1]
initial_condition = 0.25
[]
[a_in_phase0]
initial_condition = 0.0
[]
[b_in_phase0]
initial_condition = 0.0
[]
[pa2]
family = MONOMIAL
order = CONSTANT
[]
[pab]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[pa2]
type = PorousFlowPropertyAux
property = secondary_concentration
secondary_species = 0
variable = pa2
[]
[pab]
type = PorousFlowPropertyAux
property = secondary_concentration
secondary_species = 1
variable = pab
[]
[]
[ICs]
[pressure0]
type = FunctionIC
variable = pressure0
function = 2-x
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Kernels]
[mass_a]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = a
[]
[flux_a]
type = PorousFlowAdvectiveFlux
variable = a
fluid_component = 0
[]
[diff_a]
type = PorousFlowDispersiveFlux
variable = a
fluid_component = 0
disp_trans = '0 0'
disp_long = '0 0'
[]
[mass_b]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = b
[]
[flux_b]
type = PorousFlowAdvectiveFlux
variable = b
fluid_component = 1
[]
[diff_b]
type = PorousFlowDispersiveFlux
variable = b
fluid_component = 1
disp_trans = '0 0'
disp_long = '0 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'a b'
number_fluid_phases = 2
number_fluid_components = 3
number_aqueous_equilibrium = 2
aqueous_phase_number = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e9 # huge, so mimic chemical_reactions
density0 = 1000
thermal_expansion = 0
viscosity = 1e-3
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
capillary_pressure = pc
phase0_porepressure = pressure0
phase1_saturation = saturation1
[]
[massfrac]
type = PorousFlowMassFractionAqueousEquilibriumChemistry
mass_fraction_vars = 'a_in_phase0 b_in_phase0 a b'
num_reactions = 2
equilibrium_constants = 'eqm_k0 eqm_k1'
primary_activity_coefficients = '1 1'
secondary_activity_coefficients = '1 1'
reactions = '2 0
1 1'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.8
[]
[permeability]
type = PorousFlowPermeabilityConst
# porous_flow permeability / porous_flow viscosity = chemical_reactions conductivity = 1E-4
permeability = '1E-7 0 0 0 1E-7 0 0 0 1E-7'
[]
[relp0]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[relp1]
type = PorousFlowRelativePermeabilityConst
phase = 1
[]
[diff]
type = PorousFlowDiffusivityConst
# porous_flow diffusion_coeff * tortuousity * porosity = chemical_reactions diffusivity = 1E-4
diffusion_coeff = '5E-4 5E-4 5E-4
5E-4 5E-4 5E-4'
tortuosity = '0.25 0.25'
[]
[]
[BCs]
[a_left]
type = DirichletBC
variable = a
boundary = left
value = 1.0e-2
[]
[b_left]
type = DirichletBC
variable = b
boundary = left
value = 1.0e-2
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 10
end_time = 100
[]
[Outputs]
print_linear_residuals = true
exodus = true
perf_graph = true
[]
(modules/richards/test/tests/theis/th02.i)
# fully-saturated
# production
[Mesh]
type = FileMesh
file = th02_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1 2 4 20'
x = '0 1 10 100'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsPolyLineSink
pressures = '-1E9 1E9'
fluxes = '200 200'
point_file = th01.points
SumQuantityUO = total_outflow_mass
variable = pressure
[../]
[]
[Postprocessors]
[./flow_report]
type = RichardsPlotQuantity
uo = total_outflow_mass
[../]
[./p50]
type = PointValue
variable = pressure
point = '50 0 0'
execute_on = 'initial timestep_end'
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E5
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-6 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 100
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = th02
csv = true
[]
(modules/porous_flow/test/tests/newton_cooling/nc08.i)
# Newton cooling from a bar. 1-phase ideal fluid and heat, steady
[Mesh]
type = GeneratedMesh
dim = 2
nx = 100
ny = 1
xmin = 0
xmax = 100
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pressure temp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.8
alpha = 1e-5
[]
[]
[Variables]
[pressure]
[]
[temp]
[]
[]
[ICs]
# have to start these reasonably close to their steady-state values
[pressure]
type = FunctionIC
variable = pressure
function = '200-0.5*x'
[]
[temperature]
type = FunctionIC
variable = temp
function = 180+0.1*x
[]
[]
[Kernels]
[flux]
type = PorousFlowAdvectiveFlux
fluid_component = 0
gravity = '0 0 0'
variable = pressure
[]
[heat_advection]
type = PorousFlowHeatAdvection
gravity = '0 0 0'
variable = temp
[]
[]
[Modules]
[FluidProperties]
[idealgas]
type = IdealGasFluidProperties
molar_mass = 1.4
gamma = 1.2
mu = 1.2
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[dens0]
type = PorousFlowSingleComponentFluid
fp = idealgas
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 1.1 0 0 0 1.1'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey # irrelevant in this fully-saturated situation
n = 2
phase = 0
[]
[]
[BCs]
[leftp]
type = DirichletBC
variable = pressure
boundary = left
value = 200
[]
[leftt]
type = DirichletBC
variable = temp
boundary = left
value = 180
[]
[newtonp]
type = PorousFlowPiecewiseLinearSink
variable = pressure
boundary = right
pt_vals = '-200 0 200'
multipliers = '-200 0 200'
use_mobility = true
use_relperm = true
fluid_phase = 0
flux_function = 0.005 # 1/2/L
[]
[newtont]
type = PorousFlowPiecewiseLinearSink
variable = temp
boundary = right
pt_vals = '-200 0 200'
multipliers = '-200 0 200'
use_mobility = true
use_relperm = true
use_enthalpy = true
fluid_phase = 0
flux_function = 0.005 # 1/2/L
[]
[]
[VectorPostprocessors]
[porepressure]
type = LineValueSampler
variable = pressure
start_point = '0 0.5 0'
end_point = '100 0.5 0'
sort_by = x
num_points = 11
execute_on = timestep_end
[]
[temperature]
type = LineValueSampler
variable = temp
start_point = '0 0.5 0'
end_point = '100 0.5 0'
sort_by = x
num_points = 11
execute_on = timestep_end
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
[]
[]
[Executioner]
type = Steady
solve_type = Newton
nl_rel_tol = 1E-10
nl_abs_tol = 1E-15
[]
[Outputs]
file_base = nc08
execute_on = timestep_end
exodus = true
[along_line]
type = CSV
execute_vector_postprocessors_on = timestep_end
[]
[]
(modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/basic-conserved-pcnsfv-kt.i)
[GlobalParams]
fp = fp
limiter = 'central_difference'
two_term_boundary_expansion = true
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = .1
xmax = .6
nx = 2
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
[]
[]
[]
[Problem]
fv_bcs_integrity_check = false
[]
[Variables]
[rho]
type = MooseVariableFVReal
[]
[rho_ud]
type = MooseVariableFVReal
[]
[rho_et]
type = MooseVariableFVReal
[]
[]
[ICs]
[pressure]
type = FunctionIC
variable = rho
function = 'exact_rho'
[]
[sup_vel_x]
type = FunctionIC
variable = rho_ud
function = 'exact_rho_ud'
[]
[T_fluid]
type = FunctionIC
variable = rho_et
function = 'exact_rho_et'
[]
[]
[FVKernels]
[mass_advection]
type = PCNSFVKT
variable = rho
eqn = "mass"
[]
[mass_fn]
type = FVBodyForce
variable = rho
function = 'forcing_rho'
[]
[momentum_x_advection]
type = PCNSFVKT
variable = rho_ud
momentum_component = x
eqn = "momentum"
[]
[momentum_fn]
type = FVBodyForce
variable = rho_ud
function = 'forcing_rho_ud'
[]
[fluid_energy_advection]
type = PCNSFVKT
variable = rho_et
eqn = "energy"
[]
[energy_fn]
type = FVBodyForce
variable = rho_et
function = 'forcing_rho_et'
[]
[]
[FVBCs]
[mass_left]
variable = rho
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'mass'
[]
[momentum_left]
variable = rho_ud
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'momentum'
momentum_component = 'x'
[]
[energy_left]
variable = rho_et
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'energy'
[]
[mass_right]
variable = rho
type = PCNSFVStrongBC
boundary = right
eqn = 'mass'
pressure = 'exact_p'
[]
[momentum_right]
variable = rho_ud
type = PCNSFVStrongBC
boundary = right
eqn = 'momentum'
momentum_component = 'x'
pressure = 'exact_p'
[]
[energy_right]
variable = rho_et
type = PCNSFVStrongBC
boundary = right
eqn = 'energy'
pressure = 'exact_p'
[]
# help gradient reconstruction
[rho_right]
type = FVFunctionDirichletBC
variable = rho
function = exact_rho
boundary = 'right'
[]
[rho_ud_left]
type = FVFunctionDirichletBC
variable = rho_ud
function = exact_rho_ud
boundary = 'left'
[]
[rho_et_left]
type = FVFunctionDirichletBC
variable = rho_et
function = exact_rho_et
boundary = 'left'
[]
[]
[Materials]
[var_mat]
type = PorousConservedVarMaterial
rho = rho
superficial_rhou = rho_ud
rho_et = rho_et
porosity = porosity
[]
[porosity]
type = GenericFunctionMaterial
prop_names = 'porosity'
prop_values = 'eps'
[]
[]
[Functions]
[exact_rho]
type = ParsedFunction
value = '3.48788261470924*cos(x)'
[]
[forcing_rho]
type = ParsedFunction
value = '-3.45300378856215*sin(1.1*x)'
[]
[exact_rho_ud]
type = ParsedFunction
value = '3.13909435323832*cos(1.1*x)'
[]
[forcing_rho_ud]
type = ParsedFunction
value = '-0.9*(10.6975765229419*cos(1.2*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + 0.9*(10.6975765229419*sin(x)*cos(1.2*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 12.8370918275302*sin(1.2*x)/cos(x))*cos(x) + 3.13909435323832*sin(x)*cos(1.1*x)^2/cos(x)^2 - 6.9060075771243*sin(1.1*x)*cos(1.1*x)/cos(x)'
[]
[exact_rho_et]
type = ParsedFunction
value = '26.7439413073546*cos(1.2*x)'
[]
[forcing_rho_et]
type = ParsedFunction
value = '0.9*(3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.2*x))*sin(x)*cos(1.1*x)/cos(x)^2 - 0.99*(3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.2*x))*sin(1.1*x)/cos(x) + 0.9*(-(10.6975765229419*cos(1.2*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.2*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 12.8370918275302*sin(1.2*x)/cos(x))*cos(x) - 32.0927295688256*sin(1.2*x))*cos(1.1*x)/cos(x)'
[]
[exact_T]
type = ParsedFunction
value = '0.0106975765229418*cos(1.2*x)/cos(x) - 0.000697576522941848*cos(1.1*x)^2/cos(x)^2'
[]
[exact_eps_p]
type = ParsedFunction
value = '3.13909435323832*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
[]
[exact_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
[]
[exact_sup_vel_x]
type = ParsedFunction
value = '0.9*cos(1.1*x)/cos(x)'
[]
[exact_superficial_velocity]
type = ParsedVectorFunction
value_x = '0.9*cos(1.1*x)/cos(x)'
[]
[eps]
type = ParsedFunction
value = '0.9'
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
solve_type = NEWTON
type = Transient
num_steps = 1
dtmin = 1
petsc_options = '-snes_linesearch_monitor'
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
nl_max_its = 50
line_search = bt
[]
[Outputs]
exodus = true
csv = true
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho]
type = ElementL2Error
variable = rho
function = exact_rho
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho_ud]
variable = rho_ud
function = exact_rho_ud
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho_et]
variable = rho_et
function = exact_rho_et
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(test/tests/time_steppers/postprocessor_dt/postprocessor_dt.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_error]
type = ElementL2Error
variable = u
function = exact_fn
execute_on = 'initial timestep_end'
[../]
# Just use some postprocessor that gives values good enough for time stepping ;-)
[./dt]
type = ElementAverageValue
variable = u
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
scheme = 'crank-nicolson'
start_time = 1.0
num_steps = 2
[./TimeStepper]
type = PostprocessorDT
postprocessor = dt
[../]
[]
[Outputs]
exodus = true
[]
(modules/phase_field/examples/multiphase/GrandPotential3Phase.i)
# This is an example of implementation of the multi-phase, multi-order parameter
# grand potential based phase-field model described in Phys. Rev. E, 98, 023309
# (2019). It includes 3 phases with 1 grain of each phase. This example was used
# to generate the results shown in Fig. 3 of the paper.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 60
xmin = -15
xmax = 15
[]
[Variables]
[./w]
[../]
[./etaa0]
[../]
[./etab0]
[../]
[./etad0]
[../]
[]
[ICs]
[./IC_etaa0]
type = FunctionIC
variable = etaa0
function = ic_func_etaa0
[../]
[./IC_etab0]
type = FunctionIC
variable = etab0
function = ic_func_etab0
[../]
[./IC_etad0]
type = ConstantIC
variable = etad0
value = 0.1
[../]
[./IC_w]
type = FunctionIC
variable = w
function = ic_func_w
[../]
[]
[Functions]
[./ic_func_etaa0]
type = ParsedFunction
value = '0.9*0.5*(1.0-tanh((x)/sqrt(2.0)))'
[../]
[./ic_func_etab0]
type = ParsedFunction
value = '0.9*0.5*(1.0+tanh((x)/sqrt(2.0)))'
[../]
[./ic_func_w]
type = ParsedFunction
value = 0
[../]
[]
[Kernels]
# Order parameter eta_alpha0
[./ACa0_bulk]
type = ACGrGrMulti
variable = etaa0
v = 'etab0 etad0'
gamma_names = 'gab gad'
[../]
[./ACa0_sw]
type = ACSwitching
variable = etaa0
Fj_names = 'omegaa omegab omegad'
hj_names = 'ha hb hd'
args = 'etab0 etad0 w'
[../]
[./ACa0_int]
type = ACInterface
variable = etaa0
kappa_name = kappa
[../]
[./ea0_dot]
type = TimeDerivative
variable = etaa0
[../]
# Order parameter eta_beta0
[./ACb0_bulk]
type = ACGrGrMulti
variable = etab0
v = 'etaa0 etad0'
gamma_names = 'gab gbd'
[../]
[./ACb0_sw]
type = ACSwitching
variable = etab0
Fj_names = 'omegaa omegab omegad'
hj_names = 'ha hb hd'
args = 'etaa0 etad0 w'
[../]
[./ACb0_int]
type = ACInterface
variable = etab0
kappa_name = kappa
[../]
[./eb0_dot]
type = TimeDerivative
variable = etab0
[../]
# Order parameter eta_delta0
[./ACd0_bulk]
type = ACGrGrMulti
variable = etad0
v = 'etaa0 etab0'
gamma_names = 'gad gbd'
[../]
[./ACd0_sw]
type = ACSwitching
variable = etad0
Fj_names = 'omegaa omegab omegad'
hj_names = 'ha hb hd'
args = 'etaa0 etab0 w'
[../]
[./ACd0_int]
type = ACInterface
variable = etad0
kappa_name = kappa
[../]
[./ed0_dot]
type = TimeDerivative
variable = etad0
[../]
#Chemical potential
[./w_dot]
type = SusceptibilityTimeDerivative
variable = w
f_name = chi
args = 'etaa0 etab0 etad0'
[../]
[./Diffusion]
type = MatDiffusion
variable = w
diffusivity = Dchi
args = ''
[../]
[./coupled_etaa0dot]
type = CoupledSwitchingTimeDerivative
variable = w
v = etaa0
Fj_names = 'rhoa rhob rhod'
hj_names = 'ha hb hd'
args = 'etaa0 etab0 etad0'
[../]
[./coupled_etab0dot]
type = CoupledSwitchingTimeDerivative
variable = w
v = etab0
Fj_names = 'rhoa rhob rhod'
hj_names = 'ha hb hd'
args = 'etaa0 etab0 etad0'
[../]
[./coupled_etad0dot]
type = CoupledSwitchingTimeDerivative
variable = w
v = etad0
Fj_names = 'rhoa rhob rhod'
hj_names = 'ha hb hd'
args = 'etaa0 etab0 etad0'
[../]
[]
[Materials]
[./ha_test]
type = SwitchingFunctionMultiPhaseMaterial
h_name = ha
all_etas = 'etaa0 etab0 etad0'
phase_etas = 'etaa0'
[../]
[./hb_test]
type = SwitchingFunctionMultiPhaseMaterial
h_name = hb
all_etas = 'etaa0 etab0 etad0'
phase_etas = 'etab0'
[../]
[./hd_test]
type = SwitchingFunctionMultiPhaseMaterial
h_name = hd
all_etas = 'etaa0 etab0 etad0'
phase_etas = 'etad0'
[../]
[./omegaa]
type = DerivativeParsedMaterial
args = 'w'
f_name = omegaa
material_property_names = 'Vm ka caeq'
function = '-0.5*w^2/Vm^2/ka-w/Vm*caeq'
derivative_order = 2
[../]
[./omegab]
type = DerivativeParsedMaterial
args = 'w'
f_name = omegab
material_property_names = 'Vm kb cbeq'
function = '-0.5*w^2/Vm^2/kb-w/Vm*cbeq'
derivative_order = 2
[../]
[./omegad]
type = DerivativeParsedMaterial
args = 'w'
f_name = omegad
material_property_names = 'Vm kd cdeq'
function = '-0.5*w^2/Vm^2/kd-w/Vm*cdeq'
derivative_order = 2
[../]
[./rhoa]
type = DerivativeParsedMaterial
args = 'w'
f_name = rhoa
material_property_names = 'Vm ka caeq'
function = 'w/Vm^2/ka + caeq/Vm'
derivative_order = 2
[../]
[./rhob]
type = DerivativeParsedMaterial
args = 'w'
f_name = rhob
material_property_names = 'Vm kb cbeq'
function = 'w/Vm^2/kb + cbeq/Vm'
derivative_order = 2
[../]
[./rhod]
type = DerivativeParsedMaterial
args = 'w'
f_name = rhod
material_property_names = 'Vm kd cdeq'
function = 'w/Vm^2/kd + cdeq/Vm'
derivative_order = 2
[../]
[./c]
type = ParsedMaterial
material_property_names = 'Vm rhoa rhob rhod ha hb hd'
function = 'Vm * (ha * rhoa + hb * rhob + hd * rhod)'
f_name = c
[../]
[./const]
type = GenericConstantMaterial
prop_names = 'kappa_c kappa L D Vm ka caeq kb cbeq kd cdeq gab gad gbd mu tgrad_corr_mult'
prop_values = '0 1 1.0 1.0 1.0 10.0 0.1 10.0 0.9 10.0 0.5 1.5 1.5 1.5 1.0 0.0'
[../]
[./Mobility]
type = DerivativeParsedMaterial
f_name = Dchi
material_property_names = 'D chi'
function = 'D*chi'
derivative_order = 2
[../]
[./chi]
type = DerivativeParsedMaterial
f_name = chi
material_property_names = 'Vm ha(etaa0,etab0,etad0) ka hb(etaa0,etab0,etad0) kb hd(etaa0,etab0,etad0) kd'
function = '(ha/ka + hb/kb + hd/kd) / Vm^2'
args = 'etaa0 etab0 etad0'
derivative_order = 2
[../]
[]
[Preconditioning]
[./SMP]
type = SMP
full = true
[../]
[]
[VectorPostprocessors]
[./etaa0]
type = LineValueSampler
variable = etaa0
start_point = '-15 0 0'
end_point = '15 0 0'
num_points = 61
sort_by = x
execute_on = 'initial timestep_end final'
[../]
[./etab0]
type = LineValueSampler
variable = etab0
start_point = '-15 0 0'
end_point = '15 0 0'
num_points = 61
sort_by = x
execute_on = 'initial timestep_end final'
[../]
[./etad0]
type = LineValueSampler
variable = etad0
start_point = '-15 0 0'
end_point = '15 0 0'
num_points = 61
sort_by = x
execute_on = 'initial timestep_end final'
[../]
[]
[Executioner]
type = Transient
nl_max_its = 15
scheme = bdf2
solve_type = PJFNK
petsc_options_iname = -pc_type
petsc_options_value = asm
l_max_its = 15
l_tol = 1.0e-3
nl_rel_tol = 1.0e-8
start_time = 0.0
num_steps = 20
nl_abs_tol = 1e-10
dt = 1.0
[]
[Outputs]
[./exodus]
type = Exodus
execute_on = 'initial timestep_end final'
interval = 1
[../]
[./csv]
type = CSV
execute_on = 'initial timestep_end final'
interval = 1
[../]
[]
(test/tests/functions/image_function/error/threshold_values.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[u]
[]
[]
[Functions]
[tif]
type = ImageFunction
file_base = ../stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
threshold = 30000
upper_value = 1
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = tif
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/sinks/s04.i)
# apply a piecewise-linear sink flux and observe the correct behavior
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = y+1
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.3
density0 = 1.1
thermal_expansion = 0
viscosity = 1.1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[AuxVariables]
[flux_out]
[]
[xval]
[]
[yval]
[]
[pt_shift]
initial_condition = 0.3
[]
[]
[ICs]
[xval]
type = FunctionIC
variable = xval
function = x
[]
[yval]
type = FunctionIC
variable = yval
function = y
[]
[]
[Functions]
[mass10]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)'
vars = 'vol por dens0 pp bulk'
vals = '0.25 0.1 1.1 p10 1.3'
[]
[rate10]
type = ParsedFunction
value = 'fcn*if(pp>0.8,1,if(pp<0.3,0.5,0.2+pp))'
vars = 'fcn pp'
vals = '8 p10'
[]
[mass10_expect]
type = ParsedFunction
value = 'mass_prev-rate*area*dt'
vars = 'mass_prev rate area dt'
vals = 'm10_prev m10_rate 0.5 1E-3'
[]
[mass11]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)'
vars = 'vol por dens0 pp bulk'
vals = '0.25 0.1 1.1 p11 1.3'
[]
[rate11]
type = ParsedFunction
value = 'fcn*if(pp>0.8,1,if(pp<0.3,0.5,0.2+pp))'
vars = 'fcn pp'
vals = '8 p11'
[]
[mass11_expect]
type = ParsedFunction
value = 'mass_prev-rate*area*dt'
vars = 'mass_prev rate area dt'
vals = 'm11_prev m11_rate 0.5 1E-3'
[]
[]
[Postprocessors]
[p00]
type = PointValue
point = '0 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p10]
type = PointValue
point = '1 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m10]
type = FunctionValuePostprocessor
function = mass10
execute_on = 'initial timestep_end'
[]
[m10_prev]
type = FunctionValuePostprocessor
function = mass10
execute_on = 'timestep_begin'
outputs = 'console'
[]
[m10_rate]
type = FunctionValuePostprocessor
function = rate10
execute_on = 'timestep_end'
[]
[m10_expect]
type = FunctionValuePostprocessor
function = mass10_expect
execute_on = 'timestep_end'
[]
[p01]
type = PointValue
point = '0 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p11]
type = PointValue
point = '1 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m11]
type = FunctionValuePostprocessor
function = mass11
execute_on = 'initial timestep_end'
[]
[m11_prev]
type = FunctionValuePostprocessor
function = mass11
execute_on = 'timestep_begin'
outputs = 'console'
[]
[m11_rate]
type = FunctionValuePostprocessor
function = rate11
execute_on = 'timestep_end'
[]
[m11_expect]
type = FunctionValuePostprocessor
function = mass11_expect
execute_on = 'timestep_end'
[]
[]
[BCs]
[flux]
type = PorousFlowPiecewiseLinearSink
boundary = 'right'
PT_shift = pt_shift
pt_vals = '0.0 0.5'
multipliers = '0.5 1'
variable = pp
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 8
save_in = flux_out
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10000 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-3
end_time = 1E-2
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s04
[console]
type = Console
execute_on = 'nonlinear linear'
[]
[csv]
type = CSV
execute_on = 'timestep_end'
[]
[]
(modules/level_set/examples/circle/circle_16.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
ymin = 0
ymax = 1
nx = 16
ny = 16
[]
[Variables]
[./phi]
[../]
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[ICs]
[./phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[../]
[./vel_ic]
type = VectorFunctionIC
variable = velocity
function = velocity_func
[]
[]
[Functions]
[./phi_exact]
type = LevelSetOlssonBubble
epsilon = 0.05
center = '0.5 0.5 0'
radius = 0.15
[../]
[./velocity_func]
type = ParsedVectorFunction
value_x = '3'
value_y = '3'
[../]
[]
[BCs]
[./Periodic]
[./all]
variable = phi
auto_direction = 'x y'
[../]
[../]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./advection]
type = LevelSetAdvection
velocity = velocity
variable = phi
[../]
[]
[Postprocessors]
[./cfl]
type = LevelSetCFLCondition
velocity = velocity
execute_on = 'initial'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
start_time = 0
end_time = 1
scheme = crank-nicolson
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
[./TimeStepper]
type = PostprocessorDT
postprocessor = cfl
scale = 0.8
[../]
[]
[Outputs]
csv = true
exodus = true
[]
(modules/porous_flow/test/tests/hysteresis/hys_pc_1.i)
# Capillary-pressure calculation. First-order wetting curve
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
# Also, when using info_required=sat, remember that: (1) the hysteretic capillary pressure is not invertible if no high extension is used; (2) if saturation exceeds the turning point (eg sat <= 0.1) then the drying curve will be used
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 1
nx = 100
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = ''
[]
[]
[Variables]
[sat]
[]
[]
[ICs]
[sat]
type = FunctionIC
variable = sat
function = 'x'
[]
[]
[BCs]
[sat]
type = FunctionDirichletBC
variable = sat
function = 'x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = sat
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
initial_order = 1
previous_turning_points = 0.1
[]
[pc_calculator]
type = PorousFlowHystereticInfo
alpha_d = 10.0
alpha_w = 7.0
n_d = 1.5
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 12.0
high_ratio = 0.9
low_extension_type = none
high_extension_type = none
sat_var = sat
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[pc]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[pc]
type = PorousFlowPropertyAux
variable = pc
property = hysteretic_info
[]
[]
[VectorPostprocessors]
[pc]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 10
sort_by = x
variable = 'sat pc'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(modules/porous_flow/test/tests/poroperm/except1.i)
# Exception test: thermal=true but no thermal_expansion_coeff provided
[Mesh]
type = GeneratedMesh
dim = 3
[]
[GlobalParams]
PorousFlowDictator = dictator
displacements = 'disp_x disp_y disp_z'
biot_coefficient = 0.7
[]
[Variables]
[porepressure]
initial_condition = 2
[]
[temperature]
initial_condition = 4
[]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[]
[ICs]
[disp_x]
type = FunctionIC
function = '0.5 * x'
variable = disp_x
[]
[]
[Kernels]
[dummy_p]
type = TimeDerivative
variable = porepressure
[]
[dummy_t]
type = TimeDerivative
variable = temperature
[]
[dummy_x]
type = TimeDerivative
variable = disp_x
[]
[dummy_y]
type = TimeDerivative
variable = disp_y
[]
[dummy_z]
type = TimeDerivative
variable = disp_z
[]
[]
[AuxVariables]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[porosity]
type = PorousFlowPropertyAux
property = porosity
variable = porosity
[]
[]
[Postprocessors]
[porosity]
type = PointValue
variable = porosity
point = '0 0 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure temperature'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temperature
[]
[eff_fluid_pressure]
type = PorousFlowEffectiveFluidPressure
[]
[vol_strain]
type = PorousFlowVolumetricStrain
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[porosity]
type = PorousFlowPorosity
mechanical = true
fluid = true
thermal = true
ensure_positive = false
porosity_zero = 0.5
solid_bulk = 0.3
reference_porepressure = 3
reference_temperature = 3.5
[]
[]
[Executioner]
solve_type = Newton
type = Transient
num_steps = 1
[]
[Outputs]
csv = true
[]
(modules/richards/test/tests/buckley_leverett/bl02.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2.0E6
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.8
al = 1E-3
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[AuxKernels]
active = 'calculate_seff'
[./calculate_seff]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffVG
pressure_vars = pressure
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[BCs]
active = 'left'
[./left]
type = DirichletBC
variable = pressure
boundary = left
value = 980000
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Functions]
active = 'initial_pressure'
[./initial_pressure]
type = ParsedFunction
value = max((1000000-x/5*1000000)-20000,-20000)
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'andy'
[./andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 20'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 50
[./TimeStepper]
type = SolutionTimeAdaptiveDT
dt = 0.01
[../]
[]
[Outputs]
file_base = bl02
interval = 1000000
exodus = true
[]
(test/tests/time_integrators/explicit-euler/ee-1d-quadratic.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 20
elem_type = EDGE3
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x*x-2*t
[../]
[./exact_fn]
type = ParsedFunction
value = t*x*x
[../]
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
# lumping = true
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[BCs]
active = 'all'
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1'
function = exact_fn
implicit = true
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
scheme = 'explicit-euler'
solve_type = 'LINEAR'
l_tol = 1e-12
start_time = 0.0
num_steps = 20
dt = 0.00005
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/chemical_reactions/test/tests/aqueous_equilibrium/2species_eqaux.i)
# In this example, two primary species a and b are transported by diffusion and convection
# from the left of the porous medium, reacting to form two equilibrium species pa2 and pab
# according to the equilibrium reaction specified in the AqueousEquilibriumReactions block as:
#
# reactions = '2a = pa2 2
# a + b = pab -2'
#
# where the 2 is the weight of the equilibrium species, the 2 on the RHS of the first reaction
# refers to the equilibrium constant (log10(Keq) = 2), and the -2 on the RHS of the second
# reaction equates to log10(Keq) = -2.
#
# This example is identical to 2species.i, except that it explicitly includes all AuxKernels
# and Kernels that are set up by the action in 2species.i, and that the equilbrium constants
# are provided by AuxVariables
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
[]
[Variables]
[./a]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[../]
[./b]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[../]
[]
[AuxVariables]
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[./pa2]
[../]
[./pab]
[../]
[./pa2_logk]
initial_condition = 2
[../]
[./pab_logk]
initial_condition = -2
[../]
[]
[AuxKernels]
[./pa2eq]
type = AqueousEquilibriumRxnAux
variable = pa2
v = a
sto_v = 2
log_k = pa2_logk
[../]
[./pabeq]
type = AqueousEquilibriumRxnAux
variable = pab
v = 'a b'
sto_v = '1 1'
log_k = pab_logk
[../]
[]
[ICs]
[./pressure]
type = FunctionIC
variable = pressure
function = 2-x
[../]
[]
[Kernels]
[./a_ie]
type = PrimaryTimeDerivative
variable = a
[../]
[./a_diff]
type = PrimaryDiffusion
variable = a
[../]
[./a_conv]
type = PrimaryConvection
variable = a
p = pressure
[../]
[./b_ie]
type = PrimaryTimeDerivative
variable = b
[../]
[./b_diff]
type = PrimaryDiffusion
variable = b
[../]
[./b_conv]
type = PrimaryConvection
variable = b
p = pressure
[../]
[./a1eq]
type = CoupledBEEquilibriumSub
variable = a
log_k = pa2_logk
weight = 2
sto_u = 2
[../]
[./a1diff]
type = CoupledDiffusionReactionSub
variable = a
log_k = pa2_logk
weight = 2
sto_u = 2
[../]
[./a1conv]
type = CoupledConvectionReactionSub
variable = a
log_k = pa2_logk
weight = 2
sto_u = 2
p = pressure
[../]
[./a2eq]
type = CoupledBEEquilibriumSub
variable = a
v = b
log_k = pab_logk
weight = 1
sto_v = 1
sto_u = 1
[../]
[./a2diff]
type = CoupledDiffusionReactionSub
variable = a
v = b
log_k = pab_logk
weight = 1
sto_v = 1
sto_u = 1
[../]
[./a2conv]
type = CoupledConvectionReactionSub
variable = a
v = b
log_k = pab_logk
weight = 1
sto_v = 1
sto_u = 1
p = pressure
[../]
[./b2eq]
type = CoupledBEEquilibriumSub
variable = b
v = a
log_k = pab_logk
weight = 1
sto_v = 1
sto_u = 1
[../]
[./b2diff]
type = CoupledDiffusionReactionSub
variable = b
v = a
log_k = pab_logk
weight = 1
sto_v = 1
sto_u = 1
[../]
[./b2conv]
type = CoupledConvectionReactionSub
variable = b
v = a
log_k = pab_logk
weight = 1
sto_v = 1
sto_u = 1
p = pressure
[../]
[]
[BCs]
[./a_left]
type = DirichletBC
variable = a
boundary = left
value = 1.0e-2
[../]
[./a_right]
type = ChemicalOutFlowBC
variable = a
boundary = right
[../]
[./b_left]
type = DirichletBC
variable = b
boundary = left
value = 1.0e-2
[../]
[./b_right]
type = ChemicalOutFlowBC
variable = b
boundary = right
[../]
[]
[Materials]
[./porous]
type = GenericConstantMaterial
prop_names = 'diffusivity conductivity porosity'
prop_values = '1e-4 1e-4 0.2'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
nl_abs_tol = 1e-12
start_time = 0.0
end_time = 100
dt = 10.0
[]
[Outputs]
file_base = 2species_out
exodus = true
perf_graph = true
print_linear_residuals = true
hide = 'pa2_logk pab_logk'
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
(modules/chemical_reactions/test/tests/aqueous_equilibrium/1species.i)
# Simple equilibrium reaction example to illustrate the use of the AqueousEquilibriumReactions
# action.
# In this example, a single primary species a is transported by diffusion and convection
# from the left of the porous medium, reacting to form an equilibrium species pa2 according to
# the equilibrium reaction specified in the AqueousEquilibriumReactions block as:
#
# reactions = '2a = pa2 1'
#
# where the 2 is the weight of the equilibrium species, and the 1 refers to the equilibrium
# constant (log10(Keq) = 1).
#
# The AqueousEquilibriumReactions action creates all the required kernels and auxkernels
# to compute the reaction given by the above equilibrium reaction equation.
#
# Specifically, it adds to following:
# * An AuxVariable named 'pa2' (given in the reactions equations)
# * A AqueousEquilibriumRxnAux AuxKernel for this AuxVariable with all parameters
# * A CoupledBEEquilibriumSub Kernel for each primary species with all parameters
# * A CoupledDiffusionReactionSub Kernel for each primary species with all parameters
# * A CoupledConvectionReactionSub Kernel for each primary species with all parameters if
# pressure is a coupled variable
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
[]
[Variables]
[./a]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1e-2
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
variable = a
[../]
[../]
[]
[AuxVariables]
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./pressure]
type = FunctionIC
variable = pressure
function = 2-x
[../]
[]
[ReactionNetwork]
[./AqueousEquilibriumReactions]
primary_species = a
reactions = '2a = pa2 1'
secondary_species = pa2
pressure = pressure
[../]
[]
[Kernels]
[./a_ie]
type = PrimaryTimeDerivative
variable = a
[../]
[./a_diff]
type = PrimaryDiffusion
variable = a
[../]
[./a_conv]
type = PrimaryConvection
variable = a
p = pressure
[../]
[]
[BCs]
[./a_right]
type = ChemicalOutFlowBC
variable = a
boundary = right
[../]
[]
[Materials]
[./porous]
type = GenericConstantMaterial
prop_names = 'diffusivity conductivity porosity'
prop_values = '1e-4 1e-4 0.2'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
nl_abs_tol = 1e-12
start_time = 0.0
end_time = 100
dt = 10.0
[]
[Outputs]
file_base = 1species_out
exodus = true
perf_graph = true
print_linear_residuals = true
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
(modules/level_set/test/tests/reinitialization/master.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
ymin = 0
ymax = 1
nx = 8
ny = 8
uniform_refine = 3 #1/64
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[Variables]
[./phi]
[../]
[]
[Functions]
[./phi_exact]
type = LevelSetOlssonBubble
epsilon = 0.05
center = '0.5 0.5 0'
radius = 0.15
[../]
[./velocity_func]
type = ParsedVectorFunction
value_x = '1'
value_y = '1'
[../]
[]
[BCs]
[./Periodic]
[./all]
variable = phi
auto_direction = 'x y'
[../]
[../]
[]
[ICs]
[./phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[../]
[./vel_ic]
type = VectorFunctionIC
variable = velocity
function = velocity_func
[]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./advection]
type = LevelSetAdvection
velocity = velocity
variable = phi
[../]
[]
[Postprocessors]
[./area]
type = LevelSetVolume
threshold = 0.5
variable = phi
location = outside
execute_on = 'initial timestep_end'
[../]
[./cfl]
type = LevelSetCFLCondition
velocity = velocity
execute_on = 'initial'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
start_time = 0
end_time = 1
nl_rel_tol = 1e-12
scheme = crank-nicolson
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
[./TimeStepper]
type = PostprocessorDT
postprocessor = cfl
scale = 1
[../]
[]
[MultiApps]
[./reinit]
type = LevelSetReinitializationMultiApp
input_files = 'reinit.i'
execute_on = 'timestep_end'
[../]
[]
[Transfers]
[./to_sub]
type = MultiAppCopyTransfer
variable = phi
source_variable = phi
direction = to_multiapp
multi_app = reinit
execute_on = 'timestep_end'
[../]
[./to_sub_init]
type = MultiAppCopyTransfer
variable = phi_0
source_variable = phi
direction = to_multiapp
multi_app = reinit
execute_on = 'timestep_end'
[../]
[./from_sub]
type = MultiAppCopyTransfer
variable = phi
source_variable = phi
direction = from_multiapp
multi_app = reinit
execute_on = timestep_end
[../]
[]
[Outputs]
exodus = true
csv = true
[]
(modules/porous_flow/examples/restart/gravityeq.i)
# Initial run to establish gravity equilibrium. As only brine is present (no gas),
# we can use the single phase equation of state and kernels, reducing the computational
# cost. An estimate of the hydrostatic pressure gradient is used as the initial condition
# using an approximate brine density of 1060 kg/m^3.
# The end time is set to a large value (~100 years) to allow the pressure to reach
# equilibrium. Steady state detection is used to halt the run when a steady state is reached.
[Mesh]
type = GeneratedMesh
dim = 2
ny = 10
nx = 10
ymax = 100
xmax = 5000
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 -9.81 0'
temperature_unit = Celsius
[]
[Variables]
[porepressure]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
function = ppic
variable = porepressure
[]
[]
[Functions]
[ppic]
type = ParsedFunction
value = '10e6 + 1060*9.81*(100-y)'
[]
[]
[BCs]
[top]
type = DirichletBC
variable = porepressure
value = 10e6
boundary = top
[]
[]
[AuxVariables]
[temperature]
initial_condition = 50
[]
[xnacl]
initial_condition = 0.1
[]
[brine_density]
family = MONOMIAL
order = CONSTANT
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
variable = porepressure
[]
[flux0]
type = PorousFlowFullySaturatedDarcyFlow
variable = porepressure
[]
[]
[AuxKernels]
[brine_density]
type = PorousFlowPropertyAux
property = density
variable = brine_density
execute_on = 'initial timestep_end'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = porepressure
number_fluid_phases = 1
number_fluid_components = 1
[]
[]
[Modules]
[FluidProperties]
[brine]
type = BrineFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temperature
[]
[ps]
type = PorousFlow1PhaseFullySaturated
porepressure = porepressure
[]
[massfrac]
type = PorousFlowMassFraction
[]
[brine]
type = PorousFlowBrine
compute_enthalpy = false
compute_internal_energy = false
xnacl = xnacl
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1e-13 0 0 0 1e-13 0 0 0 1e-13'
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 3e9
nl_abs_tol = 1e-12
nl_rel_tol = 1e-06
steady_state_detection = true
steady_state_tolerance = 1e-12
[TimeStepper]
type = IterationAdaptiveDT
dt = 1e1
[]
[]
[Outputs]
execute_on = 'initial timestep_end'
exodus = true
perf_graph = true
[]
(test/tests/time_integrators/tvdrk2/2d-quadratic.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 20
ny = 20
elem_type = QUAD9
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*((x*x)+(y*y))-(4*t*t)
[../]
[./exact_fn]
type = ParsedFunction
value = t*t*((x*x)+(y*y))
[../]
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = u
function = ic
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1 2 3'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
[./TimeIntegrator]
type = ExplicitTVDRK2
[../]
solve_type = 'LINEAR'
start_time = 0.0
num_steps = 10
dt = 0.0001
l_tol = 1e-8
[]
[Outputs]
exodus = true
perf_graph = true
[]
(modules/rdg/test/tests/advection_1d/block_restrictable.i)
############################################################
[GlobalParams]
order = CONSTANT
family = MONOMIAL
u = u
slope_limiting = lslope
implicit = false
[]
############################################################
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 1
nx = 100
[]
[./subdomain1]
type = SubdomainBoundingBoxGenerator
bottom_left = '0.5 0 0'
block_id = 1
top_right = '1.0 1.0 0'
input = gen
[../]
[./interface]
type = SideSetsBetweenSubdomainsGenerator
primary_block = '0'
paired_block = '1'
new_boundary = 'primary0_interface'
input = subdomain1
[../]
[./interface_again]
type = SideSetsBetweenSubdomainsGenerator
primary_block = '1'
paired_block = '0'
new_boundary = 'primary1_interface'
input = interface
[../]
[]
############################################################
[Functions]
[./ic_u]
type = PiecewiseConstant
axis = x
direction = right
xy_data = '0.1 0.5
0.4 1.0
0.5 0.5'
[../]
[]
############################################################
[UserObjects]
[./lslope]
type = AEFVSlopeLimitingOneD
execute_on = 'linear'
scheme = 'superbee' #none | minmod | mc | superbee
block = 0
[../]
[./internal_side_flux]
type = AEFVUpwindInternalSideFlux
execute_on = 'linear'
[../]
[./free_outflow_bc]
type = AEFVFreeOutflowBoundaryFlux
execute_on = 'linear'
[../]
[]
############################################################
[Variables]
[./u]
block = 0
[../]
[./v]
block = 1
family = LAGRANGE
order = FIRST
[../]
[]
############################################################
[ICs]
[./u_ic]
type = FunctionIC
variable = 'u'
function = ic_u
[../]
[]
############################################################
[Kernels]
[./time_u]
implicit = true
type = TimeDerivative
variable = u
block = 0
[../]
[./diff_v]
implicit = true
type = Diffusion
variable = v
block = 1
[../]
[./time_v]
implicit = true
type = TimeDerivative
variable = v
block = 1
[../]
[]
############################################################
[DGKernels]
[./concentration]
type = AEFVKernel
variable = u
component = 'concentration'
flux = internal_side_flux
block = 0
[../]
[]
############################################################
[BCs]
[./concentration]
type = AEFVBC
boundary = 'left primary0_interface'
variable = u
component = 'concentration'
flux = free_outflow_bc
[../]
[./v_left]
type = DirichletBC
boundary = 'primary1_interface'
variable = v
value = 1
[../]
[./v_right]
type = DirichletBC
boundary = 'right'
variable = v
value = 0
[../]
[]
############################################################
[Materials]
[./aefv]
type = AEFVMaterial
block = 0
[../]
[./dummy_1]
type = GenericConstantMaterial
block = 1
prop_names = ''
prop_values = ''
[../]
[]
############################################################
[Executioner]
type = Transient
[./TimeIntegrator]
type = ExplicitMidpoint
[../]
solve_type = 'LINEAR'
l_tol = 1e-4
nl_rel_tol = 1e-20
nl_abs_tol = 1e-8
nl_max_its = 60
start_time = 0.0
num_steps = 4 # 4 | 400 for complete run
dt = 5e-4
dtmin = 1e-6
[]
[Outputs]
[./out]
type = Exodus
interval = 2
[../]
perf_graph = true
[]
(test/tests/time_steppers/timesequence_stepper/timesequence_restart_failure.i)
[Mesh]
file = timesequence_restart_failure1_cp/0002_mesh.cpr
[]
[Problem]
restart_file_base = timesequence_restart_failure1_cp/0002
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
end_time = 4.0
[./TimeStepper]
type = TimeSequenceStepper
time_sequence = '0 0.85 1.2 1.3 2 4'
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/radioactive_decay/radioactive_decay01.i)
# checking radioactive decay
# 1phase, 1component, constant porosity
#
# Note that we don't get mass = mass0 * exp(-Lambda * t)
# because of the time discretisation. We are solving
# the equation
# (mass - mass0)/dt = -Lambda * mass
# which has the solution
# mass = mass0/(1 + Lambda * dt)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 3
xmin = -1
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[]
[ICs]
[pinit]
type = FunctionIC
function = 10
variable = pp
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[decay]
type = PorousFlowMassRadioactiveDecay
fluid_component = 0
variable = pp
decay_rate = 2.0
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[total_mass]
type = PorousFlowFluidMass
execute_on = 'timestep_end'
[]
[total_mass0]
type = PorousFlowFluidMass
execute_on = 'timestep_begin'
[]
[should_be_zero]
type = FunctionValuePostprocessor
function = should_be_0
[]
[]
[Functions]
[should_be_0]
type = ParsedFunction
vars = 'm0 m rate dt'
vals = 'total_mass0 total_mass 2.0 1'
value = 'm-m0/(1.0+rate*dt)'
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
num_steps = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = radioactive_decay01
csv = true
[]
(test/tests/executioners/nullspace/singular_contaminated.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = 0
xmax = 10
nx = 8
[]
[Problem]
null_space_dimension = 1
transpose_null_space_dimension = 1
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[./eig]
type = MassEigenKernel
variable = u
eigen_postprocessor = 1.0002920196258376e+01
eigen = false
[../]
[./force]
type = CoupledForce
variable = u
v = aux_v
[../]
[]
[AuxVariables]
[./aux_v]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = eigen_mode
[../]
[../]
[]
[AuxKernels]
[./set_source]
type = FunctionAux
variable = aux_v
function = contaminated_second_harmonic
execute_on = timestep_begin
[../]
[]
[Functions]
[./eigen_mode]
type = ParsedFunction
value = 'sqrt(2.0 / L) * sin(mode * pi * x / L)'
vars = 'L mode'
vals = '10 1'
[../]
[./contaminated_second_harmonic]
type = ParsedFunction
value = 'sqrt(2.0 / L) * sin(mode * pi * x / L) + a * sqrt(2.0 / L) * sin(pi * x / L)'
vars = 'L mode a'
vals = '10 2 1'
[../]
[]
[BCs]
[./homogeneous]
type = DirichletBC
variable = u
boundary = '0 1'
value = 0
[../]
[]
[VectorPostprocessors]
[./sample_solution]
type = LineValueSampler
variable = u
start_point = '0 0 0'
end_point = '10 0 0'
sort_by = x
num_points = 9
execute_on = timestep_end
[../]
[]
[Preconditioning]
[./prec]
type = SMP
full = true
[../]
[]
[Executioner]
type = SteadyWithNull
petsc_options_iname = '-pc_type -pc_hypre_type -ksp_pc_side -snes_type -ksp_norm_type'
petsc_options_value = 'hypre boomeramg left ksponly preconditioned'
nl_rel_tol = 1.0e-14
nl_abs_tol = 1.0e-14
[]
[Outputs]
execute_on = 'timestep_end'
csv = true
[]
(modules/porous_flow/test/tests/relperm/brooks_corey1.i)
# Test Brooks-Corey relative permeability curve by varying saturation over the mesh
# Exponent lambda = 2 for both phases
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityBC
phase = 0
lambda = 2
[]
[kr1]
type = PorousFlowRelativePermeabilityBC
phase = 1
lambda = 2
nw_phase = true
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-8
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(test/tests/auxkernels/solution_aux/aux_nonlinear_solution_xda.i)
[Mesh]
# This test uses SolutionUserObject which doesn't work with DistributedMesh.
type = GeneratedMesh
parallel_type = replicated
dim = 2
nx = 2
ny = 2
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./u_aux]
[../]
[]
[Functions]
[./u_xda_func]
type = SolutionFunction
solution = xda_u
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[AuxKernels]
[./aux_xda_kernel]
type = SolutionAux
variable = u_aux
solution = xda_u_aux
execute_on = initial
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[./right]
type = DirichletBC
variable = u
boundary = 2
value = 2
[../]
[]
[UserObjects]
[./xda_u_aux]
type = SolutionUserObject
system = aux0
mesh = aux_nonlinear_solution_out_0001_mesh.xda
es = aux_nonlinear_solution_out_0001.xda
system_variables = u_aux
execute_on = initial
[../]
[./xda_u]
type = SolutionUserObject
system = nl0
mesh = aux_nonlinear_solution_out_0001_mesh.xda
es = aux_nonlinear_solution_out_0001.xda
system_variables = u
execute_on = initial
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
nl_rel_tol = 1e-10
[]
[Outputs]
exodus = true
[]
[ICs]
[./u_func_ic]
function = u_xda_func
variable = u
type = FunctionIC
[../]
[]
(modules/porous_flow/test/tests/jacobian/basic_advection1.i)
# Basic advection with no PorousFlow variables
[Mesh]
type = GeneratedMesh
dim = 1
nx = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[P]
[]
[]
[ICs]
[P]
type = FunctionIC
variable = P
function = '2*(1-x)'
[]
[u]
type = RandomIC
variable = u
[]
[]
[Kernels]
[u_advection]
type = PorousFlowBasicAdvection
variable = u
phase = 0
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = ''
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e9
density0 = 4
thermal_expansion = 0
viscosity = 150.0
[]
[]
[]
[Materials]
[temperature_qp]
type = PorousFlowTemperature
[]
[ppss_qp]
type = PorousFlow1PhaseP
porepressure = P
capillary_pressure = pc
[]
[simple_fluid_qp]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '5 0 0 0 5 0 0 0 5'
[]
[relperm_qp]
type = PorousFlowRelativePermeabilityCorey
n = 0
phase = 0
[]
[darcy_velocity_qp]
type = PorousFlowDarcyVelocityMaterial
gravity = '0.25 0 0'
[]
[]
[Preconditioning]
[check]
type = SMP
full = true
#petsc_options = '-snes_test_display'
petsc_options_iname = '-snes_type'
petsc_options_value = ' test'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 1
[]
(test/tests/bcs/periodic/no_add_scalar.i)
# Test to make sure that periodic boundaries
# are not applied to scalar variables.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[./scalar]
family = SCALAR
[../]
[]
[BCs]
[./Periodic]
[./all]
auto_direction = x
[../]
[../]
[]
[Kernels]
[./dt]
type = TimeDerivative
variable = c
[../]
[./diff]
type = Diffusion
variable = c
[../]
[]
[ScalarKernels]
[./scalar]
type = ODETimeDerivative
variable = scalar
[../]
[]
[Executioner]
type = Transient
dt = 0.1
num_steps = 3
[]
[Outputs]
exodus = true
[]
(test/tests/time_integrators/explicit-euler/ee-1d-linear.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 200
elem_type = EDGE2
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x
[../]
[./exact_fn]
type = ParsedFunction
value = t*x
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
lumping = true
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[BCs]
active = 'all'
[./all]
type = FunctionDirichletBC
variable = u
preset = false
boundary = '0 1'
function = exact_fn
implicit = true
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
scheme = 'explicit-euler'
solve_type = 'LINEAR'
start_time = 0.0
num_steps = 20
dt = 0.00005
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/porous_flow/test/tests/sinks/s05.i)
# apply a half-gaussian sink flux and observe the correct behavior
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1.1
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = y+1.4
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.3
density0 = 1.1
thermal_expansion = 0
viscosity = 1.1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[AuxVariables]
[flux_out]
[]
[]
[Functions]
[mass10]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)*if(pp>=0,1,pow(1+pow(-al*pp,1.0/(1-m)),-m))'
vars = 'vol por dens0 pp bulk al m'
vals = '0.25 0.1 1.1 p10 1.3 1.1 0.5'
[]
[rate10]
type = ParsedFunction
value = 'if(pp>center,fcn,fcn*exp(-0.5*(pp-center)*(pp-center)/sd/sd))'
vars = 'fcn pp center sd'
vals = '6 p10 0.9 0.5'
[]
[mass10_expect]
type = ParsedFunction
value = 'mass_prev-rate*area*dt'
vars = 'mass_prev rate area dt'
vals = 'm10_prev m10_rate 0.5 2E-3'
[]
[mass11]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)*if(pp>=0,1,pow(1+pow(-al*pp,1.0/(1-m)),-m))'
vars = 'vol por dens0 pp bulk al m'
vals = '0.25 0.1 1.1 p11 1.3 1.1 0.5'
[]
[rate11]
type = ParsedFunction
value = 'if(pp>center,fcn,fcn*exp(-0.5*(pp-center)*(pp-center)/sd/sd))'
vars = 'fcn pp center sd'
vals = '6 p11 0.9 0.5'
[]
[mass11_expect]
type = ParsedFunction
value = 'mass_prev-rate*area*dt'
vars = 'mass_prev rate area dt'
vals = 'm11_prev m11_rate 0.5 2E-3'
[]
[]
[Postprocessors]
[flux10]
type = PointValue
variable = flux_out
point = '1 0 0'
[]
[p00]
type = PointValue
point = '0 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p10]
type = PointValue
point = '1 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m10]
type = FunctionValuePostprocessor
function = mass10
execute_on = 'initial timestep_end'
[]
[m10_prev]
type = FunctionValuePostprocessor
function = mass10
execute_on = 'timestep_begin'
outputs = 'console'
[]
[m10_rate]
type = FunctionValuePostprocessor
function = rate10
execute_on = 'timestep_end'
[]
[m10_expect]
type = FunctionValuePostprocessor
function = mass10_expect
execute_on = 'timestep_end'
[]
[p01]
type = PointValue
point = '0 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p11]
type = PointValue
point = '1 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m11]
type = FunctionValuePostprocessor
function = mass11
execute_on = 'initial timestep_end'
[]
[m11_prev]
type = FunctionValuePostprocessor
function = mass11
execute_on = 'timestep_begin'
outputs = 'console'
[]
[m11_rate]
type = FunctionValuePostprocessor
function = rate11
execute_on = 'timestep_end'
[]
[m11_expect]
type = FunctionValuePostprocessor
function = mass11_expect
execute_on = 'timestep_end'
[]
[]
[BCs]
[flux]
type = PorousFlowHalfGaussianSink
boundary = 'right'
max = 6
sd = 0.5
center = 0.9
variable = pp
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 1
save_in = flux_out
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10000 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 2E-3
end_time = 6E-2
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s05
[console]
type = Console
execute_on = 'nonlinear linear'
interval = 5
[]
[csv]
type = CSV
execute_on = 'timestep_end'
interval = 3
[]
[]
(modules/porous_flow/examples/restart/gas_injection_new_mesh.i)
# Using the results from the equilibrium run to provide the initial condition for
# porepressure, we now inject a gas phase into the brine-saturated reservoir. In this
# example, the mesh is not identical to the mesh used in gravityeq.i. Rather, it is
# generated so that it is more refined near the injection boundary and at the top of
# the model, as that is where the gas plume will be present.
#
# To use the hydrostatic pressure calculated using the gravity equilibrium run as the initial
# condition for the pressure, a SolutionUserObject is used, along with a SolutionFunction to
# interpolate the pressure from the gravity equilibrium run to the initial condition for liqiud
# porepressure in this example.
#
# Even though the gravity equilibrium is established using a 2D mesh, in this example,
# we use a mesh shifted 0.1 m to the right and rotate it about the Y axis to make a 2D radial
# model.
#
# Methane injection takes place over the surface of the hole created by rotating the mesh,
# and hence the injection area is 2 pi r h. We can calculate this using an AreaPostprocessor,
# and then use this in a ParsedFunction to calculate the injection rate so that 10 kg/s of
# methane is injected.
#
# Note: as this example uses the results from a previous simulation, gravityeq.i MUST be
# run before running this input file.
[Mesh]
type = GeneratedMesh
dim = 2
ny = 25
nx = 50
ymax = 100
xmin = 0.1
xmax = 5000
bias_x = 1.05
bias_y = 0.95
[]
[Problem]
coord_type = RZ
rz_coord_axis = Y
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 -9.81 0'
temperature_unit = Celsius
[]
[Variables]
[pp_liq]
[]
[sat_gas]
initial_condition = 0
[]
[]
[ICs]
[ppliq_ic]
type = FunctionIC
variable = pp_liq
function = ppliq_ic
[]
[]
[AuxVariables]
[temperature]
initial_condition = 50
[]
[xnacl]
initial_condition = 0.1
[]
[brine_density]
family = MONOMIAL
order = CONSTANT
[]
[methane_density]
family = MONOMIAL
order = CONSTANT
[]
[massfrac_ph0_sp0]
initial_condition = 1
[]
[massfrac_ph1_sp0]
initial_condition = 0
[]
[pp_gas]
family = MONOMIAL
order = CONSTANT
[]
[sat_liq]
family = MONOMIAL
order = CONSTANT
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
variable = pp_liq
[]
[flux0]
type = PorousFlowAdvectiveFlux
variable = pp_liq
[]
[mass1]
type = PorousFlowMassTimeDerivative
variable = sat_gas
fluid_component = 1
[]
[flux1]
type = PorousFlowAdvectiveFlux
variable = sat_gas
fluid_component = 1
[]
[]
[AuxKernels]
[brine_density]
type = PorousFlowPropertyAux
property = density
variable = brine_density
execute_on = 'initial timestep_end'
[]
[methane_density]
type = PorousFlowPropertyAux
property = density
variable = methane_density
phase = 1
execute_on = 'initial timestep_end'
[]
[pp_gas]
type = PorousFlowPropertyAux
property = pressure
phase = 1
variable = pp_gas
execute_on = 'initial timestep_end'
[]
[sat_liq]
type = PorousFlowPropertyAux
property = saturation
variable = sat_liq
execute_on = 'initial timestep_end'
[]
[]
[BCs]
[gas_injection]
type = PorousFlowSink
boundary = left
variable = sat_gas
flux_function = injection_rate
fluid_phase = 1
[]
[brine_out]
type = PorousFlowPiecewiseLinearSink
boundary = right
variable = pp_liq
multipliers = '0 1e9'
pt_vals = '0 1e9'
fluid_phase = 0
flux_function = 1e-6
use_mobility = true
use_relperm = true
mass_fraction_component = 0
[]
[]
[Functions]
[injection_rate]
type = ParsedFunction
vals = injection_area
vars = area
value = '-1/area'
[]
[ppliq_ic]
type = SolutionFunction
solution = soln
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp_liq sat_gas'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
alpha = 1e-5
m = 0.5
sat_lr = 0.2
pc_max = 1e7
[]
[soln]
type = SolutionUserObject
mesh = gravityeq_out.e
system_variables = porepressure
[]
[]
[Modules]
[FluidProperties]
[brine]
type = BrineFluidProperties
[]
[methane]
type = MethaneFluidProperties
[]
[methane_tab]
type = TabulatedFluidProperties
fp = methane
save_file = false
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temperature
[]
[ps]
type = PorousFlow2PhasePS
phase0_porepressure = pp_liq
phase1_saturation = sat_gas
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac_ph0_sp0 massfrac_ph1_sp0'
[]
[brine]
type = PorousFlowBrine
compute_enthalpy = false
compute_internal_energy = false
xnacl = xnacl
phase = 0
[]
[methane]
type = PorousFlowSingleComponentFluid
compute_enthalpy = false
compute_internal_energy = false
fp = methane_tab
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1e-13 0 0 0 5e-14 0 0 0 1e-13'
[]
[relperm_liq]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
s_res = 0.2
sum_s_res = 0.3
[]
[relperm_gas]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 1
s_res = 0.1
sum_s_res = 0.3
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = ' asm lu NONZERO'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 1e8
nl_abs_tol = 1e-12
nl_rel_tol = 1e-06
nl_max_its = 20
dtmax = 1e6
[TimeStepper]
type = IterationAdaptiveDT
dt = 1e1
growth_factor = 1.5
[]
[]
[Postprocessors]
[mass_ph0]
type = PorousFlowFluidMass
fluid_component = 0
execute_on = 'initial timestep_end'
[]
[mass_ph1]
type = PorousFlowFluidMass
fluid_component = 1
execute_on = 'initial timestep_end'
[]
[injection_area]
type = AreaPostprocessor
boundary = left
execute_on = initial
[]
[]
[Outputs]
execute_on = 'initial timestep_end'
exodus = true
perf_graph = true
[]
(test/tests/time_integrators/actually_explicit_euler_verification/ee-2d-linear-adapt.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 10
ny = 10
elem_type = QUAD4
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = (x+y)
[../]
[./exact_fn]
type = ParsedFunction
value = t*(x+y)
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
preset = false
boundary = '0 1 2 3'
function = exact_fn
[../]
[]
[Adaptivity]
steps = 1
marker = box
max_h_level = 2
[./Markers]
[./box]
bottom_left = '-0.4 -0.4 0'
inside = refine
top_right = '0.4 0.4 0'
outside = do_nothing
type = BoxMarker
[../]
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
start_time = 0.0
num_steps = 4
dt = 0.005
l_tol = 1e-12
[./TimeIntegrator]
type = ActuallyExplicitEuler
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/navier_stokes/test/tests/bcs/advection_bc/advection_bc.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = 0
xmax = 10.0
nx = 100
[]
[Variables]
[./phi]
[../]
[]
[AuxVariables]
[./vx]
[../]
[./force]
[../]
[]
[ICs]
[./vx]
type = FunctionIC
variable = vx
function = vx_function
[../]
[./force]
type = FunctionIC
variable = force
function = forcing
[../]
[]
[Kernels]
[./advection]
type = MassConvectiveFlux
variable = phi
vel_x = vx
[../]
[./rhs]
type = CoupledForce
variable = phi
v = force
[../]
[]
[BCs]
[./inflow_enthalpy]
type = DirichletBC
variable = phi
boundary = 'left'
value = 1
[../]
[./outflow_term]
type = AdvectionBC
variable = phi
velocity_vector = 'vx'
boundary = 'right'
[../]
[]
[Functions]
[./vx_function]
type = ParsedFunction
value = '1 + x * x'
[../]
[./forcing]
type = ParsedFunction
value = 'x'
[../]
[./analytical]
type = ParsedFunction
value = '(1 + 0.5 * x * x) / (1 + x * x)'
[../]
[]
[Postprocessors]
[./error]
type = ElementL2Error
variable = phi
function = analytical
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
perf_graph = true
[]
(modules/fluid_properties/test/tests/brine/brine.i)
# Test BrineFluidProperties calculations of density, viscosity and thermal
# conductivity
#
# Experimental density values from Pitzer et al, "Thermodynamic properties
# of aqueous sodium chloride solution", Journal of Physical and Chemical
# Reference Data, 13, 1-102 (1984)
#
# Experimental viscosity values from Phillips et al, "Viscosity of NaCl and
# other solutions up to 350C and 50MPa pressures", LBL-11586 (1980)
#
# Thermal conductivity values from Ozbek and Phillips, "Thermal conductivity of
# aqueous NaCl solutions from 20C to 330C", LBL-9086 (1980)
#
# --------------------------------------------------------------
# Pressure (Mpa) | 20 | 20 | 40
# Temperature (C) | 50 | 200 | 200
# NaCl molality (mol/kg) | 2 | 2 | 5
# NaCl mass fraction (kg/kg) | 0.1047 | 0.1047 | 0.2261
# --------------------------------------------------------------
# Expected values
# --------------------------------------------------------------
# Density (kg/m^3) | 1068.52 | 959.27 | 1065.58
# Viscosity (1e-6Pa.s) | 679.8 | 180.0 | 263.1
# Thermal conductivity (W/m/K) | 0.630 | 0.649 | 0.633
# --------------------------------------------------------------
# Calculated values
# --------------------------------------------------------------
# Density (kg/m^3) | 1067.18 | 958.68 | 1065.46
# Viscosity (1e-6 Pa.s) | 681.1 | 181.98 | 266.1
# Thermal conductivity (W/m/K) | 0.637 | 0.662 | 0.658
# --------------------------------------------------------------
#
# All results are within expected accuracy
[Mesh]
type = GeneratedMesh
dim = 2
nx = 3
ny = 1
xmax = 3
# This test uses ElementalVariableValue postprocessors on specific
# elements, so element numbering needs to stay unchanged
allow_renumbering = false
[]
[Variables]
[./dummy]
[../]
[]
[AuxVariables]
[./pressure]
family = MONOMIAL
order = CONSTANT
[../]
[./temperature]
family = MONOMIAL
order = CONSTANT
[../]
[./xnacl]
family = MONOMIAL
order = CONSTANT
[../]
[./density]
family = MONOMIAL
order = CONSTANT
[../]
[./enthalpy]
family = MONOMIAL
order = CONSTANT
[../]
[./internal_energy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Functions]
[./pic]
type = ParsedFunction
value = 'if(x<2,20e6, 40e6)'
[../]
[./tic]
type = ParsedFunction
value = 'if(x<1, 323.15, 473.15)'
[../]
[./xic]
type = ParsedFunction
value = 'if(x<2,0.1047, 0.2261)'
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
function = pic
variable = pressure
[../]
[./t_ic]
type = FunctionIC
function = tic
variable = temperature
[../]
[./x_ic]
type = FunctionIC
function = xic
variable = xnacl
[../]
[]
[AuxKernels]
[./density]
type = MaterialRealAux
variable = density
property = density
[../]
[./enthalpy]
type = MaterialRealAux
variable = enthalpy
property = enthalpy
[../]
[./internal_energy]
type = MaterialRealAux
variable = internal_energy
property = e
[../]
[]
[Modules]
[./FluidProperties]
[./brine]
type = BrineFluidProperties
[../]
[../]
[]
[Materials]
[./fp_mat]
type = MultiComponentFluidPropertiesMaterialPT
pressure = pressure
temperature = temperature
xmass = xnacl
fp = brine
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = dummy
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
[]
[Postprocessors]
[./density0]
type = ElementalVariableValue
variable = density
elementid = 0
[../]
[./density1]
type = ElementalVariableValue
variable = density
elementid = 1
[../]
[./density2]
type = ElementalVariableValue
variable = density
elementid = 2
[../]
[./enthalpy0]
type = ElementalVariableValue
variable = enthalpy
elementid = 0
[../]
[./enthalpy1]
type = ElementalVariableValue
variable = enthalpy
elementid = 1
[../]
[./enthalpy2]
type = ElementalVariableValue
variable = enthalpy
elementid = 2
[../]
[./e0]
type = ElementalVariableValue
variable = internal_energy
elementid = 0
[../]
[./e1]
type = ElementalVariableValue
variable = internal_energy
elementid = 1
[../]
[./e2]
type = ElementalVariableValue
variable = internal_energy
elementid = 2
[../]
[]
[Outputs]
csv = true
[]
(modules/phase_field/test/tests/GrandPotentialPFM/GrandPotentialMultiphase.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
xmin = -20
xmax = 20
ymin = -20
ymax = 20
[]
[GlobalParams]
op_num = 2
var_name_base = etab
[]
[Variables]
[./w]
[../]
[./etaa0]
[../]
[./etab0]
[../]
[./etab1]
[../]
[]
[AuxVariables]
[./bnds]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./IC_etaa0]
type = FunctionIC
variable = etaa0
function = ic_func_etaa0
[../]
[./IC_etab0]
type = FunctionIC
variable = etab0
function = ic_func_etab0
[../]
[./IC_etab1]
type = FunctionIC
variable = etab1
function = ic_func_etab1
[../]
[./IC_w]
type = ConstantIC
value = -0.05
variable = w
[../]
[]
[Functions]
[./ic_func_etaa0]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2);0.5*(1.0-tanh((r-10.0)/sqrt(2.0)))'
[../]
[./ic_func_etab0]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2);0.5*(1.0+tanh((r-10)/sqrt(2.0)))*0.5*(1.0+tanh((y)/sqrt(2.0)))'
[../]
[./ic_func_etab1]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2);0.5*(1.0+tanh((r-10)/sqrt(2.0)))*0.5*(1.0-tanh((y)/sqrt(2.0)))'
[../]
[]
[BCs]
[]
[Kernels]
# Order parameter eta_alpha0
[./ACa0_bulk]
type = ACGrGrMulti
variable = etaa0
v = 'etab0 etab1'
gamma_names = 'gab gab'
[../]
[./ACa0_sw]
type = ACSwitching
variable = etaa0
Fj_names = 'omegaa omegab'
hj_names = 'ha hb'
args = 'etab0 etab1 w'
[../]
[./ACa0_int]
type = ACInterface
variable = etaa0
kappa_name = kappa
[../]
[./ea0_dot]
type = TimeDerivative
variable = etaa0
[../]
# Order parameter eta_beta0
[./ACb0_bulk]
type = ACGrGrMulti
variable = etab0
v = 'etaa0 etab1'
gamma_names = 'gab gbb'
[../]
[./ACb0_sw]
type = ACSwitching
variable = etab0
Fj_names = 'omegaa omegab'
hj_names = 'ha hb'
args = 'etaa0 etab1 w'
[../]
[./ACb0_int]
type = ACInterface
variable = etab0
kappa_name = kappa
[../]
[./eb0_dot]
type = TimeDerivative
variable = etab0
[../]
# Order parameter eta_beta1
[./ACb1_bulk]
type = ACGrGrMulti
variable = etab1
v = 'etaa0 etab0'
gamma_names = 'gab gbb'
[../]
[./ACb1_sw]
type = ACSwitching
variable = etab1
Fj_names = 'omegaa omegab'
hj_names = 'ha hb'
args = 'etaa0 etab0 w'
[../]
[./ACb1_int]
type = ACInterface
variable = etab1
kappa_name = kappa
[../]
[./eb1_dot]
type = TimeDerivative
variable = etab1
[../]
#Chemical potential
[./w_dot]
type = SusceptibilityTimeDerivative
variable = w
f_name = chi
args = '' # in this case chi (the susceptibility) is simply a constant
[../]
[./Diffusion]
type = MatDiffusion
variable = w
diffusivity = Dchi
args = ''
[../]
[./coupled_etaa0dot]
type = CoupledSwitchingTimeDerivative
variable = w
v = etaa0
Fj_names = 'rhoa rhob'
hj_names = 'ha hb'
args = 'etaa0 etab0 etab1'
[../]
[./coupled_etab0dot]
type = CoupledSwitchingTimeDerivative
variable = w
v = etab0
Fj_names = 'rhoa rhob'
hj_names = 'ha hb'
args = 'etaa0 etab0 etab1'
[../]
[./coupled_etab1dot]
type = CoupledSwitchingTimeDerivative
variable = w
v = etab1
Fj_names = 'rhoa rhob'
hj_names = 'ha hb'
args = 'etaa0 etab0 etab1'
[../]
[]
[AuxKernels]
[./BndsCalc]
type = BndsCalcAux
variable = bnds
execute_on = timestep_end
[../]
[]
# enable_jit set to false in many materials to make this test start up faster.
# It is recommended to set enable_jit = true or just remove these lines for
# production runs with this model
[Materials]
[./ha]
type = SwitchingFunctionMultiPhaseMaterial
h_name = ha
all_etas = 'etaa0 etab0 etab1'
phase_etas = 'etaa0'
[../]
[./hb]
type = SwitchingFunctionMultiPhaseMaterial
h_name = hb
all_etas = 'etaa0 etab0 etab1'
phase_etas = 'etab0 etab1'
[../]
[./omegaa]
type = DerivativeParsedMaterial
args = 'w'
f_name = omegaa
material_property_names = 'Vm ka caeq'
function = '-0.5*w^2/Vm^2/ka-w/Vm*caeq'
derivative_order = 2
enable_jit = false
[../]
[./omegab]
type = DerivativeParsedMaterial
args = 'w'
f_name = omegab
material_property_names = 'Vm kb cbeq'
function = '-0.5*w^2/Vm^2/kb-w/Vm*cbeq'
derivative_order = 2
enable_jit = false
[../]
[./rhoa]
type = DerivativeParsedMaterial
args = 'w'
f_name = rhoa
material_property_names = 'Vm ka caeq'
function = 'w/Vm^2/ka + caeq/Vm'
derivative_order = 2
enable_jit = false
[../]
[./rhob]
type = DerivativeParsedMaterial
args = 'w'
f_name = rhob
material_property_names = 'Vm kb cbeq'
function = 'w/Vm^2/kb + cbeq/Vm'
derivative_order = 2
enable_jit = false
[../]
[./const]
type = GenericConstantMaterial
prop_names = 'kappa_c kappa L D chi Vm ka caeq kb cbeq gab gbb mu'
prop_values = '0 1 1.0 1.0 1.0 1.0 10.0 0.1 10.0 0.9 4.5 1.5 1.0'
[../]
[./Mobility]
type = DerivativeParsedMaterial
f_name = Dchi
material_property_names = 'D chi'
function = 'D*chi'
derivative_order = 2
enable_jit = false
[../]
[]
[Preconditioning]
[./SMP]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
petsc_options_iname = '-pc_type -ksp_gmres_restart -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 lu 1'
l_tol = 1.0e-3
nl_rel_tol = 1.0e-8
nl_abs_tol = 1e-8
num_steps = 2
[./TimeStepper]
type = SolutionTimeAdaptiveDT
dt = 0.1
[../]
[]
[Outputs]
exodus = true
[]
(modules/geochemistry/test/tests/kernels/advection_1.i)
# A step-like initial concentration is advected to the right using a constant velocity.
# Because of the Dirichlet BC on the left, the step-like concentration profile is maintained (up to the usual numerical diffusion)
# Because upwinding_type=full in the ConservativeAdvection Kernel, there are no overshoots and undershoots
# The total amount of "conc" should increase by dt * velocity every timestep, as recorded by the front_position Postprocessor
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
[]
[Variables]
[conc]
[]
[]
[ICs]
[conc]
type = FunctionIC
function = 'if(x<=0.25, 1, 0)'
variable = conc
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 1.0
variable = conc
[]
[]
[Kernels]
[dot]
type = GeochemistryTimeDerivative
variable = conc
[]
[adv]
type = ConservativeAdvection
velocity = velocity
upwinding_type = full
variable = conc
[]
[]
[AuxVariables]
[velocity]
family = MONOMIAL_VEC
order = CONSTANT
[]
[]
[AuxKernels]
[velocity]
type = VectorFunctionAux
function = vel_fcn
variable = velocity
[]
[]
[Functions]
[vel_fcn]
type = ParsedVectorFunction
value_x = 1
value_y = 0
value_z = 0
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 0.01
end_time = 0.1
[]
[Postprocessors]
[front_position]
type = ElementIntegralVariablePostprocessor
variable = conc
[]
[]
[Outputs]
csv = true
[]
(modules/navier_stokes/test/tests/finite_volume/cns/symmetry_test/2D_symmetry.i)
rho_inside = 1
E_inside = 2.501505578
rho_outside = 0.125
E_outside = 1.999770935
radius = 0.1
angle = 45
[GlobalParams]
fp = fp
[]
[Debug]
show_material_props = true
[]
[Mesh]
[file]
type = GeneratedMeshGenerator
dim = 2
xmin = -0.5
xmax = 0.5
nx = 10
ymin = -0.5
ymax = 0.5
ny = 10
[../]
[rotate]
type = TransformGenerator
vector_value = '${angle} 0 0'
transform = ROTATE
input = file
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
allow_imperfect_jacobians = true
[]
[]
[]
[Variables]
[rho]
family = MONOMIAL
order = CONSTANT
fv = true
[../]
[rho_u]
family = MONOMIAL
order = CONSTANT
fv = true
initial_condition = 1e-15
outputs = none
[]
[rho_v]
family = MONOMIAL
order = CONSTANT
fv = true
initial_condition = 1e-15
outputs = none
[]
[rho_E]
family = MONOMIAL
order = CONSTANT
fv = true
[]
[]
[ICs]
[rho_ic]
type = FunctionIC
variable = rho
function = 'if (abs(x) < ${radius} & abs(y) < ${radius}, ${rho_inside}, ${rho_outside})'
[]
[rho_E_ic]
type = FunctionIC
variable = rho_E
function = 'if (abs(x) < ${radius} & abs(y) < ${radius}, ${fparse E_inside * rho_inside}, ${fparse E_outside * rho_outside})'
[]
[]
[FVKernels]
# Mass conservation
[mass_time]
type = FVTimeKernel
variable = rho
[]
[mass_advection]
type = CNSFVMassHLLC
variable = rho
fp = fp
[]
# Momentum x conservation
[momentum_x_time]
type = FVTimeKernel
variable = rho_u
[]
[momentum_x_advection]
type = CNSFVMomentumHLLC
variable = rho_u
momentum_component = x
fp = fp
[]
# Momentum y conservation
[momentum_y_time]
type = FVTimeKernel
variable = rho_v
[]
[./momentum_y_advection]
type = CNSFVMomentumHLLC
variable = rho_v
momentum_component = y
[]
# Fluid energy conservation
[./fluid_energy_time]
type = FVTimeKernel
variable = rho_E
[]
[./fluid_energy_advection]
type = CNSFVFluidEnergyHLLC
variable = rho_E
fp = fp
[]
[]
[FVBCs]
## outflow implicit conditions
[mass_outflow]
type = CNSFVHLLCMassImplicitBC
variable = rho
fp = fp
boundary = 'left right top bottom'
[]
[./momentum_x_outflow]
type = CNSFVHLLCMomentumImplicitBC
variable = rho_u
momentum_component = x
fp = fp
boundary = 'left right top bottom'
[]
[momentum_y_outflow]
type = CNSFVHLLCMomentumImplicitBC
variable = rho_v
momentum_component = y
fp = fp
boundary = 'left right top bottom'
[]
[fluid_energy_outflow]
type = CNSFVHLLCFluidEnergyImplicitBC
variable = rho_E
fp = fp
boundary = 'left right top bottom'
[]
[]
[AuxVariables]
[Ma]
family = MONOMIAL
order = CONSTANT
[]
[p]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[Ma_aux]
type = NSMachAux
variable = Ma
fluid_properties = fp
use_material_properties = true
[]
[p_aux]
type = ADMaterialRealAux
variable = p
property = pressure
[]
[]
[Materials]
[var_mat]
type = ConservedVarValuesMaterial
rho = rho
rhou = rho_u
rhov = rho_v
rho_et = rho_E
[]
[sound_speed]
type = SoundspeedMat
fp = fp
[]
[]
[Postprocessors]
[cfl_dt]
type = ADCFLTimeStepSize
c_names = 'sound_speed'
vel_names = 'speed'
CFL = 0.5
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
[]
[]
[Executioner]
type = Transient
end_time = 0.2
[TimeIntegrator]
type = ExplicitSSPRungeKutta
order = 2
[]
l_tol = 1e-8
[TimeStepper]
type = PostprocessorDT
postprocessor = cfl_dt
[]
[]
[Outputs]
exodus = true
[]
(test/tests/userobjects/shape_element_user_object/simple_shape_element_uo_test.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 2
ny = 2
nz = 2
parallel_type = replicated
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = (x-0.5)^2
[../]
[../]
[]
[Kernels]
[./diff_u]
type = Diffusion
variable = u
[../]
[./time_u]
type = TimeDerivative
variable = u
[../]
[./shape_u]
type = SimpleTestShapeElementKernel
user_object = example_uo
variable = u
[../]
[]
[UserObjects]
[./example_uo]
type = SimpleTestShapeElementUserObject
u = u
# as this userobject computes quantities for both the residual AND the jacobian
# it needs to have these execute_on flags set.
execute_on = 'linear nonlinear'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
petsc_options = '-snes_test_display'
petsc_options_iname = '-snes_type'
petsc_options_value = 'test'
dt = 0.1
num_steps = 2
[]
[Outputs]
exodus = true
perf_graph = true
[]
(modules/richards/test/tests/dirac/bh_lumped_07.i)
[Mesh]
type = FileMesh
file = bh07_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1000 10000'
x = '100 1000'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[BCs]
[./fix_outer]
type = DirichletBC
boundary = perimeter
variable = pressure
value = 1E7
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsLumpedMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh07.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
re_constant = 0.1594
character = 2
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
execute_on = 'initial timestep_end'
[../]
[./fluid_mass]
type = RichardsMass
variable = pressure
execute_on = 'initial timestep_end'
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-11 0 0 0 1E-11 0 0 0 1E-11'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 1000
solve_type = NEWTON
[./TimeStepper]
# get only marginally better results for smaller time steps
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh_lumped_07
execute_on = 'initial timestep_end final'
interval = 10000
exodus = true
[]
(test/tests/materials/derivative_material_interface/construction_order.i)
#
# Test the the getDefaultMaterialProperty in DerivativeMaterialInterface.
# This test should only pass, if the construction order of the Materials
# using this interface does not influence the outcome.
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 5
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 0.1
elem_type = QUAD4
[]
[GlobalParams]
derivative_order = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[]
[Kernels]
[./dummy1]
type = Diffusion
variable = c
[../]
[./dummy2]
type = TimeDerivative
variable = c
[../]
[]
[Materials]
# derivatives used both before and after being declared
[./sum_a_1]
type = DerivativeSumMaterial
f_name = Fa1
sum_materials = 'Fa'
args = 'c'
outputs = exodus
[../]
[./free_energy_a]
type = DerivativeParsedMaterial
f_name = Fa
args = 'c'
function = 'c^4'
[../]
[./sum_a_2]
type = DerivativeSumMaterial
f_name = Fa2
sum_materials = 'Fa'
args = 'c'
outputs = exodus
[../]
# derivatives declared after being used
[./sum_b_1]
type = DerivativeSumMaterial
f_name = Fb1
sum_materials = 'Fb'
args = 'c'
outputs = exodus
[../]
[./free_energy_b]
type = DerivativeParsedMaterial
f_name = Fb
args = 'c'
function = 'c^4'
[../]
# derivatives declared before being used
[./free_energy_c]
type = DerivativeParsedMaterial
f_name = Fc
args = 'c'
function = 'c^4'
[../]
[./sum_c_2]
type = DerivativeSumMaterial
f_name = Fc2
sum_materials = 'Fc'
args = 'c'
outputs = exodus
[../]
# non-existing derivatives
[./free_energy_d]
type = ParsedMaterial
f_name = Fd
args = 'c'
function = 'c^4'
[../]
[./sum_d_1]
type = DerivativeSumMaterial
f_name = Fd1
sum_materials = 'Fd'
args = 'c'
outputs = exodus
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = 'NEWTON'
num_steps = 1
dt = 1e-5
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(test/tests/bcs/misc_bcs/weak_gradient_bc_test.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
nz = 0
zmin = 0
zmax = 0
elem_type = QUAD4
[]
[Functions]
[./initial_value]
type = ParsedFunction
value = 'x'
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_value
[../]
[../]
[]
[Kernels]
active = 'diff ie'
[./diff]
type = Diffusion
variable = u
[../]
[./ie]
type = TimeDerivative
variable = u
[../]
[]
[BCs]
active = 'left right top bottom'
[./left]
type = SinDirichletBC
variable = u
boundary = 3
initial = 0.0
final = 1.0
duration = 10.0
[../]
[./right]
type = SinDirichletBC
variable = u
boundary = 1
initial = 1.0
final = 0.0
duration = 10.0
[../]
# Explicit Natural Boundary Conditions
[./top]
type = WeakGradientBC
variable = u
boundary = 2
[../]
[./bottom]
type = WeakGradientBC
variable = u
boundary = 0
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
num_steps = 10
dt = 1.0
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/capillary_pressure/vangenuchten1.i)
# Test van Genuchten relative permeability curve by varying saturation over the mesh
# van Genuchten exponent m = 0.5 for both phases
# No residual saturation in either phase
[Mesh]
type = GeneratedMesh
dim = 1
nx = 500
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[p0aux]
family = MONOMIAL
order = CONSTANT
[]
[p1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[p0]
type = PorousFlowPropertyAux
property = pressure
phase = 0
variable = p0aux
[]
[p1]
type = PorousFlowPropertyAux
property = pressure
phase = 1
variable = p1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
alpha = 1e-5
m = 0.5
sat_lr = 0.1
log_extension = false
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityVG
phase = 0
m = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux p0aux p1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 500
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-6
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(modules/porous_flow/test/tests/hysteresis/hys_pc_01.i)
# Capillary-pressure calculation. Primary drying curve with low_extension_type = none
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 1
nx = 100
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = ''
[]
[]
[Variables]
[sat]
[]
[]
[ICs]
[sat]
type = FunctionIC
variable = sat
function = 'x'
[]
[]
[BCs]
[sat]
type = FunctionDirichletBC
variable = sat
function = 'x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = sat
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
[]
[pc_calculator]
type = PorousFlowHystereticInfo
alpha_d = 10.0
alpha_w = 10.0
n_d = 1.5
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 12.0
low_extension_type = none
sat_var = sat
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[pc]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[pc]
type = PorousFlowPropertyAux
variable = pc
property = hysteretic_info
[]
[]
[VectorPostprocessors]
[pc]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 10
sort_by = x
variable = 'sat pc'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(test/tests/functions/image_function/image_3d_subset.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 20
ny = 20
nz = 6
zmax = 0.3
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0 5'
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(test/tests/controls/control_piecewise/controlled_piecewise.i)
[Mesh]
[./generated]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 1
nx = 10
[../]
[]
[Problem]
kernel_coverage_check = false
[]
[Variables]
[./u]
initial_condition = 0.1
[../]
[]
[AuxVariables]
[./v]
[../]
[./x]
[../]
[]
[ICs]
[./x_ic]
type = FunctionIC
variable = x
function = 'x'
[../]
[]
[AuxKernels]
[./v_aux]
type = FunctionAux
variable = v
function = func
[../]
[]
[Controls]
[./func_control]
type = RealFunctionControl
parameter = '*/*/scale_factor'
function = '2'
execute_on = 'initial'
[../]
[]
[Materials]
[./mat]
type = PiecewiseLinearInterpolationMaterial
property = matprop
variable = x
x = '0 1'
y = '0 10'
outputs = all
[../]
[]
[Functions]
[./func]
type = PiecewiseLinear
x = '0 1'
y = '0 10'
axis = x
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(test/tests/kernels/conservative_advection/none_in_all_out.i)
# Using ConservativeAdvection with full upwinding
# This demonstrates BCs that introduce no mass into
# the domain but allow it to exit freely.
[Mesh]
type = GeneratedMesh
dim = 1
xmin = 0
xmax = 10
nx = 100
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./u]
type = FunctionIC
variable = u
function = 'if(x<5,x,10-x)'
[../]
[]
[Kernels]
[./dot]
type = MassLumpedTimeDerivative
variable = u
[../]
[./advection]
type = ConservativeAdvection
variable = u
upwinding_type = full
velocity = '1 0 0'
[../]
[]
[BCs]
[./allow_mass_out]
type = OutflowBC
boundary = right
variable = u
velocity = '1 0 0'
[../]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 10
l_tol = 1E-14
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/newton_cooling/nc02.i)
# Newton cooling from a bar. 1-phase steady
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1000
ny = 1
xmin = 0
xmax = 100
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pressure'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.8
alpha = 1e-5
[]
[]
[Variables]
[pressure]
[]
[]
[ICs]
[pressure]
type = FunctionIC
variable = pressure
function = '(2-x/100)*1E6'
[]
[]
[Kernels]
[flux]
type = PorousFlowAdvectiveFlux
fluid_component = 0
gravity = '0 0 0'
variable = pressure
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1e6
density0 = 1000
thermal_expansion = 0
viscosity = 1e-3
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-15 0 0 0 1E-15 0 0 0 1E-15'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey # irrelevant in this fully-saturated situation
n = 2
phase = 0
[]
[]
[BCs]
[left]
type = DirichletBC
variable = pressure
boundary = left
value = 2E6
[]
[newton]
type = PorousFlowPiecewiseLinearSink
variable = pressure
boundary = right
pt_vals = '0 100000 200000 300000 400000 500000 600000 700000 800000 900000 1000000 1100000 1200000 1300000 1400000 1500000 1600000 1700000 1800000 1900000 2000000'
multipliers = '0. 5.6677197748570516e-6 0.000011931518841831313 0.00001885408740732065 0.000026504708864284114 0.000034959953203725676 0.000044304443352900224 0.00005463170211001232 0.00006604508815181467 0.00007865883048198513 0.00009259917167338928 0.00010800563134618119 0.00012503240252705603 0.00014384989486488752 0.00016464644014777016 0.00018763017719085535 0.0002130311349595711 0.00024110353477682344 0.00027212833465544285 0.00030641604122040985 0.00034430981736352295'
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 1
[]
[]
[VectorPostprocessors]
[porepressure]
type = LineValueSampler
variable = pressure
start_point = '0 0.5 0'
end_point = '100 0.5 0'
sort_by = x
num_points = 20
execute_on = timestep_end
[]
[]
[Preconditioning]
active = 'andy'
[andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap -snes_atol -snes_rtol '
petsc_options_value = 'gmres asm lu 100 NONZERO 2 1E-12 1E-15'
[]
[]
[Executioner]
type = Steady
[]
[Outputs]
file_base = nc02
execute_on = timestep_end
exodus = false
[along_line]
type = CSV
execute_vector_postprocessors_on = timestep_end
[]
[]
(modules/richards/test/tests/dirac/bh27.i)
#2-phase version of bh07 (go to steadystate with borehole)
[Mesh]
type = FileMesh
file = bh07_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 1E-5'
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1000 10000'
x = '100 1000'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.6
al = 1E-5
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.6
al = 1E-5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGnone
[../]
[./SUPGgas]
type = RichardsSUPGnone
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = 1E7
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = 1E7
[../]
[]
[BCs]
[./fix_outer_w]
type = DirichletBC
boundary = perimeter
variable = pwater
value = 1E7
[../]
[./fix_outer_g]
type = DirichletBC
boundary = perimeter
variable = pgas
value = 1E7
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFullyUpwindFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFullyUpwindFlux
variable = pgas
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh07.bh
SumQuantityUO = borehole_total_outflow_mass
fully_upwind = true
variable = pwater
unit_weight = '0 0 0'
re_constant = 0.1594
character = 2 # this is to make the length 1m borehole fill the entire 2m height
[../]
[./bh_gas_dummy]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh07.bh
SumQuantityUO = borehole_total_outflow_mass
fully_upwind = true
variable = pgas
unit_weight = '0 0 0'
re_constant = 0.1594
character = 2 # this is to make the length 1m borehole fill the entire 2m height
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
execute_on = 'initial timestep_end'
[../]
[./water_mass]
type = RichardsMass
variable = pwater
execute_on = 'initial timestep_end'
[../]
[./gas_mass]
type = RichardsMass
variable = pgas
execute_on = 'initial timestep_end'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
mat_porosity = 0.1
mat_permeability = '1E-11 0 0 0 1E-11 0 0 0 1E-11'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason -ksp_diagonal_scale -ksp_diagonal_scale_fix -ksp_gmres_modifiedgramschmidt'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap -snes_atol -snes_rtol -snes_max_it -ksp_rtol -ksp_atol'
petsc_options_value = 'gmres asm lu NONZERO 2 1E-10 1E-10 20 1E-10 1E-100'
[../]
[]
[Executioner]
type = Transient
end_time = 1000
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh27
execute_on = 'initial timestep_end final'
interval = 1000000
exodus = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_2D.i)
# Using flux-limited TVD advection ala Kuzmin and Turek, employing PorousFlow Kernels and UserObjects, with superbee flux-limiter
# 3D version
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
xmin = 0
xmax = 1
ny = 4
ymin = 0
ymax = 0.5
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowFluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = advective_flux_calculator_0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowFluxLimitedTVDAdvection
variable = porepressure
advective_flux_calculator = advective_flux_calculator_1
[]
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[advective_flux_calculator_0]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 0
[]
[advective_flux_calculator_1]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0.5 0'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/phase_field/test/tests/functions/fourier_noise.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[./c]
[../]
[]
[Functions]
[./fn]
type = FourierNoise
lambda = 0.2
[../]
[]
[ICs]
[./c]
type = FunctionIC
variable = c
function = fn
[../]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/relperm/unity.i)
# Test perfectly mobile relative permeability curve by varying saturation over the mesh
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[kr1]
type = PorousFlowRelativePermeabilityConst
phase = 1
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-8
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(modules/combined/examples/phase_field-mechanics/interface_stress.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 50
ny = 50
nz = 50
xmax = 10
ymax = 10
zmax = 10
xmin = -10
ymin = -10
zmin = -10
[]
[GlobalParams]
displacements = 'disp_x disp_y disp_z'
[]
[Functions]
[./sphere]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2); R:=(4.0-r)/2.0; if(R>1,1,if(R<0,0,3*R^2-2*R^3))'
[../]
[]
[AuxVariables]
[./eta]
[./InitialCondition]
type = FunctionIC
function = sphere
[../]
[../]
[]
[Modules/TensorMechanics/Master]
[./all]
add_variables = true
generate_output = 'hydrostatic_stress stress_xx'
[../]
[]
[Materials]
[./ym]
type = DerivativeParsedMaterial
f_name = ym
function = (1-eta)*7+0.5
args = eta
[../]
[./elasticity]
type = ComputeVariableIsotropicElasticityTensor
poissons_ratio = 0.45
youngs_modulus = ym
args = eta
[../]
[./stress]
type = ComputeLinearElasticStress
[../]
[./interface]
type = ComputeInterfaceStress
v = eta
stress = 1.0
[../]
[]
[VectorPostprocessors]
[./line]
type = SphericalAverage
variable = 'hydrostatic_stress'
radius = 10
bin_number = 40
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
csv = true
[]
(modules/level_set/test/tests/kernels/olsson_reinitialization/olsson_1d.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 8
ny = 8
uniform_refine = 2
[]
[Variables]
[./phi]
[../]
[]
[AuxVariables]
[./phi_0]
family = MONOMIAL
order = FIRST
[../]
[./phi_exact]
[../]
[]
[AuxKernels]
[./phi_exact]
type = FunctionAux
function = phi_exact
variable = phi_exact
[../]
[]
[Functions]
[./phi_initial]
type = ParsedFunction
value = '1-x'
[../]
[./phi_exact]
type = ParsedFunction
vars = epsilon
vals = 0.05
value = '1 / (1+exp((x-0.5)/epsilon))'
[../]
[]
[ICs]
[./phi_ic]
type = FunctionIC
function = phi_initial
variable = phi
[../]
[./phi_0_ic]
type = FunctionIC
function = phi_initial
variable = phi_0
[../]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./reinit]
type = LevelSetOlssonReinitialization
variable = phi
phi_0 = phi_0
epsilon = 0.05
[../]
[]
[UserObjects]
[./arnold]
type = LevelSetOlssonTerminator
tol = 0.1
[../]
[]
[Postprocessors]
[./error]
type = ElementL2Error
variable = phi
function = phi_exact
execute_on = 'initial timestep_end'
[../]
[./ndofs]
type = NumDOFs
[../]
[]
[VectorPostprocessors]
[./line]
type = LineValueSampler
start_point = '0 0.5 0'
end_point = '1 0.5 0'
variable = phi
num_points = 100
sort_by = x
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
l_max_its = 100
nl_max_its = 100
solve_type = PJFNK
num_steps = 10
start_time = 0
nl_abs_tol = 1e-13
scheme = implicit-euler
dt = 0.05
petsc_options_iname = '-pc_type -pc_sub_type -ksp_gmres_restart'
petsc_options_value = 'hypre boomeramg 300'
[]
[Outputs]
exodus = true
[./out]
type = CSV
time_data = true
file_base = output/olsson_1d_out
[../]
[]
(modules/level_set/examples/vortex/vortex_reinit.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmax = 1
ymax = 1
nx = 16
ny = 16
uniform_refine = 2
elem_type = QUAD9
second_order = true
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[AuxKernels]
[./vec]
type = VectorFunctionAux
variable = velocity
function = velocity_func
execute_on = 'INITIAL TIMESTEP_END'
[../]
[]
[Variables]
[phi]
family = LAGRANGE
[]
[]
[Functions]
[phi_exact]
type = LevelSetOlssonBubble
epsilon = 0.03
center = '0.5 0.75 0'
radius = 0.15
[]
[./velocity_func]
type = LevelSetOlssonVortex
reverse_time = 2
[../]
[]
[ICs]
[phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = phi
[]
[advection]
type = LevelSetAdvection
velocity = velocity
variable = phi
[]
[advection_supg]
type = LevelSetAdvectionSUPG
velocity = velocity
variable = phi
[]
[time_supg]
type = LevelSetTimeDerivativeSUPG
velocity = velocity
variable = phi
[]
[]
[Postprocessors]
[area]
type = LevelSetVolume
threshold = 0.5
variable = phi
location = outside
execute_on = 'initial timestep_end'
[]
[cfl]
type = LevelSetCFLCondition
velocity = velocity
execute_on = 'initial timestep_end'
[]
[]
[Problem]
type = LevelSetProblem
[]
[Preconditioning/smp]
type = SMP
full = true
[]
[Executioner]
type = Transient
solve_type = NEWTON
start_time = 0
end_time = 2
scheme = crank-nicolson
[TimeStepper]
type = PostprocessorDT
postprocessor = cfl
scale = 0.8
[]
[]
[MultiApps]
[reinit]
type = LevelSetReinitializationMultiApp
input_files = 'vortex_reinit_sub.i'
execute_on = TIMESTEP_END
[]
[]
[Transfers]
[to_sub]
type = MultiAppCopyTransfer
source_variable = phi
variable = phi
direction = to_multiapp
multi_app = reinit
execute_on = 'timestep_end'
[]
[to_sub_init]
type = MultiAppCopyTransfer
source_variable = phi
variable = phi_0
direction = to_multiapp
multi_app = reinit
execute_on = 'timestep_end'
[]
[from_sub]
type = MultiAppCopyTransfer
source_variable = phi
variable = phi
direction = from_multiapp
multi_app = reinit
execute_on = 'timestep_end'
[]
[]
[Outputs]
csv = true
exodus = true
[]
(modules/richards/test/tests/mass/m_fu_01.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 2
xmin = -1
xmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.5
al = 1 # same deal with PETScs constant state
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.2
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = x
[../]
[]
[Postprocessors]
[./total_mass]
type = RichardsMass
variable = pressure
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFullyUpwindFlux
variable = pressure
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1 1 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-10
end_time = 1E-10
[]
[Outputs]
execute_on = 'timestep_end'
file_base = m_fu_01
csv = true
[]
(modules/richards/test/tests/dirac/bh10.i)
# fully-saturated
# production
# with anisotropic and nonsymmetric (!) permeability
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh02.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = 1
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '2E-12 0 0 1E-12 3E-12 0 0 0 1E-12'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 0.5
dt = 1E-2
solve_type = NEWTON
[]
[Outputs]
file_base = bh10
exodus = false
csv = true
execute_on = timestep_end
[]
(test/tests/fvkernels/mms/advective-outflow/limited-advection.i)
a=1.1
[Mesh]
[./gen_mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0.1
xmax = 1.1
nx = 2
[../]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = exact
[]
[]
[Variables]
[./u]
two_term_boundary_expansion = true
type = MooseVariableFVReal
[../]
[]
[FVKernels]
[./advection_u]
type = FVLimitedAdvection
variable = u
velocity = '${a} 0 0'
boundaries_to_force = 'right'
limiter = 'vanLeer'
[../]
[body_u]
type = FVBodyForce
variable = u
function = 'forcing'
[]
[]
[FVBCs]
[left_u]
type = FVFunctionNeumannBC
boundary = 'left'
function = 'advection'
variable = u
[]
[]
[Functions]
[exact]
type = ParsedFunction
value = 'cos(x)'
[]
[advection]
type = ParsedFunction
value = '${a} * cos(x)'
[]
[forcing]
type = ParsedFunction
value = '-${a} * sin(x)'
[]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
nl_abs_tol = 1e-13
[]
[Outputs]
exodus = true
csv = true
[]
[Postprocessors]
[./L2u]
type = ElementL2Error
variable = u
function = exact
outputs = 'console csv'
execute_on = 'timestep_end'
[../]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(modules/phase_field/test/tests/boundary_intersecting_features/boundary_intersecting_features.i)
[Mesh]
# ImageMesh ignores nx, xmin, xmax (and similarly for y and z) and
# tries to read them from the image file...
type = ImageMesh
dim = 2
# Be sure to choose a corresponding image name below!
# file = image001_cropped3_closing_298.png # full size, 157 Mb Exodus file!
# file = eighth_image001_cropped3_closing_298.png # 1/8
file = sixteenth_image001_cropped3_closing_298.png # 1/16
# Uncomment to maintain 1:1 ratio between number of pixels and mesh size.
# scale_to_one = false
# Uncomment to set cells_per_pixel to something other than the default value of 1.0.
# Must be <= 1.
# cells_per_pixel = .75
# To crop an image to e.g. 1/8th size, install ImageMagick and run:
# convert image001_cropped3_closing_298.png -crop 230x198+100+100 eighth_image001_cropped3_closing_298.png
# Note: Do not use 'sips' on OSX to crop! It actually interpolates
# the colors in the image instead of just cropping.
[]
[Variables]
[./u]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxVariables]
[./grain_auxvar]
order = CONSTANT
family = MONOMIAL
[../]
[./centroids]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./nodal_flood_aux]
variable = grain_auxvar
type = FeatureFloodCountAux
flood_counter = flood_count_pp
execute_on = 'initial timestep_end'
[../]
[./centroids]
type = FeatureFloodCountAux
variable = centroids
flood_counter = flood_count_pp
field_display = CENTROID
execute_on = 'initial timestep_end'
[../]
[]
[Functions]
[./tif]
# ImageFunction gets its file range parameters from ImageMesh,
# when it is present. This prevents duplicating information in
# input files.
type = ImageFunction
# In these sample images the features we want to analyze are RED (or close to pure red). The
# background is BLUE so we can easily distinguish between the two by selecting only the red channel.
component = 0
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
function = tif
variable = u
[../]
[]
[Postprocessors]
[./flood_count_pp]
type = FeatureFloodCount
variable = u
threshold = 1.0
compute_var_to_feature_map = true
execute_on = 'initial timestep_end'
[../]
[]
[VectorPostprocessors]
[./grain_volumes]
type = FeatureVolumeVectorPostprocessor
flood_counter = flood_count_pp
execute_on = 'initial timestep_end'
[../]
[]
[Problem]
type = FEProblem
solve = false
[../]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
csv = true
[]
(modules/richards/test/tests/dirac/bh_fu_07.i)
#fullyupwind
[Mesh]
type = FileMesh
file = bh07_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1000 10000'
x = '100 1000'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[BCs]
[./fix_outer]
type = DirichletBC
boundary = perimeter
variable = pressure
value = 1E7
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFullyUpwindFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh07.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
re_constant = 0.1594
character = 2
fully_upwind = true
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
execute_on = 'initial timestep_end'
[../]
[./fluid_mass]
type = RichardsMass
variable = pressure
execute_on = 'initial timestep_end'
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-11 0 0 0 1E-11 0 0 0 1E-11'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 1000
solve_type = NEWTON
[./TimeStepper]
# get only marginally better results for smaller time steps
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh_fu_07
execute_on = 'initial timestep_end final'
interval = 10000
exodus = true
[]
(modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/varying-eps-basic-kt-primitive.i)
[GlobalParams]
fp = fp
limiter = 'central_difference'
two_term_boundary_expansion = true
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = .1
xmax = .6
nx = 2
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
[]
[]
[]
[Problem]
fv_bcs_integrity_check = false
[]
[Variables]
[pressure]
type = MooseVariableFVReal
[]
[sup_vel_x]
type = MooseVariableFVReal
[]
[T_fluid]
type = MooseVariableFVReal
[]
[]
[ICs]
[pressure]
type = FunctionIC
variable = pressure
function = 'exact_p'
[]
[sup_vel_x]
type = FunctionIC
variable = sup_vel_x
function = 'exact_sup_vel_x'
[]
[T_fluid]
type = FunctionIC
variable = T_fluid
function = 'exact_T'
[]
[]
[FVKernels]
[mass_advection]
type = PCNSFVKT
variable = pressure
eqn = "mass"
[]
[mass_fn]
type = FVBodyForce
variable = pressure
function = 'forcing_rho'
[]
[momentum_x_advection]
type = PCNSFVKT
variable = sup_vel_x
momentum_component = x
eqn = "momentum"
[]
[eps_grad]
type = PNSFVPGradEpsilon
variable = sup_vel_x
momentum_component = 'x'
epsilon_function = 'eps'
[]
[momentum_fn]
type = FVBodyForce
variable = sup_vel_x
function = 'forcing_rho_ud'
[]
[fluid_energy_advection]
type = PCNSFVKT
variable = T_fluid
eqn = "energy"
[]
[energy_fn]
type = FVBodyForce
variable = T_fluid
function = 'forcing_rho_et'
[]
[]
[FVBCs]
[mass_left]
variable = pressure
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'mass'
[]
[momentum_left]
variable = sup_vel_x
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'momentum'
momentum_component = 'x'
[]
[energy_left]
variable = T_fluid
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'energy'
[]
[mass_right]
variable = pressure
type = PCNSFVStrongBC
boundary = right
eqn = 'mass'
pressure = 'exact_p'
[]
[momentum_right]
variable = sup_vel_x
type = PCNSFVStrongBC
boundary = right
eqn = 'momentum'
momentum_component = 'x'
pressure = 'exact_p'
[]
[energy_right]
variable = T_fluid
type = PCNSFVStrongBC
boundary = right
eqn = 'energy'
pressure = 'exact_p'
[]
# help gradient reconstruction
[pressure_right]
type = FVFunctionDirichletBC
variable = pressure
function = exact_p
boundary = 'right'
[]
[sup_vel_x_left]
type = FVFunctionDirichletBC
variable = sup_vel_x
function = exact_sup_vel_x
boundary = 'left'
[]
[T_fluid_left]
type = FVFunctionDirichletBC
variable = T_fluid
function = exact_T
boundary = 'left'
[]
[]
[Materials]
[var_mat]
type = PorousPrimitiveVarMaterial
pressure = pressure
superficial_vel_x = sup_vel_x
T_fluid = T_fluid
porosity = porosity
[]
[porosity]
type = GenericFunctionMaterial
prop_names = 'porosity'
prop_values = 'eps'
[]
[]
[Functions]
[exact_rho]
type = ParsedFunction
value = '3.48788261470924*cos(x)'
[]
[forcing_rho]
type = ParsedFunction
value = '-3.83667087618017*sin(1.1*x)*cos(1.3*x) - 4.53424739912202*sin(1.3*x)*cos(1.1*x)'
[]
[exact_rho_ud]
type = ParsedFunction
value = '3.48788261470924*cos(1.1*x)*cos(1.3*x)'
[]
[forcing_rho_ud]
type = ParsedFunction
value = '(-(10.6975765229419*cos(1.5*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.5*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 16.0463647844128*sin(1.5*x)/cos(x))*cos(x))*cos(1.3*x) + 3.48788261470924*sin(x)*cos(1.1*x)^2*cos(1.3*x)/cos(x)^2 - 7.67334175236034*sin(1.1*x)*cos(1.1*x)*cos(1.3*x)/cos(x) - 4.53424739912202*sin(1.3*x)*cos(1.1*x)^2/cos(x)'
[]
[exact_rho_et]
type = ParsedFunction
value = '26.7439413073546*cos(1.5*x)'
[]
[forcing_rho_et]
type = ParsedFunction
value = '1.0*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(x)*cos(1.1*x)*cos(1.3*x)/cos(x)^2 - 1.1*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(1.1*x)*cos(1.3*x)/cos(x) - 1.3*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(1.3*x)*cos(1.1*x)/cos(x) + 1.0*(-(10.6975765229419*cos(1.5*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.5*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 16.0463647844128*sin(1.5*x)/cos(x))*cos(x) - 40.1159119610319*sin(1.5*x))*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[exact_T]
type = ParsedFunction
value = '0.0106975765229418*cos(1.5*x)/cos(x) - 0.000697576522941848*cos(1.1*x)^2/cos(x)^2'
[]
[exact_eps_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)*cos(1.3*x)'
[]
[exact_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
[]
[exact_sup_vel_x]
type = ParsedFunction
value = '1.0*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[eps]
type = ParsedFunction
value = 'cos(1.3*x)'
[]
[exact_superficial_velocity]
type = ParsedVectorFunction
value_x = '1.0*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[]
[Executioner]
solve_type = NEWTON
type = Transient
num_steps = 1
dtmin = 1
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
nl_max_its = 50
line_search = bt
nl_rel_tol = 1e-12
nl_abs_tol = 1e-12
[]
[Outputs]
exodus = true
csv = true
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2pressure]
type = ElementL2Error
variable = pressure
function = exact_p
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2sup_vel_x]
variable = sup_vel_x
function = exact_sup_vel_x
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2T_fluid]
variable = T_fluid
function = exact_T
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(test/tests/time_integrators/actually_explicit_euler_verification/ee-2d-linear.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 10
ny = 10
elem_type = QUAD4
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = (x+y)
[../]
[./exact_fn]
type = ParsedFunction
value = t*(x+y)
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
preset = false
boundary = '0 1 2 3'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
start_time = 0.0
num_steps = 20
dt = 0.00005
l_tol = 1e-12
[./TimeIntegrator]
type = ActuallyExplicitEuler
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/richards/test/tests/dirac/bh04.i)
# unsaturated
# production
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1E-2 1E-1 1 1E1 1E2 1E3'
x = '0 1E-1 1 1E1 1E2 1E3'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = -1E6
point_file = bh02.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = 1
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 0
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 1E3
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh04
exodus = false
csv = true
execute_on = timestep_end
[]
(modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/porous-hllc.i)
eps=0.9
[GlobalParams]
fp = fp
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = .1
xmax = 1.1
nx = 2
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
[]
[]
[]
[Variables]
[rho]
type = MooseVariableFVReal
[]
[rho_ud]
type = MooseVariableFVReal
[]
[rho_et]
type = MooseVariableFVReal
[]
[]
[ICs]
[rho]
type = FunctionIC
variable = rho
function = 'exact_rho'
[]
[rho_ud]
type = FunctionIC
variable = rho_ud
function = 'exact_rho_ud'
[]
[rho_et]
type = FunctionIC
variable = rho_et
function = 'exact_rho_et'
[]
[]
[FVKernels]
[mass_advection]
type = PCNSFVMassHLLC
variable = rho
fp = fp
[]
[mass_fn]
type = FVBodyForce
variable = rho
function = 'forcing_rho'
[]
[momentum_x_advection]
type = PCNSFVMomentumHLLC
variable = rho_ud
momentum_component = x
fp = fp
[]
[momentum_fn]
type = FVBodyForce
variable = rho_ud
function = 'forcing_rho_ud'
[]
[fluid_energy_advection]
type = PCNSFVFluidEnergyHLLC
variable = rho_et
fp = fp
[]
[energy_fn]
type = FVBodyForce
variable = rho_et
function = 'forcing_rho_et'
[]
[]
[FVBCs]
[mass_in]
variable = rho
type = PCNSFVHLLCSpecifiedMassFluxAndTemperatureMassBC
boundary = left
temperature = 'exact_T'
superficial_rhou = 'exact_rho_ud'
[]
[momentum_in]
variable = rho_ud
type = PCNSFVHLLCSpecifiedMassFluxAndTemperatureMomentumBC
boundary = left
temperature = 'exact_T'
superficial_rhou = 'exact_rho_ud'
momentum_component = 'x'
[]
[energy_in]
variable = rho_et
type = PCNSFVHLLCSpecifiedMassFluxAndTemperatureFluidEnergyBC
boundary = left
temperature = 'exact_T'
superficial_rhou = 'exact_rho_ud'
[]
[mass_out]
variable = rho
type = PCNSFVHLLCSpecifiedPressureMassBC
boundary = right
pressure = 'exact_p'
[]
[momentum_out]
variable = rho_ud
type = PCNSFVHLLCSpecifiedPressureMomentumBC
boundary = right
pressure = 'exact_p'
momentum_component = 'x'
[]
[energy_out]
variable = rho_et
type = PCNSFVHLLCSpecifiedPressureFluidEnergyBC
boundary = right
pressure = 'exact_p'
[]
[]
[Materials]
[var_mat]
type = PorousConservedVarMaterial
rho = rho
superficial_rhou = rho_ud
rho_et = rho_et
porosity = porosity
[]
[porosity]
type = GenericConstantMaterial
prop_names = 'porosity'
prop_values = '${eps}'
[]
[]
[Functions]
[exact_rho]
type = ParsedFunction
value = '3.48788261470924*cos(x)'
[]
[forcing_rho]
type = ParsedFunction
value = '-3.83667087618017*eps*sin(1.1*x)'
vars = 'eps'
vals = '${eps}'
[]
[exact_rho_ud]
type = ParsedFunction
value = '3.48788261470924*eps*cos(1.1*x)'
vars = 'eps'
vals = '${eps}'
[]
[forcing_rho_ud]
type = ParsedFunction
value = 'eps*(-(10.6975765229419*cos(1.2*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.2*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 12.8370918275302*sin(1.2*x)/cos(x))*cos(x)) + 3.48788261470924*eps*sin(x)*cos(1.1*x)^2/cos(x)^2 - 7.67334175236034*eps*sin(1.1*x)*cos(1.1*x)/cos(x)'
vars = 'eps'
vals = '${eps}'
[]
[exact_rho_et]
type = ParsedFunction
value = '26.7439413073546*cos(1.2*x)'
[]
[forcing_rho_et]
type = ParsedFunction
value = '1.0*eps*(3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.2*x))*sin(x)*cos(1.1*x)/cos(x)^2 - 1.1*eps*(3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.2*x))*sin(1.1*x)/cos(x) + 1.0*eps*(-(10.6975765229419*cos(1.2*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.2*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 12.8370918275302*sin(1.2*x)/cos(x))*cos(x) - 32.0927295688256*sin(1.2*x))*cos(1.1*x)/cos(x)'
vars = 'eps'
vals = '${eps}'
[]
[exact_T]
type = ParsedFunction
value = '0.0106975765229418*cos(1.2*x)/cos(x) - 0.000697576522941848*cos(1.1*x)^2/cos(x)^2'
vars = 'eps'
vals = '${eps}'
[]
[exact_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
vars = 'eps'
vals = '${eps}'
[]
[]
[Executioner]
solve_type = NEWTON
type = Steady
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
nl_max_its = 50
line_search = none
nl_rel_tol = 1e-12
nl_abs_tol = 1e-12
[]
[Outputs]
exodus = true
csv = true
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho]
type = ElementL2Error
variable = rho
function = exact_rho
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho_ud]
variable = rho_ud
function = exact_rho_ud
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho_et]
variable = rho_et
function = exact_rho_et
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(test/tests/time_steppers/timesequence_stepper/timesequence_failed_solve.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
# This timestepper does not use dt to set the timestep, it uses the time_sequence.
# dt = 250
dtmin=250
end_time = 3000.0
[./TimeStepper]
type = TimeSequenceStepperFailTest
time_sequence = '0 1000.0 2000.0'
[../]
nl_rel_tol=1.e-10
[]
[Outputs]
file_base = timesequence_failed_solve
exodus = true
[]
(modules/porous_flow/test/tests/mass_conservation/mass10.i)
# Checking that the mass postprocessor throws the correct error when kernel_variable_numer is illegal
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[sat]
[]
[]
[AuxVariables]
[massfrac_ph0_sp0]
initial_condition = 1
[]
[massfrac_ph1_sp0]
initial_condition = 0
[]
[]
[ICs]
[pinit]
type = ConstantIC
value = 1
variable = pp
[]
[satinit]
type = FunctionIC
function = 1-x
variable = sat
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = sat
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp sat'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 0.1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = pp
phase1_saturation = sat
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac_ph0_sp0 massfrac_ph1_sp0'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[comp1_total_mass]
type = PorousFlowFluidMass
fluid_component = 1
kernel_variable_number = 2
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
(modules/richards/test/tests/buckley_leverett/bl21.i)
# two-phase version
# sharp front version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1E-3 1E-2 3E-2 4E-2 0.5 0.5 1'
x = '0 1E-2 1E-1 1 5 40 41'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 3E-5
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 3E-5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[./bounds_dummy]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[./richardsppenalty]
type = RichardsPPenalty
variable = pgas
a = 1E-18
lower_var = pwater
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[Bounds]
[./pwater_upper_bounds]
type = ConstantBoundsAux
variable = bounds_dummy
bounded_variable = pwater
bound_type = upper
bound_value = 1E7
[../]
[./pwater_lower_bounds]
type = ConstantBoundsAux
variable = bounds_dummy
bounded_variable = pwater
bound_type = lower
bound_value = -110000
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_water
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_gas
[../]
[]
[BCs]
[./left_w]
type = DirichletBC
variable = pwater
boundary = left
value = 1E6
[../]
[./left_g]
type = DirichletBC
variable = pgas
boundary = left
value = 1E6+1000
[../]
[./right_w]
type = DirichletBC
variable = pwater
boundary = right
value = -100000
[../]
[./right_g]
type = DirichletBC
variable = pgas
boundary = right
value = 0+1000
[../]
[]
[Functions]
[./initial_water]
type = ParsedFunction
value = 1000000*(1-min(x/5,1))-100000*(max(x-5,0)/max(abs(x-5),1E-10))
[../]
[./initial_gas]
type = ParsedFunction
value = max(1000000*(1-x/5),0)+1000
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 1E-6'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'standard'
[./bounded]
# must use --use-petsc-dm command line argument
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type -ksp_rtol -ksp_atol'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 50 vinewtonssls 1E-20 1E-20'
[../]
[./standard]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_rtol -ksp_atol'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 20 1E-20 1E-20'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 50
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bl21
interval = 10000
exodus = true
[]
(modules/porous_flow/test/tests/relperm/vangenuchten2.i)
# Test van Genuchten relative permeability curve by varying saturation over the mesh
# van Genuchten exponent m = 0.4 for both phases
# Phase 0 residual saturation s0r = 0.1
# Phase 1 residual saturation s1r = 0.2
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityVG
phase = 0
m = 0.4
s_res = 0.1
sum_s_res = 0.3
[]
[kr1]
type = PorousFlowRelativePermeabilityVG
phase = 1
m = 0.4
s_res = 0.2
sum_s_res = 0.3
wetting = false
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-7
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(test/tests/restart/restart_subapp_not_master/two_step_solve_master.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
active = ''
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Postprocessors]
[./average]
type = ElementAverageValue
variable = u
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
start_time = 2.0
end_time = 4.0
dt = 1.0
[]
[MultiApps]
[./full_solve]
type = FullSolveMultiApp
execute_on = initial
positions = '0 0 0'
# input file will come from cli-args
[../]
[]
[Transfers]
[./transfer_u]
type = MultiAppProjectionTransfer
multi_app = full_solve
direction = FROM_MULTIAPP
variable = u
source_variable = u
[../]
[]
[Outputs]
#file_base will come from cli-args
exodus = true
[]
(test/tests/interfacekernels/ik_displaced/different_jxw_displaced.i)
[Mesh]
displacements = 'disp_x disp_y'
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 2
xmax = 2
ny = 1
ymax = 1
[]
[./subdomain1]
input = gen
type = SubdomainBoundingBoxGenerator
bottom_left = '0 0 0'
top_right = '1 1 0'
block_id = 1
[../]
[./break_boundary]
input = subdomain1
type = BreakMeshByBlockGenerator
[../]
[]
[AuxVariables]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[Variables]
[./u]
[../]
[]
[Kernels]
[./diff_u]
type = Diffusion
variable = u
use_displaced_mesh = true
[../]
[]
[InterfaceKernels]
[./interface]
type = InterfacialSource
variable = u
neighbor_var = u
boundary = interface
use_displaced_mesh = true
[../]
[]
[BCs]
[./u]
type = DirichletBC
variable = u
boundary = 'left right'
value = 0
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
[]
[Outputs]
exodus = true
[]
[Functions]
[./disp_x_func]
type = ParsedFunction
value = 1
[../]
[./disp_y_func]
type = ParsedFunction
value = y
[../]
[]
[ICs]
[./disp_x_ic]
block = 0
function = disp_x_func
variable = disp_x
type = FunctionIC
[../]
[./disp_y_ic]
block = 0
function = disp_y_func
variable = disp_y
type = FunctionIC
[../]
[]
(modules/porous_flow/test/tests/capillary_pressure/vangenuchten2.i)
# Test van Genuchten relative permeability curve by varying saturation over the mesh
# van Genuchten exponent m = 0.5 for both phases
# No residual saturation in either phase
[Mesh]
type = GeneratedMesh
dim = 1
nx = 500
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[p0aux]
family = MONOMIAL
order = CONSTANT
[]
[p1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[p0]
type = PorousFlowPropertyAux
property = pressure
phase = 0
variable = p0aux
[]
[p1]
type = PorousFlowPropertyAux
property = pressure
phase = 1
variable = p1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
alpha = 1e-5
m = 0.5
sat_lr = 0.1
log_extension = true
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityVG
phase = 0
m = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux p0aux p1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 500
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-6
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(test/tests/time_integrators/actually_explicit_euler_verification/ee-2d-quadratic.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 10
ny = 10
elem_type = QUAD9
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = ((x*x)+(y*y))-(4*t)
[../]
[./exact_fn]
type = ParsedFunction
value = t*((x*x)+(y*y))
[../]
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
preset = false
boundary = '0 1 2 3'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
l_tol = 1e-13
start_time = 0.0
num_steps = 20
dt = 0.00005
[./TimeIntegrator]
type = ActuallyExplicitEuler
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(test/tests/time_integrators/actually_explicit_euler_verification/ee-1d-quadratic.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 20
elem_type = EDGE3
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x*x-2*t
[../]
[./exact_fn]
type = ParsedFunction
value = t*x*x
[../]
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
preset = false
boundary = '0 1'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
l_tol = 1e-12
start_time = 0.0
num_steps = 20
dt = 0.00005
[./TimeIntegrator]
type = ActuallyExplicitEuler
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/porous_flow/test/tests/heat_advection/heat_advection_1d_fully_saturated.i)
# 1phase, heat advecting with a moving fluid
# Using the FullySaturated Kernel
[Mesh]
type = GeneratedMesh
dim = 1
nx = 50
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[temp]
initial_condition = 200
[]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = '1-x'
[]
[]
[BCs]
[pp0]
type = DirichletBC
variable = pp
boundary = left
value = 1
[]
[pp1]
type = DirichletBC
variable = pp
boundary = right
value = 0
[]
[spit_heat]
type = DirichletBC
variable = temp
boundary = left
value = 300
[]
[suck_heat]
type = DirichletBC
variable = temp
boundary = right
value = 200
[]
[]
[Kernels]
[mass_dot]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[advection]
type = PorousFlowFullySaturatedDarcyBase
variable = pp
[]
[energy_dot]
type = PorousFlowEnergyTimeDerivative
variable = temp
[]
[convection]
type = PorousFlowFullySaturatedHeatAdvection
variable = temp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 100
density0 = 1000
viscosity = 4.4
thermal_expansion = 0
cv = 2
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.2
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 1.0
density = 125
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 2 0 0 0 3'
[]
[massfrac]
type = PorousFlowMassFraction
[]
[PS]
type = PorousFlow1PhaseFullySaturated
porepressure = pp
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'gmres bjacobi 1E-15 1E-10 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 0.01
end_time = 0.6
[]
[VectorPostprocessors]
[T]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 51
sort_by = x
variable = temp
[]
[]
[Outputs]
file_base = heat_advection_1d_fully_saturated
[csv]
type = CSV
sync_times = '0.1 0.6'
sync_only = true
[]
[]
(modules/porous_flow/test/tests/mass_conservation/mass01.i)
# checking that the mass postprocessor correctly calculates the mass
# 1phase, 1component, constant porosity
[Mesh]
type = GeneratedMesh
dim = 1
nx = 3
xmin = -1
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[]
[ICs]
[pinit]
type = FunctionIC
function = x
variable = pp
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[total_mass]
type = PorousFlowFluidMass
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1 1 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = mass01
csv = true
[]
(modules/porous_flow/examples/coal_mining/coarse_with_fluid.i)
# Strata deformation and fluid flow aaround a coal mine - 3D model
#
# A "half model" is used. The mine is 400m deep and
# just the roof is studied (-400<=z<=0). The mining panel
# sits between 0<=x<=150, and 0<=y<=1000, so this simulates
# a coal panel that is 300m wide and 1000m long. The outer boundaries
# are 1km from the excavation boundaries.
#
# The excavation takes 0.5 years.
#
# The boundary conditions for this simulation are:
# - disp_x = 0 at x=0 and x=1150
# - disp_y = 0 at y=-1000 and y=1000
# - disp_z = 0 at z=-400, but there is a time-dependent
# Young modulus that simulates excavation
# - wc_x = 0 at y=-1000 and y=1000
# - wc_y = 0 at x=0 and x=1150
# - no flow at x=0, z=-400 and z=0
# - fixed porepressure at y=-1000, y=1000 and x=1150
# That is, rollers on the sides, free at top,
# and prescribed at bottom in the unexcavated portion.
#
# A single-phase unsaturated fluid is used.
#
# The small strain formulation is used.
#
# All stresses are measured in MPa, and time units are measured in years.
#
# The initial porepressure is hydrostatic with P=0 at z=0, so
# Porepressure ~ - 0.01*z MPa, where the fluid has density 1E3 kg/m^3 and
# gravity = = 10 m.s^-2 = 1E-5 MPa m^2/kg.
# To be more accurate, i use
# Porepressure = -bulk * log(1 + g*rho0*z/bulk)
# where bulk=2E3 MPa and rho0=1Ee kg/m^3.
# The initial stress is consistent with the weight force from undrained
# density 2500 kg/m^3, and fluid porepressure, and a Biot coefficient of 0.7, ie,
# stress_zz^effective = 0.025*z + 0.7 * initial_porepressure
# The maximum and minimum principal horizontal effective stresses are
# assumed to be equal to 0.8*stress_zz.
#
# Material properties:
# Young's modulus = 8 GPa
# Poisson's ratio = 0.25
# Cosserat layer thickness = 1 m
# Cosserat-joint normal stiffness = large
# Cosserat-joint shear stiffness = 1 GPa
# MC cohesion = 2 MPa
# MC friction angle = 35 deg
# MC dilation angle = 8 deg
# MC tensile strength = 1 MPa
# MC compressive strength = 100 MPa
# WeakPlane cohesion = 0.1 MPa
# WeakPlane friction angle = 30 deg
# WeakPlane dilation angle = 10 deg
# WeakPlane tensile strength = 0.1 MPa
# WeakPlane compressive strength = 100 MPa softening to 1 MPa at strain = 1
# Fluid density at zero porepressure = 1E3 kg/m^3
# Fluid bulk modulus = 2E3 MPa
# Fluid viscosity = 1.1E-3 Pa.s = 1.1E-9 MPa.s = 3.5E-17 MPa.year
#
[GlobalParams]
perform_finite_strain_rotations = false
displacements = 'disp_x disp_y disp_z'
Cosserat_rotations = 'wc_x wc_y wc_z'
PorousFlowDictator = dictator
biot_coefficient = 0.7
[]
[Mesh]
[file]
type = FileMeshGenerator
file = mesh/coarse.e
[]
[xmin]
type = SideSetsAroundSubdomainGenerator
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
new_boundary = xmin
normal = '-1 0 0'
input = file
[]
[xmax]
type = SideSetsAroundSubdomainGenerator
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
new_boundary = xmax
normal = '1 0 0'
input = xmin
[]
[ymin]
type = SideSetsAroundSubdomainGenerator
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
new_boundary = ymin
normal = '0 -1 0'
input = xmax
[]
[ymax]
type = SideSetsAroundSubdomainGenerator
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
new_boundary = ymax
normal = '0 1 0'
input = ymin
[]
[zmax]
type = SideSetsAroundSubdomainGenerator
block = 16
new_boundary = zmax
normal = '0 0 1'
input = ymax
[]
[zmin]
type = SideSetsAroundSubdomainGenerator
block = 2
new_boundary = zmin
normal = '0 0 -1'
input = zmax
[]
[excav]
type = SubdomainBoundingBoxGenerator
input = zmin
block_id = 1
bottom_left = '0 0 -400'
top_right = '150 1000 -397'
[]
[roof]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 3
paired_block = 1
input = excav
new_boundary = roof
[]
[]
[Variables]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[wc_x]
[]
[wc_y]
[]
[porepressure]
scaling = 1E-5
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = ini_pp
[]
[]
[Kernels]
[cx_elastic]
type = CosseratStressDivergenceTensors
use_displaced_mesh = false
variable = disp_x
component = 0
[]
[cy_elastic]
type = CosseratStressDivergenceTensors
use_displaced_mesh = false
variable = disp_y
component = 1
[]
[cz_elastic]
type = CosseratStressDivergenceTensors
use_displaced_mesh = false
variable = disp_z
component = 2
[]
[x_couple]
type = StressDivergenceTensors
use_displaced_mesh = false
variable = wc_x
displacements = 'wc_x wc_y wc_z'
component = 0
base_name = couple
[]
[y_couple]
type = StressDivergenceTensors
use_displaced_mesh = false
variable = wc_y
displacements = 'wc_x wc_y wc_z'
component = 1
base_name = couple
[]
[x_moment]
type = MomentBalancing
use_displaced_mesh = false
variable = wc_x
component = 0
[]
[y_moment]
type = MomentBalancing
use_displaced_mesh = false
variable = wc_y
component = 1
[]
[gravity]
type = Gravity
use_displaced_mesh = false
variable = disp_z
value = -10E-6 # remember this is in MPa
[]
[poro_x]
type = PorousFlowEffectiveStressCoupling
use_displaced_mesh = false
variable = disp_x
component = 0
[]
[poro_y]
type = PorousFlowEffectiveStressCoupling
use_displaced_mesh = false
variable = disp_y
component = 1
[]
[poro_z]
type = PorousFlowEffectiveStressCoupling
use_displaced_mesh = false
component = 2
variable = disp_z
[]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = porepressure
[]
[flux]
type = PorousFlowAdvectiveFlux
use_displaced_mesh = false
variable = porepressure
gravity = '0 0 -10E-6'
fluid_component = 0
[]
[poro_vol_exp]
type = PorousFlowMassVolumetricExpansion
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
variable = porepressure
fluid_component = 0
[]
[]
[AuxVariables]
[saturation]
order = CONSTANT
family = MONOMIAL
[]
[darcy_x]
order = CONSTANT
family = MONOMIAL
[]
[darcy_y]
order = CONSTANT
family = MONOMIAL
[]
[darcy_z]
order = CONSTANT
family = MONOMIAL
[]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[wc_z]
[]
[stress_xx]
order = CONSTANT
family = MONOMIAL
[]
[stress_xy]
order = CONSTANT
family = MONOMIAL
[]
[stress_xz]
order = CONSTANT
family = MONOMIAL
[]
[stress_yx]
order = CONSTANT
family = MONOMIAL
[]
[stress_yy]
order = CONSTANT
family = MONOMIAL
[]
[stress_yz]
order = CONSTANT
family = MONOMIAL
[]
[stress_zx]
order = CONSTANT
family = MONOMIAL
[]
[stress_zy]
order = CONSTANT
family = MONOMIAL
[]
[stress_zz]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_xx]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_xy]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_xz]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_yx]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_yy]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_yz]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_zx]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_zy]
order = CONSTANT
family = MONOMIAL
[]
[total_strain_zz]
order = CONSTANT
family = MONOMIAL
[]
[perm_xx]
order = CONSTANT
family = MONOMIAL
[]
[perm_yy]
order = CONSTANT
family = MONOMIAL
[]
[perm_zz]
order = CONSTANT
family = MONOMIAL
[]
[mc_shear]
order = CONSTANT
family = MONOMIAL
[]
[mc_tensile]
order = CONSTANT
family = MONOMIAL
[]
[wp_shear]
order = CONSTANT
family = MONOMIAL
[]
[wp_tensile]
order = CONSTANT
family = MONOMIAL
[]
[wp_shear_f]
order = CONSTANT
family = MONOMIAL
[]
[wp_tensile_f]
order = CONSTANT
family = MONOMIAL
[]
[mc_shear_f]
order = CONSTANT
family = MONOMIAL
[]
[mc_tensile_f]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[saturation_water]
type = PorousFlowPropertyAux
variable = saturation
property = saturation
phase = 0
execute_on = timestep_end
[]
[darcy_x]
type = PorousFlowDarcyVelocityComponent
variable = darcy_x
gravity = '0 0 -10E-6'
component = x
[]
[darcy_y]
type = PorousFlowDarcyVelocityComponent
variable = darcy_y
gravity = '0 0 -10E-6'
component = y
[]
[darcy_z]
type = PorousFlowDarcyVelocityComponent
variable = darcy_z
gravity = '0 0 -10E-6'
component = z
[]
[porosity]
type = PorousFlowPropertyAux
property = porosity
variable = porosity
execute_on = timestep_end
[]
[stress_xx]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_xx
index_i = 0
index_j = 0
execute_on = timestep_end
[]
[stress_xy]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_xy
index_i = 0
index_j = 1
execute_on = timestep_end
[]
[stress_xz]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_xz
index_i = 0
index_j = 2
execute_on = timestep_end
[]
[stress_yx]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_yx
index_i = 1
index_j = 0
execute_on = timestep_end
[]
[stress_yy]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_yy
index_i = 1
index_j = 1
execute_on = timestep_end
[]
[stress_yz]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_yz
index_i = 1
index_j = 2
execute_on = timestep_end
[]
[stress_zx]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_zx
index_i = 2
index_j = 0
execute_on = timestep_end
[]
[stress_zy]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_zy
index_i = 2
index_j = 1
execute_on = timestep_end
[]
[stress_zz]
type = RankTwoAux
rank_two_tensor = stress
variable = stress_zz
index_i = 2
index_j = 2
execute_on = timestep_end
[]
[total_strain_xx]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_xx
index_i = 0
index_j = 0
execute_on = timestep_end
[]
[total_strain_xy]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_xy
index_i = 0
index_j = 1
execute_on = timestep_end
[]
[total_strain_xz]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_xz
index_i = 0
index_j = 2
execute_on = timestep_end
[]
[total_strain_yx]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_yx
index_i = 1
index_j = 0
execute_on = timestep_end
[]
[total_strain_yy]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_yy
index_i = 1
index_j = 1
execute_on = timestep_end
[]
[total_strain_yz]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_yz
index_i = 1
index_j = 2
execute_on = timestep_end
[]
[total_strain_zx]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_zx
index_i = 2
index_j = 0
execute_on = timestep_end
[]
[total_strain_zy]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_zy
index_i = 2
index_j = 1
execute_on = timestep_end
[]
[total_strain_zz]
type = RankTwoAux
rank_two_tensor = total_strain
variable = total_strain_zz
index_i = 2
index_j = 2
execute_on = timestep_end
[]
[perm_xx]
type = PorousFlowPropertyAux
property = permeability
variable = perm_xx
row = 0
column = 0
execute_on = timestep_end
[]
[perm_yy]
type = PorousFlowPropertyAux
property = permeability
variable = perm_yy
row = 1
column = 1
execute_on = timestep_end
[]
[perm_zz]
type = PorousFlowPropertyAux
property = permeability
variable = perm_zz
row = 2
column = 2
execute_on = timestep_end
[]
[mc_shear]
type = MaterialStdVectorAux
index = 0
property = mc_plastic_internal_parameter
variable = mc_shear
execute_on = timestep_end
[]
[mc_tensile]
type = MaterialStdVectorAux
index = 1
property = mc_plastic_internal_parameter
variable = mc_tensile
execute_on = timestep_end
[]
[wp_shear]
type = MaterialStdVectorAux
index = 0
property = wp_plastic_internal_parameter
variable = wp_shear
execute_on = timestep_end
[]
[wp_tensile]
type = MaterialStdVectorAux
index = 1
property = wp_plastic_internal_parameter
variable = wp_tensile
execute_on = timestep_end
[]
[mc_shear_f]
type = MaterialStdVectorAux
index = 6
property = mc_plastic_yield_function
variable = mc_shear_f
execute_on = timestep_end
[]
[mc_tensile_f]
type = MaterialStdVectorAux
index = 0
property = mc_plastic_yield_function
variable = mc_tensile_f
execute_on = timestep_end
[]
[wp_shear_f]
type = MaterialStdVectorAux
index = 0
property = wp_plastic_yield_function
variable = wp_shear_f
execute_on = timestep_end
[]
[wp_tensile_f]
type = MaterialStdVectorAux
index = 1
property = wp_plastic_yield_function
variable = wp_tensile_f
execute_on = timestep_end
[]
[]
[BCs]
[no_x]
type = DirichletBC
variable = disp_x
boundary = 'xmin xmax'
value = 0.0
[]
[no_y]
type = DirichletBC
variable = disp_y
boundary = 'ymin ymax'
value = 0.0
[]
[no_z]
type = DirichletBC
variable = disp_z
boundary = zmin
value = 0.0
[]
[no_wc_x]
type = DirichletBC
variable = wc_x
boundary = 'ymin ymax'
value = 0.0
[]
[no_wc_y]
type = DirichletBC
variable = wc_y
boundary = 'xmin xmax'
value = 0.0
[]
[fix_porepressure]
type = FunctionDirichletBC
variable = porepressure
boundary = 'ymin ymax xmax'
function = ini_pp
[]
[roof_porepressure]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
pt_vals = '-1E3 1E3'
multipliers = '-1 1'
fluid_phase = 0
flux_function = roof_conductance
boundary = roof
[]
[roof_bcs]
type = StickyBC
variable = disp_z
min_value = -3.0
boundary = roof
[]
[]
[Functions]
[ini_pp]
type = ParsedFunction
vars = 'bulk p0 g rho0'
vals = '2E3 0.0 1E-5 1E3'
value = '-bulk*log(exp(-p0/bulk)+g*rho0*z/bulk)'
[]
[ini_xx]
type = ParsedFunction
vars = 'bulk p0 g rho0 biot'
vals = '2E3 0.0 1E-5 1E3 0.7'
value = '0.8*(2500*10E-6*z+biot*(-bulk*log(exp(-p0/bulk)+g*rho0*z/bulk)))'
[]
[ini_zz]
type = ParsedFunction
vars = 'bulk p0 g rho0 biot'
vals = '2E3 0.0 1E-5 1E3 0.7'
value = '2500*10E-6*z+biot*(-bulk*log(exp(-p0/bulk)+g*rho0*z/bulk))'
[]
[excav_sideways]
type = ParsedFunction
vars = 'end_t ymin ymax minval maxval slope'
vals = '0.5 0 1000.0 1E-9 1 60'
# excavation face at ymin+(ymax-ymin)*min(t/end_t,1)
# slope is the distance over which the modulus reduces from maxval to minval
value = 'if(y<ymin+(ymax-ymin)*min(t/end_t,1),minval,if(y<ymin+(ymax-ymin)*min(t/end_t,1)+slope,minval+(maxval-minval)*(y-(ymin+(ymax-ymin)*min(t/end_t,1)))/slope,maxval))'
[]
[density_sideways]
type = ParsedFunction
vars = 'end_t ymin ymax minval maxval'
vals = '0.5 0 1000.0 0 2500'
value = 'if(y<ymin+(ymax-ymin)*min(t/end_t,1),minval,maxval)'
[]
[roof_conductance]
type = ParsedFunction
vars = 'end_t ymin ymax maxval minval'
vals = '0.5 0 1000.0 1E7 0'
value = 'if(y<ymin+(ymax-ymin)*min(t/end_t,1),maxval,minval)'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure disp_x disp_y disp_z'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1 # MPa^-1
[]
[mc_coh_strong_harden]
type = TensorMechanicsHardeningExponential
value_0 = 1.99 # MPa
value_residual = 2.01 # MPa
rate = 1.0
[]
[mc_fric]
type = TensorMechanicsHardeningConstant
value = 0.61 # 35deg
[]
[mc_dil]
type = TensorMechanicsHardeningConstant
value = 0.15 # 8deg
[]
[mc_tensile_str_strong_harden]
type = TensorMechanicsHardeningExponential
value_0 = 1.0 # MPa
value_residual = 1.0 # MPa
rate = 1.0
[]
[mc_compressive_str]
type = TensorMechanicsHardeningCubic
value_0 = 100 # Large!
value_residual = 100
internal_limit = 0.1
[]
[wp_coh_harden]
type = TensorMechanicsHardeningCubic
value_0 = 0.05
value_residual = 0.05
internal_limit = 10
[]
[wp_tan_fric]
type = TensorMechanicsHardeningConstant
value = 0.26 # 15deg
[]
[wp_tan_dil]
type = TensorMechanicsHardeningConstant
value = 0.18 # 10deg
[]
[wp_tensile_str_harden]
type = TensorMechanicsHardeningCubic
value_0 = 0.05
value_residual = 0.05
internal_limit = 10
[]
[wp_compressive_str_soften]
type = TensorMechanicsHardeningCubic
value_0 = 100
value_residual = 1
internal_limit = 1.0
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E3
density0 = 1000
thermal_expansion = 0
viscosity = 3.5E-17
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[eff_fluid_pressure]
type = PorousFlowEffectiveFluidPressure
[]
[vol_strain]
type = PorousFlowVolumetricStrain
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity_bulk]
type = PorousFlowPorosity
fluid = true
mechanical = true
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
ensure_positive = true
porosity_zero = 0.02
solid_bulk = 5.3333E3
[]
[porosity_excav]
type = PorousFlowPorosityConst
block = 1
porosity = 1.0
[]
[permeability_bulk]
type = PorousFlowPermeabilityKozenyCarman
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
poroperm_function = kozeny_carman_phi0
k0 = 1E-15
phi0 = 0.02
n = 2
m = 2
[]
[permeability_excav]
type = PorousFlowPermeabilityConst
block = 1
permeability = '0 0 0 0 0 0 0 0 0'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 4
s_res = 0.4
sum_s_res = 0.4
phase = 0
[]
[elasticity_tensor_0]
type = ComputeLayeredCosseratElasticityTensor
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
young = 8E3 # MPa
poisson = 0.25
layer_thickness = 1.0
joint_normal_stiffness = 1E9 # huge
joint_shear_stiffness = 1E3 # MPa
[]
[elasticity_tensor_1]
type = ComputeLayeredCosseratElasticityTensor
block = 1
young = 8E3 # MPa
poisson = 0.25
layer_thickness = 1.0
joint_normal_stiffness = 1E9 # huge
joint_shear_stiffness = 1E3 # MPa
elasticity_tensor_prefactor = excav_sideways
[]
[strain]
type = ComputeCosseratIncrementalSmallStrain
eigenstrain_names = ini_stress
[]
[ini_stress]
type = ComputeEigenstrainFromInitialStress
eigenstrain_name = ini_stress
initial_stress = 'ini_xx 0 0 0 ini_xx 0 0 0 ini_zz'
[]
[stress_0]
type = ComputeMultipleInelasticCosseratStress
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
inelastic_models = 'mc wp'
cycle_models = true
relative_tolerance = 2.0
absolute_tolerance = 1E6
max_iterations = 1
tangent_operator = nonlinear
perform_finite_strain_rotations = false
[]
[stress_1]
type = ComputeMultipleInelasticCosseratStress
block = 1
inelastic_models = ''
relative_tolerance = 2.0
absolute_tolerance = 1E6
max_iterations = 1
tangent_operator = nonlinear
perform_finite_strain_rotations = false
[]
[mc]
type = CappedMohrCoulombCosseratStressUpdate
warn_about_precision_loss = false
host_youngs_modulus = 8E3
host_poissons_ratio = 0.25
base_name = mc
tensile_strength = mc_tensile_str_strong_harden
compressive_strength = mc_compressive_str
cohesion = mc_coh_strong_harden
friction_angle = mc_fric
dilation_angle = mc_dil
max_NR_iterations = 100000
smoothing_tol = 0.1 # MPa # Must be linked to cohesion
yield_function_tol = 1E-9 # MPa. this is essentially the lowest possible without lots of precision loss
perfect_guess = true
min_step_size = 1.0
[]
[wp]
type = CappedWeakPlaneCosseratStressUpdate
warn_about_precision_loss = false
base_name = wp
cohesion = wp_coh_harden
tan_friction_angle = wp_tan_fric
tan_dilation_angle = wp_tan_dil
tensile_strength = wp_tensile_str_harden
compressive_strength = wp_compressive_str_soften
max_NR_iterations = 10000
tip_smoother = 0.05
smoothing_tol = 0.05 # MPa # Note, this must be tied to cohesion, otherwise get no possible return at cone apex
yield_function_tol = 1E-11 # MPa. this is essentially the lowest possible without lots of precision loss
perfect_guess = true
min_step_size = 1.0E-3
[]
[undrained_density_0]
type = GenericConstantMaterial
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
prop_names = density
prop_values = 2500
[]
[undrained_density_1]
type = GenericFunctionMaterial
block = 1
prop_names = density
prop_values = density_sideways
[]
[]
[Preconditioning]
[SMP]
type = SMP
full = true
[]
[]
[Postprocessors]
[min_roof_disp]
type = NodalExtremeValue
boundary = roof
value_type = min
variable = disp_z
[]
[min_roof_pp]
type = NodalExtremeValue
boundary = roof
value_type = min
variable = porepressure
[]
[min_surface_disp]
type = NodalExtremeValue
boundary = zmax
value_type = min
variable = disp_z
[]
[min_surface_pp]
type = NodalExtremeValue
boundary = zmax
value_type = min
variable = porepressure
[]
[max_perm_zz]
type = ElementExtremeValue
block = '2 3 4 5 6 7 8 9 10 11 12 13 14 15 16'
variable = perm_zz
[]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
petsc_options = '-snes_converged_reason'
# best overall
# petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
# petsc_options_value = ' lu mumps'
# best if you do not have mumps:
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu superlu_dist'
# best if you do not have mumps or superlu_dist:
#petsc_options_iname = '-pc_type -pc_asm_overlap -sub_pc_type -ksp_type -ksp_gmres_restart'
#petsc_options_value = ' asm 2 lu gmres 200'
# very basic:
#petsc_options_iname = '-pc_type -ksp_type -ksp_gmres_restart'
#petsc_options_value = ' bjacobi gmres 200'
line_search = bt
nl_abs_tol = 1e-3
nl_rel_tol = 1e-5
l_max_its = 200
nl_max_its = 30
start_time = 0.0
dt = 0.014706
end_time = 0.014706 #0.5
[]
[Outputs]
interval = 1
print_linear_residuals = true
exodus = true
csv = true
console = true
[]
(test/tests/transfers/multiapp_projection_transfer/high_order_sub.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 4
ny = 4
[]
[Functions]
[./test_function]
type = ParsedFunction
value = '2.5*x^2 + 0.75*y^2 + 0.15*x*y'
[../]
[]
[AuxVariables]
[./from_master]
family = monomial
order = first
[../]
[./test_var]
family = monomial
order = first
[./InitialCondition]
type = FunctionIC
function = test_function
[../]
[../]
[]
[Variables]
[./u]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(modules/combined/examples/periodic_strain/global_strain_pfm_3D.i)
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 3
nx = 20
ny = 20
nz = 20
xmin = -0.5
xmax = 0.5
ymin = -0.5
ymax = 0.5
zmin = -0.5
zmax = 0.5
[]
[./cnode]
input = gen
type = ExtraNodesetGenerator
coord = '0.0 0.0 0.0'
new_boundary = 100
[../]
[]
[Variables]
[./u_x]
[../]
[./u_y]
[../]
[./u_z]
[../]
[./global_strain]
order = SIXTH
family = SCALAR
[../]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'sin(2*x*pi)*sin(2*y*pi)*sin(2*z*pi)*0.05+0.6'
[../]
[../]
[./w]
[../]
[]
[AuxVariables]
[./local_energy]
order = CONSTANT
family = MONOMIAL
[../]
[./disp_x]
[../]
[./disp_y]
[../]
[./disp_z]
[../]
[./s00]
order = CONSTANT
family = MONOMIAL
[../]
[./s01]
order = CONSTANT
family = MONOMIAL
[../]
[./s10]
order = CONSTANT
family = MONOMIAL
[../]
[./s11]
order = CONSTANT
family = MONOMIAL
[../]
[./e00]
order = CONSTANT
family = MONOMIAL
[../]
[./e01]
order = CONSTANT
family = MONOMIAL
[../]
[./e10]
order = CONSTANT
family = MONOMIAL
[../]
[./e11]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./disp_x]
type = GlobalDisplacementAux
variable = disp_x
scalar_global_strain = global_strain
global_strain_uo = global_strain_uo
component = 0
[../]
[./disp_y]
type = GlobalDisplacementAux
variable = disp_y
scalar_global_strain = global_strain
global_strain_uo = global_strain_uo
component = 1
[../]
[./disp_z]
type = GlobalDisplacementAux
variable = disp_z
scalar_global_strain = global_strain
global_strain_uo = global_strain_uo
component = 2
[../]
[./local_free_energy]
type = TotalFreeEnergy
execute_on = 'initial LINEAR'
variable = local_energy
interfacial_vars = 'c'
kappa_names = 'kappa_c'
[../]
[./s00]
type = RankTwoAux
variable = s00
rank_two_tensor = stress
index_i = 0
index_j = 0
[../]
[./s01]
type = RankTwoAux
variable = s01
rank_two_tensor = stress
index_i = 0
index_j = 1
[../]
[./s10]
type = RankTwoAux
variable = s10
rank_two_tensor = stress
index_i = 1
index_j = 0
[../]
[./s11]
type = RankTwoAux
variable = s11
rank_two_tensor = stress
index_i = 1
index_j = 1
[../]
[./e00]
type = RankTwoAux
variable = e00
rank_two_tensor = total_strain
index_i = 0
index_j = 0
[../]
[./e01]
type = RankTwoAux
variable = e01
rank_two_tensor = total_strain
index_i = 0
index_j = 1
[../]
[./e10]
type = RankTwoAux
variable = e10
rank_two_tensor = total_strain
index_i = 1
index_j = 0
[../]
[./e11]
type = RankTwoAux
variable = e11
rank_two_tensor = total_strain
index_i = 1
index_j = 1
[../]
[]
[GlobalParams]
derivative_order = 2
enable_jit = true
displacements = 'u_x u_y u_z'
block = 0
[]
[Kernels]
[./TensorMechanics]
[../]
# Cahn-Hilliard kernels
[./c_dot]
type = CoupledTimeDerivative
variable = w
v = c
block = 0
[../]
[./c_res]
type = SplitCHParsed
variable = c
f_name = F
kappa_name = kappa_c
w = w
block = 0
[../]
[./w_res]
type = SplitCHWRes
variable = w
mob_name = M
block = 0
[../]
[]
[ScalarKernels]
[./global_strain]
type = GlobalStrain
variable = global_strain
global_strain_uo = global_strain_uo
[../]
[]
[BCs]
[./Periodic]
[./all]
auto_direction = 'x y z'
variable = 'c w u_x u_y u_z'
[../]
[../]
# fix center point location
[./centerfix_x]
type = DirichletBC
boundary = 100
variable = u_x
value = 0
[../]
[./centerfix_y]
type = DirichletBC
boundary = 100
variable = u_y
value = 0
[../]
[./centerfix_z]
type = DirichletBC
boundary = 100
variable = u_z
value = 0
[../]
[]
[Materials]
[./consts]
type = GenericConstantMaterial
prop_names = 'M kappa_c'
prop_values = '0.2 0.01 '
[../]
[./shear1]
type = GenericConstantRankTwoTensor
tensor_values = '0 0 0 0.5 0.5 0.5'
tensor_name = shear1
[../]
[./shear2]
type = GenericConstantRankTwoTensor
tensor_values = '0 0 0 -0.5 -0.5 -0.5'
tensor_name = shear2
[../]
[./expand3]
type = GenericConstantRankTwoTensor
tensor_values = '1 1 1 0 0 0'
tensor_name = expand3
[../]
[./weight1]
type = DerivativeParsedMaterial
function = '0.3*c^2'
f_name = weight1
args = c
[../]
[./weight2]
type = DerivativeParsedMaterial
function = '0.3*(1-c)^2'
f_name = weight2
args = c
[../]
[./weight3]
type = DerivativeParsedMaterial
function = '4*(0.5-c)^2'
f_name = weight3
args = c
[../]
[./elasticity_tensor]
type = ComputeElasticityTensor
C_ijkl = '1 1'
fill_method = symmetric_isotropic
[../]
[./strain]
type = ComputeSmallStrain
global_strain = global_strain
eigenstrain_names = eigenstrain
[../]
[./eigenstrain]
type = CompositeEigenstrain
tensors = 'shear1 shear2 expand3'
weights = 'weight1 weight2 weight3'
args = c
eigenstrain_name = eigenstrain
[../]
[./global_strain]
type = ComputeGlobalStrain
scalar_global_strain = global_strain
global_strain_uo = global_strain_uo
[../]
[./stress]
type = ComputeLinearElasticStress
[../]
# chemical free energies
[./chemical_free_energy]
type = DerivativeParsedMaterial
f_name = Fc
function = '4*c^2*(1-c)^2'
args = 'c'
outputs = exodus
output_properties = Fc
[../]
# elastic free energies
[./elastic_free_energy]
type = ElasticEnergyMaterial
f_name = Fe
args = 'c'
outputs = exodus
output_properties = Fe
[../]
# free energy (chemical + elastic)
[./free_energy]
type = DerivativeSumMaterial
block = 0
f_name = F
sum_materials = 'Fc Fe'
args = 'c'
[../]
[]
[UserObjects]
[./global_strain_uo]
type = GlobalStrainUserObject
execute_on = 'Initial Linear Nonlinear'
[../]
[]
[Postprocessors]
[./total_free_energy]
type = ElementIntegralVariablePostprocessor
execute_on = 'initial TIMESTEP_END'
variable = local_energy
[../]
[./total_solute]
type = ElementIntegralVariablePostprocessor
execute_on = 'initial TIMESTEP_END'
variable = c
[../]
[./min]
type = ElementExtremeValue
execute_on = 'initial TIMESTEP_END'
value_type = min
variable = c
[../]
[./max]
type = ElementExtremeValue
execute_on = 'initial TIMESTEP_END'
value_type = max
variable = c
[../]
[]
[Preconditioning]
[./SMP]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = 'PJFNK'
line_search = basic
petsc_options_iname = '-pc_type -ksp_gmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
l_max_its = 30
nl_max_its = 12
l_tol = 1.0e-4
nl_rel_tol = 1.0e-8
nl_abs_tol = 1.0e-10
start_time = 0.0
end_time = 2.0
[./TimeStepper]
type = IterationAdaptiveDT
dt = 0.01
growth_factor = 1.5
cutback_factor = 0.8
optimal_iterations = 9
iteration_window = 2
[../]
[]
[Outputs]
execute_on = 'timestep_end'
print_linear_residuals = false
exodus = true
[./table]
type = CSV
delimiter = ' '
[../]
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/jacobian_02.i)
# Checking the Jacobian of Flux-Limited TVD Advection, using flux_limiter_type = superbee
# Here we use snes_check_jacobian instead of snes_type=test. The former just checks the Jacobian for the
# random initial conditions, while the latter checks for u=1 and u=-1
#
# The Jacobian is correct for u=1 and u=-1, but the finite-difference scheme used by snes_type=test gives the
# wrong answer.
# For u=1, the Kuzmin-Turek scheme adds as much antidiffusion as possible, resulting in a central-difference
# version of advection (flux_limiter = 1). This is correct, and the Jacobian is calculated correctly.
# However, when computing the Jacobian using finite differences, u is increased or decreased at a node.
# This results in that node being at a maximum or minimum, which means no antidiffusion should be added
# (flux_limiter = 0). This corresponds to a full-upwind scheme. So the finite-difference computes the
# Jacobian in the full-upwind scenario, which is incorrect (the original residual = 0, after finite-differencing
# the residual comes from the full-upwind scenario).
[Mesh]
type = GeneratedMesh
dim = 3
nx = 2
xmin = 0
xmax = 1
ny = 2
ymin = -1
ymax = 2
bias_y = 1.5
nz = 2
zmin = 1
zmax = 2
bias_z = 0.8
[]
[Variables]
[u]
[]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x + 0.5 * y - 0.4 * z - 0.1 * sin(x) - 0.1 * cos(y) + 0.2 * exp(-z)'
[]
[]
[Kernels]
[flux]
type = FluxLimitedTVDAdvection
variable = u
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = u
velocity = '1 -2 1.5'
[]
[]
[Preconditioning]
active = smp
[smp]
type = SMP
full = true
petsc_options = '-snes_check_jacobian'
[]
[]
[Executioner]
type = Transient
solve_type = Linear # this is to force convergence even though the nonlinear residual is high: we just care about the Jacobian in this test
end_time = 1
num_steps = 1
dt = 1
[]
(modules/phase_field/examples/kim-kim-suzuki/kks_example_ternary.i)
#
# KKS ternary (3 chemical component) system example in the split form
# We track c1 and c2 only, since c1 + c2 + c3 = 1
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 150
ny = 15
nz = 0
xmin = -25
xmax = 25
ymin = -2.5
ymax = 2.5
zmin = 0
zmax = 0
elem_type = QUAD4
[]
[AuxVariables]
[./Fglobal]
order = CONSTANT
family = MONOMIAL
[../]
[]
[Variables]
# order parameter
[./eta]
order = FIRST
family = LAGRANGE
[../]
# solute 1 concentration
[./c1]
order = FIRST
family = LAGRANGE
[../]
# solute 2 concentration
[./c2]
order = FIRST
family = LAGRANGE
[../]
# chemical potential solute 1
[./w1]
order = FIRST
family = LAGRANGE
[../]
# chemical potential solute 2
[./w2]
order = FIRST
family = LAGRANGE
[../]
# Liquid phase solute 1 concentration
[./c1l]
order = FIRST
family = LAGRANGE
initial_condition = 0.1
[../]
# Liquid phase solute 2 concentration
[./c2l]
order = FIRST
family = LAGRANGE
initial_condition = 0.05
[../]
# Solid phase solute 1 concentration
[./c1s]
order = FIRST
family = LAGRANGE
initial_condition = 0.8
[../]
# Solid phase solute 2 concentration
[./c2s]
order = FIRST
family = LAGRANGE
initial_condition = 0.1
[../]
[]
[Functions]
[./ic_func_eta]
type = ParsedFunction
value = '0.5*(1.0-tanh((x)/sqrt(2.0)))'
[../]
[./ic_func_c1]
type = ParsedFunction
value = '0.8*(0.5*(1.0-tanh(x/sqrt(2.0))))^3*(6*(0.5*(1.0-tanh(x/sqrt(2.0))))^2-15*(0.5*(1.0-tanh(x/sqrt(2.0))))+10)+0.1*(1-(0.5*(1.0-tanh(x/sqrt(2.0))))^3*(6*(0.5*(1.0-tanh(x/sqrt(2.0))))^2-15*(0.5*(1.0-tanh(x/sqrt(2.0))))+10))'
[../]
[./ic_func_c2]
type = ParsedFunction
value = '0.1*(0.5*(1.0-tanh(x/sqrt(2.0))))^3*(6*(0.5*(1.0-tanh(x/sqrt(2.0))))^2-15*(0.5*(1.0-tanh(x/sqrt(2.0))))+10)+0.05*(1-(0.5*(1.0-tanh(x/sqrt(2.0))))^3*(6*(0.5*(1.0-tanh(x/sqrt(2.0))))^2-15*(0.5*(1.0-tanh(x/sqrt(2.0))))+10))'
[../]
[]
[ICs]
[./eta]
variable = eta
type = FunctionIC
function = ic_func_eta
[../]
[./c1]
variable = c1
type = FunctionIC
function = ic_func_c1
[../]
[./c2]
variable = c2
type = FunctionIC
function = ic_func_c2
[../]
[]
[Materials]
# Free energy of the liquid
[./fl]
type = DerivativeParsedMaterial
f_name = fl
args = 'c1l c2l'
function = '(0.1-c1l)^2+(0.05-c2l)^2'
[../]
# Free energy of the solid
[./fs]
type = DerivativeParsedMaterial
f_name = fs
args = 'c1s c2s'
function = '(0.8-c1s)^2+(0.1-c2s)^2'
[../]
# h(eta)
[./h_eta]
type = SwitchingFunctionMaterial
h_order = HIGH
eta = eta
[../]
# g(eta)
[./g_eta]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta
[../]
# constant properties
[./constants]
type = GenericConstantMaterial
prop_names = 'M L eps_sq'
prop_values = '0.7 0.7 1.0 '
[../]
[]
[Kernels]
# enforce c1 = (1-h(eta))*c1l + h(eta)*c1s
[./PhaseConc1]
type = KKSPhaseConcentration
ca = c1l
variable = c1s
c = c1
eta = eta
[../]
# enforce c2 = (1-h(eta))*c2l + h(eta)*c2s
[./PhaseConc2]
type = KKSPhaseConcentration
ca = c2l
variable = c2s
c = c2
eta = eta
[../]
# enforce pointwise equality of chemical potentials
[./ChemPotSolute1]
type = KKSPhaseChemicalPotential
variable = c1l
cb = c1s
fa_name = fl
fb_name = fs
args_a = 'c2l'
args_b = 'c2s'
[../]
[./ChemPotSolute2]
type = KKSPhaseChemicalPotential
variable = c2l
cb = c2s
fa_name = fl
fb_name = fs
args_a = 'c1l'
args_b = 'c1s'
[../]
#
# Cahn-Hilliard Equations
#
[./CHBulk1]
type = KKSSplitCHCRes
variable = c1
ca = c1l
fa_name = fl
w = w1
args_a = 'c2l'
[../]
[./CHBulk2]
type = KKSSplitCHCRes
variable = c2
ca = c2l
fa_name = fl
w = w2
args_a = 'c1l'
[../]
[./dc1dt]
type = CoupledTimeDerivative
variable = w1
v = c1
[../]
[./dc2dt]
type = CoupledTimeDerivative
variable = w2
v = c2
[../]
[./w1kernel]
type = SplitCHWRes
mob_name = M
variable = w1
[../]
[./w2kernel]
type = SplitCHWRes
mob_name = M
variable = w2
[../]
#
# Allen-Cahn Equation
#
[./ACBulkF]
type = KKSACBulkF
variable = eta
fa_name = fl
fb_name = fs
w = 1.0
args = 'c1l c1s c2l c2s'
[../]
[./ACBulkC1]
type = KKSACBulkC
variable = eta
ca = c1l
cb = c1s
fa_name = fl
args = 'c2l'
[../]
[./ACBulkC2]
type = KKSACBulkC
variable = eta
ca = c2l
cb = c2s
fa_name = fl
args = 'c1l'
[../]
[./ACInterface]
type = ACInterface
variable = eta
kappa_name = eps_sq
[../]
[./detadt]
type = TimeDerivative
variable = eta
[../]
[]
[AuxKernels]
[./GlobalFreeEnergy]
variable = Fglobal
type = KKSGlobalFreeEnergy
fa_name = fl
fb_name = fs
w = 1.0
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm ilu nonzero'
l_max_its = 100
nl_max_its = 100
num_steps = 50
dt = 0.1
[]
#
# Precondition using handcoded off-diagonal terms
#
[Preconditioning]
[./full]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(test/tests/bcs/sin_bc/sin_dirichlet_test.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
nz = 0
zmin = 0
zmax = 0
elem_type = QUAD4
[]
[Functions]
[./initial_value]
type = ParsedFunction
value = 'x'
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_value
[../]
[../]
[]
[Kernels]
active = 'diff ie'
[./diff]
type = Diffusion
variable = u
[../]
[./ie]
type = TimeDerivative
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = SinDirichletBC
variable = u
boundary = 3
initial = 0.0
final = 1.0
duration = 10.0
[../]
[./right]
type = SinDirichletBC
variable = u
boundary = 1
initial = 1.0
final = 0.0
duration = 10.0
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
num_steps = 10
dt = 1.0
[]
[Outputs]
exodus = true
[]
(test/tests/misc/check_error/function_file_test12.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_columns_more_data.csv
format = columns
xy_in_file_only = false
y_index_in_file = 3 #Will generate error because data does not contain 4 columns
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/phase_field/test/tests/grain_boundary_area/diagonal.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 100
ny = 100
xmin = 0
xmax = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
op_num = 2
var_name_base = gr
[]
[Variables]
[./gr0]
[./InitialCondition]
type = FunctionIC
function = 'd:=(x-y)*80;if(d<pi&d>-pi,sin(d/2)/2+0.5,if(d<0,0,1))'
[../]
[../]
[./gr1]
[./InitialCondition]
type = FunctionIC
function = 'd:=(x-y)*80;1-if(d<pi&d>-pi,sin(d/2)/2+0.5,if(d<0,0,1))'
[../]
[../]
[]
[Postprocessors]
[./area]
type = GrainBoundaryArea
grains_per_side = 2
[../]
[]
[Problem]
kernel_coverage_check = false
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(modules/porous_flow/examples/groundwater/ex02_steady_state.i)
# Steady-state groundwater model. See groundwater_models.md for a detailed description
[Mesh]
[basic_mesh]
# mesh create by external program: lies within -500<=x<=500 and -200<=y<=200, with varying z
type = FileMeshGenerator
file = ex02_mesh.e
[]
[name_blocks]
type = RenameBlockGenerator
input = basic_mesh
old_block_id = '2 3 4'
new_block_name = 'bot_aquifer aquitard top_aquifer'
[]
[zmax]
type = SideSetsFromNormalsGenerator
input = name_blocks
new_boundary = zmax
normals = '0 0 1'
[]
[xmin_bot_aquifer]
type = ParsedGenerateSideset
input = zmax
included_subdomain_ids = 2
normal = '-1 0 0'
combinatorial_geometry = 'x <= -500.0'
new_sideset_name = xmin_bot_aquifer
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = initial_pp
[]
[]
[BCs]
[rainfall_recharge]
type = PorousFlowSink
boundary = zmax
variable = pp
flux_function = -1E-6 # recharge of 0.1mm/day = 1E-4m3/m2/day = 0.1kg/m2/day ~ 1E-6kg/m2/s
[]
[evapotranspiration]
type = PorousFlowHalfCubicSink
boundary = zmax
variable = pp
center = 0.0
cutoff = -5E4 # roots of depth 5m. 5m of water = 5E4 Pa
use_mobility = true
fluid_phase = 0
# Assume pan evaporation of 4mm/day = 4E-3m3/m2/day = 4kg/m2/day ~ 4E-5kg/m2/s
# Assume that if permeability was 1E-10m^2 and water table at topography then ET acts as pan strength
# Because use_mobility = true, then 4E-5 = maximum_flux = max * perm * density / visc = max * 1E-4, so max = 40
max = 40
[]
[]
[DiracKernels]
[river]
type = PorousFlowPolyLineSink
SumQuantityUO = baseflow
point_file = ex02_river.bh
# Assume a perennial river.
# Assume the river has an incision depth of 1m and a stage height of 1.5m, and these are constant in time and uniform over the whole model. Hence, if groundwater head is 0.5m (5000Pa) there will be no baseflow and leakage.
p_or_t_vals = '-999995000 5000 1000005000'
# Assume the riverbed conductance, k_zz*density*river_segment_length*river_width/riverbed_thickness/viscosity = 1E-6*river_segment_length kg/Pa/s
fluxes = '-1E3 0 1E3'
variable = pp
[]
[]
[Functions]
[initial_pp]
type = SolutionFunction
scale_factor = 1E4
from_variable = cosflow_depth
solution = initial_mesh
[]
[baseflow_rate]
type = ParsedFunction
vars = 'baseflow_kg dt'
vals = 'baseflow_kg dt'
value = 'baseflow_kg / dt * 24.0 * 3600.0 / 400.0'
[]
[]
[PorousFlowUnsaturated]
fp = simple_fluid
porepressure = pp
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
[]
[]
[]
[Materials]
[porosity_everywhere]
type = PorousFlowPorosityConst
porosity = 0.05
[]
[permeability_aquifers]
type = PorousFlowPermeabilityConst
block = 'top_aquifer bot_aquifer'
permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-13'
[]
[permeability_aquitard]
type = PorousFlowPermeabilityConst
block = aquitard
permeability = '1E-16 0 0 0 1E-16 0 0 0 1E-17'
[]
[]
[UserObjects]
[initial_mesh]
type = SolutionUserObject
execute_on = INITIAL
mesh = ex02_mesh.e
timestep = LATEST
system_variables = cosflow_depth
[]
[baseflow]
type = PorousFlowSumQuantity
[]
[]
[Postprocessors]
[baseflow_kg]
type = PorousFlowPlotQuantity
uo = baseflow
outputs = 'none'
[]
[dt]
type = TimestepSize
outputs = 'none'
[]
[baseflow_l_per_m_per_day]
type = FunctionValuePostprocessor
function = baseflow_rate
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
# following 2 lines are not mandatory, but illustrate a popular preconditioner choice in groundwater models
petsc_options_iname = '-pc_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = ' asm ilu 2 '
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E6
[TimeStepper]
type = FunctionDT
function = 'max(1E6, t)'
[]
end_time = 1E12
nl_abs_tol = 1E-13
[]
[Outputs]
print_linear_residuals = false
[ex]
type = Exodus
execute_on = final
[]
[csv]
type = CSV
[]
[]
(modules/xfem/test/tests/moving_interface/ad_phase_transition_2d.i)
[GlobalParams]
order = FIRST
family = LAGRANGE
[]
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 11
ny = 1
xmin = 0.0
xmax = 20.0
ymin = 0.0
ymax = 5.0
elem_type = QUAD4
[]
[]
[XFEM]
qrule = volfrac
output_cut_plane = true
[]
[UserObjects]
[velocity]
type = XFEMPhaseTransitionMovingInterfaceVelocity
diffusivity_at_positive_level_set = 5
diffusivity_at_negative_level_set = 1
equilibrium_concentration_jump = 1
value_at_interface_uo = value_uo
[]
[value_uo]
type = NodeValueAtXFEMInterface
variable = 'u'
interface_mesh_cut_userobject = 'cut_mesh'
execute_on = TIMESTEP_END
level_set_var = ls
[]
[cut_mesh]
type = InterfaceMeshCut2DUserObject
mesh_file = flat_interface_1d.e
interface_velocity_uo = velocity
heal_always = true
[]
[]
[Variables]
[u]
[]
[]
[ICs]
[ic_u]
type = FunctionIC
variable = u
function = 'if(x<5.01, 2, 1)'
[]
[]
[AuxVariables]
[ls]
order = FIRST
family = LAGRANGE
[]
[]
[Constraints]
[u_constraint]
type = XFEMEqualValueAtInterface
geometric_cut_userobject = 'cut_mesh'
use_displaced_mesh = false
variable = u
value = 2
alpha = 1e6
[]
[]
[Kernels]
[diff]
type = ADMatDiffusion
variable = u
diffusivity = diffusion_coefficient
[]
[time]
type = ADTimeDerivative
variable = u
[]
[]
[AuxKernels]
[ls]
type = MeshCutLevelSetAux
mesh_cut_user_object = cut_mesh
variable = ls
execute_on = 'TIMESTEP_BEGIN'
[]
[]
[Materials]
[diffusivity_A]
type = ADGenericConstantMaterial
prop_names = A_diffusion_coefficient
prop_values = 5
[]
[diffusivity_B]
type = ADGenericConstantMaterial
prop_names = B_diffusion_coefficient
prop_values = 1
[]
[diff_combined]
type = ADLevelSetBiMaterialReal
levelset_positive_base = 'A'
levelset_negative_base = 'B'
level_set_var = ls
prop_name = diffusion_coefficient
[]
[]
[BCs]
# Define boundary conditions
[left_u]
type = ADDirichletBC
variable = u
value = 2
boundary = left
[]
[right_u]
type = ADNeumannBC
variable = u
boundary = right
value = 0
[]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
line_search = 'none'
l_tol = 1e-3
nl_max_its = 15
nl_rel_tol = 1e-8
nl_abs_tol = 1e-8
start_time = 0.0
dt = 1
num_steps = 5
max_xfem_update = 1
[]
[Outputs]
file_base = phase_transition_2d_out
execute_on = timestep_end
exodus = true
perf_graph = true
csv = true
[]
(modules/richards/test/tests/theis/th_lumped_02.i)
# fully-saturated
# production
# lumped
[Mesh]
type = FileMesh
file = th02_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1 2 4 20'
x = '0 1 10 100'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsLumpedMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsPolyLineSink
pressures = '-1E9 1E9'
fluxes = '200 200'
point_file = th01.points
SumQuantityUO = total_outflow_mass
variable = pressure
[../]
[]
[Postprocessors]
[./flow_report]
type = RichardsPlotQuantity
uo = total_outflow_mass
[../]
[./p50]
type = PointValue
variable = pressure
point = '50 0 0'
execute_on = 'initial timestep_end'
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E5
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-6 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 100
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = th_lumped_02
csv = true
[]
(modules/richards/test/tests/dirac/bh09.i)
# fully-saturated
# production
# with anisotropic permeability
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh02.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = 1
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '2E-12 1E-12 0 1E-12 2E-12 0 0 0 1E-12'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 0.5
dt = 1E-2
solve_type = NEWTON
[]
[Outputs]
file_base = bh09
exodus = false
csv = true
execute_on = timestep_end
[]
(test/tests/restart/restart_subapp_not_master/complete_solve_no_subapp.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Postprocessors]
[./average]
type = ElementAverageValue
variable = u
[../]
[]
[Executioner]
type = Transient
start_time = 0.0
end_time = 4.0
dt = 1.0
[]
[Outputs]
file_base = complete_solve_no_subapp
exodus = true
[]
(modules/porous_flow/test/tests/relperm/corey4.i)
# Test Corey relative permeability curve by varying saturation over the mesh
# Residual saturation of phase 0: s0r = 0.2
# Residual saturation of phase 1: s1r = 0.3
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
family = LAGRANGE
order = FIRST
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityCorey
scaling = 0.1
phase = 0
n = 2
s_res = 0.2
sum_s_res = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
scaling = 10.0
phase = 1
n = 2
s_res = 0.3
sum_s_res = 0.5
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-8
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_2D_angle.i)
# Using flux-limited TVD advection ala Kuzmin and Turek, mploying PorousFlow Kernels and UserObjects, with superbee flux-limiter
# 2D version with velocity = (0.1, 0.2, 0)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
xmin = 0
xmax = 1
ny = 10
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x - 2 * y'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1 | x > 0.3 | y < 0.1 | y > 0.3, 0, 1)'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowFluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = advective_flux_calculator_0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowFluxLimitedTVDAdvection
variable = porepressure
advective_flux_calculator = advective_flux_calculator_1
[]
[]
[BCs]
[constant_boundary_porepressure]
type = FunctionDirichletBC
variable = porepressure
function = '1 - x - 2 * y'
boundary = 'left right top bottom'
[]
[no_tracer_at_boundary]
type = DirichletBC
variable = tracer
value = 0
boundary = 'left right top bottom'
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[advective_flux_calculator_0]
type = PorousFlowAdvectiveFluxCalculatorUnsaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 0
[]
[advective_flux_calculator_1]
type = PorousFlowAdvectiveFluxCalculatorUnsaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 0.3
dt = 0.1
[]
[Outputs]
[out]
type = Exodus
execute_on = 'initial final'
[]
[]
(modules/richards/test/tests/sinks/s05.i)
# checking the multiplying_fcn of RichardsPiecewiseLinearSinkFlux.
# This test is constructed so it should produce exactly the same answer as s02.i
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.5
al = 1 # same deal with PETScs constant state
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.2
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 2
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-lfout-rfout-mf)/2/(mi+mf))
vars = 'mi mf lfout rfout'
vals = 'mass_init mass_fin left_flux_out right_flux_out'
[../]
[]
[Postprocessors]
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./mass_fin]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./left_flux_out]
type = RichardsHalfGaussianSinkFlux
boundary = left
variable = pressure
centre = 1
max = 4
multiplying_fcn = 0.5
sd = 1
[../]
[./right_flux_out]
type = RichardsHalfGaussianSinkFlux
boundary = right
variable = pressure
centre = 1
max = 1
multiplying_fcn = 2
sd = 1
[../]
[./p0]
type = PointValue
point = '0 0 0'
variable = pressure
[../]
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
[BCs]
[./left_flux]
type = RichardsHalfGaussianSink
boundary = left
variable = pressure
centre = 1
max = 2
sd = 1
[../]
[./right_flux]
type = RichardsHalfGaussianSink
boundary = right
variable = pressure
centre = 1
max = 2
sd = 1
[../]
[]
[Kernels]
active = 'richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-10 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 4E-3
end_time = 0.4
[]
[Outputs]
file_base = s05
csv = true
execute_on = timestep_end
[]
(python/chigger/tests/input/block_vars.i)
[Mesh]
[generator]
type = GeneratedMeshGenerator
dim = 2
nx = 10
ny = 10
[]
[subdomain1]
type = SubdomainBoundingBoxGenerator
input = generator
bottom_left = '0.5 0 0'
top_right = '1 1 0'
block_id = 1
[]
[]
[Variables]
[right_elemental]
block = 1
family = MONOMIAL
order = CONSTANT
[]
[right_nodal]
block = 1
[]
[]
[ICs]
[right_elemental]
type = FunctionIC
variable = right_elemental
function = 2*y
[]
[right_nodal]
type = FunctionIC
variable = right_nodal
function = 3*y
[]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/buckley_leverett/bl01.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2.0E6
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.8
al = 1E-4
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[AuxKernels]
active = 'calculate_seff'
[./calculate_seff]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffVG
pressure_vars = pressure
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[BCs]
active = 'left'
[./left]
type = DirichletBC
variable = pressure
boundary = left
value = 980000
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Functions]
active = 'initial_pressure'
[./initial_pressure]
type = ParsedFunction
value = max((1000000-x/5*1000000)-20000,-20000)
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'andy'
[./andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 20'
[../]
[]
[Executioner]
type = Transient
end_time = 50
dt = 2
snesmf_reuse_base = false
[]
[Outputs]
file_base = bl01
execute_on = 'initial timestep_end final'
interval = 10000
exodus = true
[]
(test/tests/functions/image_function/image_2d_elemental.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[u]
order = CONSTANT
family = MONOMIAL
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
# file range is parsed as a vector of unsigned. If it only has 1
# entry, only a single file is read.
file_range = '0'
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(test/tests/materials/derivative_material_interface/ad_derivative_parsed_material.i)
#
# Test the AD version of derivative parsed material
#
[Mesh]
type = GeneratedMesh
dim = 2
[]
[Variables]
[./eta]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[]
[Kernels]
[./diff]
type = ADMatDiffusion
variable = eta
diffusivity = F
[]
[./dt]
type = TimeDerivative
variable = eta
[]
[]
[Materials]
[./Fbar]
type = ADDerivativeParsedMaterial
args = 'eta'
f_name = Fbar
function ='1/3*(eta-0.5)^3'
[]
[./F]
type = ADParsedMaterial
args = 'eta'
material_property_names = 'F:=D[Fbar,eta]'
function ='F'
outputs = exodus
[]
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(modules/porous_flow/test/tests/sinks/s07.i)
# apply a sink flux on just one component of a 3-component system and observe the correct behavior
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp frac0 frac1'
number_fluid_phases = 1
number_fluid_components = 3
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1.1
[]
[]
[Variables]
[pp]
[]
[frac0]
initial_condition = 0.1
[]
[frac1]
initial_condition = 0.6
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = y
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = frac0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = frac1
[]
[mass2]
type = PorousFlowMassTimeDerivative
fluid_component = 2
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.3
density0 = 1.1
thermal_expansion = 0
viscosity = 1.1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'frac0 frac1'
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '0.2 0 0 0 0.1 0 0 0 0.1'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[AuxVariables]
[flux_out]
[]
[]
[Functions]
[mass1_00]
type = ParsedFunction
value = 'frac*vol*por*dens0*exp(pp/bulk)*pow(1+pow(-al*pp,1.0/(1-m)),-m)'
vars = 'frac vol por dens0 pp bulk al m'
vals = 'f1_00 0.25 0.1 1.1 p00 1.3 1.1 0.5'
[]
[expected_mass_change1_00]
type = ParsedFunction
value = 'frac*fcn*area*dt'
vars = 'frac fcn area dt'
vals = 'f1_00 6 0.5 1E-3'
[]
[mass1_00_expect]
type = ParsedFunction
value = 'mass_prev-mass_change'
vars = 'mass_prev mass_change'
vals = 'm1_00_prev del_m1_00'
[]
[mass1_01]
type = ParsedFunction
value = 'frac*vol*por*dens0*exp(pp/bulk)*pow(1+pow(-al*pp,1.0/(1-m)),-m)'
vars = 'frac vol por dens0 pp bulk al m'
vals = 'f1_01 0.25 0.1 1.1 p01 1.3 1.1 0.5'
[]
[expected_mass_change1_01]
type = ParsedFunction
value = 'frac*fcn*area*dt'
vars = 'frac fcn area dt'
vals = 'f1_01 6 0.5 1E-3'
[]
[mass1_01_expect]
type = ParsedFunction
value = 'mass_prev-mass_change'
vars = 'mass_prev mass_change'
vals = 'm1_01_prev del_m1_01'
[]
[]
[Postprocessors]
[f1_00]
type = PointValue
point = '0 0 0'
variable = frac1
execute_on = 'initial timestep_end'
[]
[flux_00]
type = PointValue
point = '0 0 0'
variable = flux_out
execute_on = 'initial timestep_end'
[]
[p00]
type = PointValue
point = '0 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m1_00]
type = FunctionValuePostprocessor
function = mass1_00
execute_on = 'initial timestep_end'
[]
[m1_00_prev]
type = FunctionValuePostprocessor
function = mass1_00
execute_on = 'timestep_begin'
outputs = 'console'
[]
[del_m1_00]
type = FunctionValuePostprocessor
function = expected_mass_change1_00
execute_on = 'timestep_end'
outputs = 'console'
[]
[m1_00_expect]
type = FunctionValuePostprocessor
function = mass1_00_expect
execute_on = 'timestep_end'
[]
[f1_01]
type = PointValue
point = '0 1 0'
variable = frac1
execute_on = 'initial timestep_end'
[]
[flux_01]
type = PointValue
point = '0 1 0'
variable = flux_out
execute_on = 'initial timestep_end'
[]
[p01]
type = PointValue
point = '0 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m1_01]
type = FunctionValuePostprocessor
function = mass1_01
execute_on = 'initial timestep_end'
[]
[m1_01_prev]
type = FunctionValuePostprocessor
function = mass1_01
execute_on = 'timestep_begin'
outputs = 'console'
[]
[del_m1_01]
type = FunctionValuePostprocessor
function = expected_mass_change1_01
execute_on = 'timestep_end'
outputs = 'console'
[]
[m1_01_expect]
type = FunctionValuePostprocessor
function = mass1_01_expect
execute_on = 'timestep_end'
[]
[f1_11]
type = PointValue
point = '1 1 0'
variable = frac1
execute_on = 'initial timestep_end'
[]
[flux_11]
type = PointValue
point = '1 1 0'
variable = flux_out
execute_on = 'initial timestep_end'
[]
[p11]
type = PointValue
point = '1 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[]
[BCs]
[flux]
type = PorousFlowSink
boundary = 'left'
variable = frac1
use_mobility = false
use_relperm = false
mass_fraction_component = 1
fluid_phase = 0
flux_function = 6
save_in = flux_out
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-3
end_time = 0.01
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s07
[console]
type = Console
execute_on = 'nonlinear linear'
[]
[csv]
type = CSV
execute_on = 'timestep_end'
[]
[]
(test/tests/misc/check_error/function_file_test3.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_mixed_lengths.csv #Will generate error because length of data doesn't match on all rows
format = rows
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/richards/test/tests/excav/ex02.i)
###########################################
# #
# THIS EXAMPLE CONTAINS AN EXCAVATION #
# #
###########################################
# Easiest way of figuring out what's happening:
# Run this example, load into paraview, take
# a slice through (0,0,0) with normal (0,0,1),
# colour by pressure and play the animation.
# This mesh has an interior sideset called excav_bdy
[Mesh]
type = FileMesh
file = ex01_input.e
[]
# This is a boundary condition acting on excav_bdy
# All it does is to set the pressure to p_excav=0
# at places on excav_bdy wherever excav_fcn tells it to.
[BCs]
[./excav_bdy]
type = RichardsExcav
boundary = excav_bdy
p_excav = 0.0
variable = pressure
excav_geom_function = excav_fcn
[../]
[]
[Functions]
# excav_fcn controls where to set pressure=p_excav
# You supply start and end positions and times and
# by a linear interpolation these define the position
# of the coal face at all times
[./excav_fcn]
type = RichardsExcavGeom
start_posn = '0 -500 0'
start_time = 0
end_posn = '0 500 0'
end_time = 3E7
active_length = 1E4
[../]
# mass_bal_fcn calculates the mass balance
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-fout-mf)/2/(mi+mf))
vars = 'mi mf fout'
vals = 'mass_init mass_final flux_out'
[../]
# initial pressure - unimportant in this example
[./initial_pressure]
type = ParsedFunction
value = -10000*(z-100)
[../]
[]
# following is needed by postprocessors, kernels, etc
# unimportant in this example
[GlobalParams]
richardsVarNames_UO = PPNames
[]
# following does the calculation of relevant
# masses and mass-flux to the excavation
[Postprocessors]
# note that this is calculated at beginning of timestep
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
# note this is calculated at end of timestep
[./mass_final]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
# this is what calculates the mass flux to the excavation
# it is calculating it for boundary=excav_bdy, and the
# excavation time-dependence is set through the excav_fcn
[./flux_out]
type = RichardsExcavFlow
boundary = excav_bdy
variable = pressure
excav_geom_function = excav_fcn
[../]
# mass_bal just outputs the result to screen
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
######################################
# #
# THE FOLLOWING STUFF IS STANDARD #
# #
######################################
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E+2
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = '1 2 3 4'
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-15 0 0 0 1E-15 0 0 0 1E-15'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 -10'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 3E7
dt = 1E6
solve_type = NEWTON
[]
[Outputs]
execute_on = 'timestep_end'
file_base = ex02
exodus = true
[]
(modules/richards/test/tests/user_objects/uo2.i)
# Density User objects give the correct value
#
# If you want to add another test for another UserObject
# then add the UserObject, add a Function defining the expected result,
# add an AuxVariable and AuxKernel that will record the UserObjects value
# and finally add a NodalL2Error that compares this with the Function
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./DensityIdeal]
type = RichardsDensityIdeal
p0 = 33333
slope = 1.1E-2
[../]
[./DensityMethane20degC]
type = RichardsDensityMethane20degC
[../]
[./DensityVDW]
type = RichardsDensityVDW
a = 0.2303
b = 4.31E-4
temperature = 293
molar_mass = 16.04246E-3
infinity_ratio = 10
[../]
[./DensityConstBulkCut]
type = RichardsDensityConstBulkCut
dens0 = 1000
bulk_mod = 2E6
cut_limit = 1E6
zero_point = -1E6
[../]
# following are unimportant in this test
[./SeffVG]
type = RichardsSeff1VG
m = 0.8
al = 1E-6
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.10101
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.054321
sum_s_res = 0.054321
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E5
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = x
[../]
[./answer_DensityConstBulk]
type = ParsedFunction
value = dens0*exp(x/bulk_mod)
vars = 'dens0 bulk_mod'
vals = '1000 2E6'
[../]
[./answer_dDensityConstBulk]
type = GradParsedFunction
direction = '1 0 0'
value = dens0*exp(x/bulk_mod)
vars = 'dens0 bulk_mod'
vals = '1000 2E6'
[../]
[./answer_d2DensityConstBulk]
type = Grad2ParsedFunction
direction = '1 0 0'
value = dens0*exp(x/bulk_mod)
vars = 'dens0 bulk_mod'
vals = '1000 2E6'
[../]
[./answer_DensityIdeal]
type = ParsedFunction
value = slope*(x-p0)
vars = 'p0 slope'
vals = '33333 1.1E-2'
[../]
[./answer_dDensityIdeal]
type = GradParsedFunction
direction = '1 0 0'
value = slope*(x-p0)
vars = 'p0 slope'
vals = '33333 1.1E-2'
[../]
[./answer_d2DensityIdeal]
type = Grad2ParsedFunction
direction = '1 0 0'
value = slope*(x-p0)
vars = 'p0 slope'
vals = '33333 1.1E-2'
[../]
[./answer_DensityMethane20degC]
type = ParsedFunction
value = if(x>0,(0.00654576947608E-3*x+1.04357716547E-13*x^2),0)+if(x<0,0.1*(e^(6.54576947608E-5*x)-1),0)
[../]
[./answer_dDensityMethane20degC]
type = GradParsedFunction
direction = '1 0 0'
value = if(x>0,(0.00654576947608E-3*x+1.04357716547E-13*x^2),0)+if(x<0,0.1*(e^(6.54576947608E-5*x)-1),0)
[../]
[./answer_d2DensityMethane20degC]
type = Grad2ParsedFunction
direction = '1 0 0'
value = if(x>0,(0.00654576947608E-3*x+1.04357716547E-13*x^2),0)+if(x<0,0.1*(e^(6.54576947608E-5*x)-1),0)
[../]
[./answer_DensityVDW]
type = ParsedFunction
value = if(x>0,-(molar_mass*(-2+(2*pow(2,0.3333333333333333)*(a-3*b*(b*x+rt)))/pow(-2*pow(a,3)+9*pow(a,2)*b*(-2*b*x+rt)+pow(pow(a,3)*(a*pow(2*a+9*b*(2*b*x-rt),2)-4*pow(a-3*b*(b*x+rt),3)),0.5),0.3333333333333333)+(pow(2,0.6666666666666666)*pow(-2*pow(a,3)+9*pow(a,2)*b*(-2*b*x+rt)+pow(pow(a,3)*(a*pow(2*a+9*b*(2*b*x-rt),2)-4*pow(a-3*b*(b*x+rt),3)),0.5),0.3333333333333333))/a))/(6.*b)+(molar_mass*(-2+(2*pow(2,0.3333333333333333)*(a-3*b*(b*0+rt)))/pow(-2*pow(a,3)+9*pow(a,2)*b*(-2*b*0+rt)+pow(pow(a,3)*(a*pow(2*a+9*b*(2*b*0-rt),2)-4*pow(a-3*b*(b*0+rt),3)),0.5),0.3333333333333333)+(pow(2,0.6666666666666666)*pow(-2*pow(a,3)+9*pow(a,2)*b*(-2*b*0+rt)+pow(pow(a,3)*(a*pow(2*a+9*b*(2*b*0-rt),2)-4*pow(a-3*b*(b*0+rt),3)),0.5),0.3333333333333333))/a))/(6.*b),infinityratio*molar_mass*(e^(slope0*x)-1))
vars = 'a b rt molar_mass infinityratio slope0'
vals = '0.2303 0.000431 2436.1403 0.01604246 10 4.10485e-05'
[../]
[./answer_dDensityVDW]
type = GradParsedFunction
direction = '1 0 0'
value = if(x>0,-(molar_mass*(-2+(2*pow(2,0.3333333333333333)*(a-3*b*(b*x+rt)))/pow(-2*pow(a,3)+9*pow(a,2)*b*(-2*b*x+rt)+pow(pow(a,3)*(a*pow(2*a+9*b*(2*b*x-rt),2)-4*pow(a-3*b*(b*x+rt),3)),0.5),0.3333333333333333)+(pow(2,0.6666666666666666)*pow(-2*pow(a,3)+9*pow(a,2)*b*(-2*b*x+rt)+pow(pow(a,3)*(a*pow(2*a+9*b*(2*b*x-rt),2)-4*pow(a-3*b*(b*x+rt),3)),0.5),0.3333333333333333))/a))/(6.*b),infinityratio*molar_mass*(e^(slope0*x)-1))
vars = 'a b rt molar_mass infinityratio slope0'
vals = '0.2303 0.000431 2436.1403 0.01604246 10 4.10485e-05'
[../]
[./answer_d2DensityVDW]
type = Grad2ParsedFunction
direction = '1 0 0'
value = if(x>0,-(molar_mass*(-2+(2*pow(2,0.3333333333333333)*(a-3*b*(b*x+rt)))/pow(-2*pow(a,3)+9*pow(a,2)*b*(-2*b*x+rt)+pow(pow(a,3)*(a*pow(2*a+9*b*(2*b*x-rt),2)-4*pow(a-3*b*(b*x+rt),3)),0.5),0.3333333333333333)+(pow(2,0.6666666666666666)*pow(-2*pow(a,3)+9*pow(a,2)*b*(-2*b*x+rt)+pow(pow(a,3)*(a*pow(2*a+9*b*(2*b*x-rt),2)-4*pow(a-3*b*(b*x+rt),3)),0.5),0.3333333333333333))/a))/(6.*b),infinityratio*molar_mass*(e^(slope0*x)-1))
vars = 'a b rt molar_mass infinityratio slope0'
vals = '0.2303 0.000431 2436.1403 0.01604246 10 4.10485e-05'
[../]
[./answer_DensityConstBulkCut]
type = ParsedFunction
value = if(x<zero_pt,0,if(x>cut_limit,dens0*exp(x/bulk_mod),(3*cut_limit-2*x-zero_pt)*(x-zero_pt)*(x-zero_pt)*dens0*exp(x/bulk_mod)/(cut_limit-zero_pt)/(cut_limit-zero_pt)/(cut_limit-zero_pt)))
vars = 'dens0 bulk_mod zero_pt cut_limit'
vals = '1000 2E6 -1E6 1E6'
[../]
[./answer_dDensityConstBulkCut]
type = GradParsedFunction
direction = '1 0 0'
value = if(x<zero_pt,0,if(x>cut_limit,dens0*exp(x/bulk_mod),(3*cut_limit-2*x-zero_pt)*(x-zero_pt)*(x-zero_pt)*dens0*exp(x/bulk_mod)/(cut_limit-zero_pt)/(cut_limit-zero_pt)/(cut_limit-zero_pt)))
vars = 'dens0 bulk_mod zero_pt cut_limit'
vals = '1000 2E6 -1E6 1E6'
[../]
[./answer_d2DensityConstBulkCut]
type = Grad2ParsedFunction
direction = '1 0 0'
value = if(x<zero_pt,0,if(x>cut_limit,dens0*exp(x/bulk_mod),(3*cut_limit-2*x-zero_pt)*(x-zero_pt)*(x-zero_pt)*dens0*exp(x/bulk_mod)/(cut_limit-zero_pt)/(cut_limit-zero_pt)/(cut_limit-zero_pt)))
vars = 'dens0 bulk_mod zero_pt cut_limit'
vals = '1000 2E6 -1E6 1E6'
[../]
[]
[AuxVariables]
[./DensityConstBulk_Aux]
[../]
[./dDensityConstBulk_Aux]
[../]
[./d2DensityConstBulk_Aux]
[../]
[./DensityIdeal_Aux]
[../]
[./dDensityIdeal_Aux]
[../]
[./d2DensityIdeal_Aux]
[../]
[./DensityMethane20degC_Aux]
[../]
[./dDensityMethane20degC_Aux]
[../]
[./d2DensityMethane20degC_Aux]
[../]
[./DensityVDW_Aux]
[../]
[./dDensityVDW_Aux]
[../]
[./d2DensityVDW_Aux]
[../]
[./DensityConstBulkCut_Aux]
[../]
[./dDensityConstBulkCut_Aux]
[../]
[./d2DensityConstBulkCut_Aux]
[../]
[./check_Aux]
[../]
[]
[AuxKernels]
[./DensityConstBulk_AuxK]
type = RichardsDensityAux
variable = DensityConstBulk_Aux
density_UO = DensityConstBulk
pressure_var = pressure
[../]
[./dDensityConstBulk_AuxK]
type = RichardsDensityPrimeAux
variable = dDensityConstBulk_Aux
density_UO = DensityConstBulk
pressure_var = pressure
[../]
[./d2DensityConstBulk_AuxK]
type = RichardsDensityPrimePrimeAux
variable = d2DensityConstBulk_Aux
density_UO = DensityConstBulk
pressure_var = pressure
[../]
[./DensityIdeal_AuxK]
type = RichardsDensityAux
variable = DensityIdeal_Aux
density_UO = DensityIdeal
pressure_var = pressure
[../]
[./dDensityIdeal_AuxK]
type = RichardsDensityPrimeAux
variable = dDensityIdeal_Aux
density_UO = DensityIdeal
pressure_var = pressure
[../]
[./d2DensityIdeal_AuxK]
type = RichardsDensityPrimePrimeAux
variable = d2DensityIdeal_Aux
density_UO = DensityIdeal
pressure_var = pressure
[../]
[./DensityMethane20degC_AuxK]
type = RichardsDensityAux
variable = DensityMethane20degC_Aux
density_UO = DensityMethane20degC
pressure_var = pressure
[../]
[./dDensityMethane20degC_AuxK]
type = RichardsDensityPrimeAux
variable = dDensityMethane20degC_Aux
density_UO = DensityMethane20degC
pressure_var = pressure
[../]
[./d2DensityMethane20degC_AuxK]
type = RichardsDensityPrimePrimeAux
variable = d2DensityMethane20degC_Aux
density_UO = DensityMethane20degC
pressure_var = pressure
[../]
[./DensityVDW_AuxK]
type = RichardsDensityAux
variable = DensityVDW_Aux
density_UO = DensityVDW
pressure_var = pressure
[../]
[./dDensityVDW_AuxK]
type = RichardsDensityPrimeAux
variable = dDensityVDW_Aux
density_UO = DensityVDW
pressure_var = pressure
[../]
[./d2DensityVDW_AuxK]
type = RichardsDensityPrimePrimeAux
variable = d2DensityVDW_Aux
density_UO = DensityVDW
pressure_var = pressure
[../]
[./DensityConstBulkCut_AuxK]
type = RichardsDensityAux
variable = DensityConstBulkCut_Aux
density_UO = DensityConstBulkCut
pressure_var = pressure
[../]
[./dDensityConstBulkCut_AuxK]
type = RichardsDensityPrimeAux
variable = dDensityConstBulkCut_Aux
density_UO = DensityConstBulkCut
pressure_var = pressure
[../]
[./d2DensityConstBulkCut_AuxK]
type = RichardsDensityPrimePrimeAux
variable = d2DensityConstBulkCut_Aux
density_UO = DensityConstBulkCut
pressure_var = pressure
[../]
[./check_AuxK]
type = FunctionAux
variable = check_Aux
function = answer_d2DensityConstBulkCut
[../]
[]
[Postprocessors]
[./cf_DensityConstBulk]
type = NodalL2Error
function = answer_DensityConstBulk
variable = DensityConstBulk_Aux
[../]
[./cf_dDensityConstBulk]
type = NodalL2Error
function = answer_dDensityConstBulk
variable = dDensityConstBulk_Aux
[../]
[./cf_d2DensityConstBulk]
type = NodalL2Error
function = answer_d2DensityConstBulk
variable = d2DensityConstBulk_Aux
[../]
[./cf_DensityIdeal]
type = NodalL2Error
function = answer_DensityIdeal
variable = DensityIdeal_Aux
[../]
[./cf_dDensityIdeal]
type = NodalL2Error
function = answer_dDensityIdeal
variable = dDensityIdeal_Aux
[../]
[./cf_d2DensityIdeal]
type = NodalL2Error
function = answer_d2DensityIdeal
variable = d2DensityIdeal_Aux
[../]
[./cf_DensityMethane20degC]
type = NodalL2Error
function = answer_DensityMethane20degC
variable = DensityMethane20degC_Aux
[../]
[./cf_dDensityMethane20degC]
type = NodalL2Error
function = answer_dDensityMethane20degC
variable = dDensityMethane20degC_Aux
[../]
[./cf_d2DensityMethane20degC]
type = NodalL2Error
function = answer_d2DensityMethane20degC
variable = d2DensityMethane20degC_Aux
[../]
[./cf_DensityVDW]
type = NodalL2Error
function = answer_DensityVDW
variable = DensityVDW_Aux
[../]
[./cf_dDensityVDW]
type = NodalL2Error
function = answer_dDensityVDW
variable = dDensityVDW_Aux
[../]
[./cf_d2DensityVDW]
type = NodalL2Error
function = answer_d2DensityVDW
variable = d2DensityVDW_Aux
[../]
[./cf_DensityConstBulkCut]
type = NodalL2Error
function = answer_DensityConstBulkCut
variable = DensityConstBulkCut_Aux
[../]
[./cf_dDensityConstBulkCut]
type = NodalL2Error
function = answer_dDensityConstBulkCut
variable = dDensityConstBulkCut_Aux
[../]
[./cf_d2DensityConstBulkCut]
type = NodalL2Error
function = answer_d2DensityConstBulkCut
variable = d2DensityConstBulkCut_Aux
[../]
[]
#############################################################################
#
# Following is largely unimportant as we are not running an actual similation
#
#############################################################################
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = -5E6
xmax = 5E6
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Kernels]
active = 'richardst'
[./richardst]
type = RichardsMassChange
richardsVarNames_UO = PPNames
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
richardsVarNames_UO = PPNames
variable = pressure
[../]
[]
[Materials]
[./unimportant_material]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-20 0 0 0 1E-20 0 0 0 1E-20'
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = SeffVG
SUPG_UO = SUPGstandard
viscosity = 1E-3
gravity = '0 0 -10'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./does_nothing]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E50 1E50 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
num_steps = 1
dt = 1E-100
[]
[Outputs]
execute_on = 'timestep_end'
active = 'csv'
file_base = uo2
[./csv]
type = CSV
[../]
[./exodus]
type = Exodus
hide = pressure
[../]
[]
(test/tests/indicators/laplacian_jump_indicator/biharmonic_transient.i)
[GlobalParams]
# Parameters used by Functions.
vars = 'c'
vals = '50'
[]
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -.5
xmax = .5
ymin = -.5
ymax = .5
nx = 10
ny = 10
[]
[Variables]
[./u]
order = THIRD
family = HERMITE
[../]
[]
[Kernels]
[./biharmonic]
type = Biharmonic
variable = u
[../]
[./body_force]
type = BodyForce
variable = u
function = forcing_func
[../]
[]
[BCs]
[./all_value]
type = FunctionPenaltyDirichletBC
variable = u
boundary = 'left right top bottom'
function = u_func
penalty = 1e10
[../]
[./all_flux]
type = FunctionPenaltyFluxBC
variable = u
boundary = 'left right top bottom'
function = u_func
penalty = 1e10
[../]
[]
[Adaptivity]
[./Indicators]
[./error]
type = LaplacianJumpIndicator
variable = u
scale_by_flux_faces = true
[../]
[../]
[]
[Executioner]
type = Transient
num_steps = 4
dt = 0.1
# Note: the unusually tight tolerances here are due to the penalty
# BCs (currently the only way of accurately Dirichlet boundary
# conditions on Hermite elements in MOOSE).
nl_rel_tol = 1.e-15
l_tol = 1.e-15
# We have exact Jacobians
solve_type = 'NEWTON'
# Use 6x6 quadrature to ensure the forcing function is integrated
# accurately.
[./Quadrature]
type = GAUSS
order = ELEVENTH
[../]
[]
[Functions]
[./u_func]
type = ParsedGradFunction
value = 'exp(-c*(x^2+y^2))*exp(-t)'
grad_x = '-2*c*exp(-c*(x^2+y^2))*x*exp(-t)'
grad_y = '-2*c*exp(-c*(x^2+y^2))*y*exp(-t)'
[../]
[./forcing_func]
type = ParsedFunction
value = '16*c^2*(c^2*(x^2+y^2)^2 - 4*c*(x^2+y^2) + 2)*exp(-c*(x^2+y^2))*exp(-t)'
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
function = u_func
variable = u
[../]
[]
[Postprocessors]
[./l2_error]
type = ElementL2Error
variable = u
function = u_func
[../]
[./h1_error]
type = ElementH1Error
variable = u
function = u_func
[../]
[]
[Outputs]
exodus = true
[]
(test/tests/auxkernels/solution_aux/aux_nonlinear_solution_xdr.i)
[Mesh]
# This test uses SolutionUserObject which doesn't work with DistributedMesh.
type = GeneratedMesh
parallel_type = replicated
dim = 2
nx = 2
ny = 2
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./u_aux]
[../]
[]
[Functions]
[./u_xdr_func]
type = SolutionFunction
solution = xdr_u
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[AuxKernels]
[./aux_xdr_kernel]
type = SolutionAux
variable = u_aux
solution = xdr_u_aux
execute_on = initial
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[./right]
type = DirichletBC
variable = u
boundary = 2
value = 2
[../]
[]
[UserObjects]
[./xdr_u_aux]
type = SolutionUserObject
system = aux0
mesh = aux_nonlinear_solution_xdr_0001_mesh.xdr
es = aux_nonlinear_solution_xdr_0001.xdr
execute_on = initial
[../]
[./xdr_u]
type = SolutionUserObject
system = nl0
mesh = aux_nonlinear_solution_xdr_0001_mesh.xdr
es = aux_nonlinear_solution_xdr_0001.xdr
execute_on = initial
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
nl_rel_tol = 1e-10
[]
[Outputs]
exodus = true
[]
[ICs]
[./u_func_ic]
function = u_xdr_func
variable = u
type = FunctionIC
[../]
[]
(test/tests/misc/check_error/function_file_test2.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_rows.csv #Will generate error because data is expected in columns
format = columns
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/porous_flow/test/tests/basic_advection/2phase.i)
# Basic advection of u in a 2-phase situation
#
# grad(P) = -2
# density * gravity = 4 * 0.25
# grad(P) - density * gravity = -3
# permeability = 10
# relative permeability = 0.5
# viscosity = 150
# so Darcy velocity = 0.1
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[P0]
[]
[P1]
[]
[]
[ICs]
[P0]
type = FunctionIC
variable = P0
function = '0'
[]
[P1]
type = FunctionIC
variable = P1
function = '2*(1-x)'
[]
[u]
type = FunctionIC
variable = u
function = 'if(x<0.1,1,0)'
[]
[]
[Kernels]
[u_dot]
type = TimeDerivative
variable = u
[]
[u_advection]
type = PorousFlowBasicAdvection
variable = u
phase = 1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = ''
number_fluid_phases = 2
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
density0 = 32
viscosity = 123
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 2e9
density0 = 4
thermal_expansion = 0
viscosity = 150.0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePP
phase0_porepressure = P0
phase1_porepressure = P1
capillary_pressure = pc
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '10 0 0 0 10 0 0 0 10'
[]
[relperm0]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[relperm1]
type = PorousFlowRelativePermeabilityConst
kr = 0.5
phase = 1
[]
[darcy_velocity]
type = PorousFlowDarcyVelocityMaterial
gravity = '0.25 0 0'
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 1
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = 0
variable = u
[]
[]
[Preconditioning]
[basic]
type = SMP
full = true
petsc_options_iname = '-pc_type -snes_rtol'
petsc_options_value = ' lu 1E-10'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 5
[]
[Outputs]
exodus = true
print_linear_residuals = false
[]
(modules/phase_field/test/tests/phase_field_kernels/SplitCHWRes.i)
#
# Test the split parsed function free enery Cahn-Hilliard Bulk kernel
# with two concentration variables and coupling through off-diagonal Onsager
# matrix coefficients
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
xmin = 0
xmax = 60
ymin = 0
ymax = 60
elem_type = QUAD4
[]
[Variables]
[./c1]
[./InitialCondition]
type = FunctionIC
function = 'cos(x/60*pi)'
[../]
[../]
[./c2]
[./InitialCondition]
type = FunctionIC
function = 'cos(y/60*pi)'
[../]
[../]
[./w1]
[../]
[./w2]
[../]
[]
[Kernels]
[./c1_res]
type = SplitCHParsed
variable = c1
f_name = F
kappa_name = kappa_c
w = w1
[../]
[./w11_res]
type = SplitCHWRes
variable = w1
mob_name = M11
[../]
[./w12_res]
type = SplitCHWRes
variable = w1
w = w2
mob_name = M12
[../]
[./c2_res]
type = SplitCHParsed
variable = c2
f_name = F
kappa_name = kappa_c
w = w2
[../]
[./w22_res]
type = SplitCHWRes
variable = w2
mob_name = M22
[../]
[./w21_res]
type = SplitCHWRes
variable = w2
w = w1
mob_name = M21
[../]
[./time1]
type = CoupledTimeDerivative
variable = w1
v = c1
[../]
[./time2]
type = CoupledTimeDerivative
variable = w2
v = c2
[../]
[]
[Materials]
[./pfmobility]
type = GenericConstantMaterial
prop_names = 'M11 M12 M21 M22 kappa_c'
prop_values = '10 2.5 20 5 40'
[../]
[./free_energy]
# equivalent to `MathFreeEnergy`
type = DerivativeParsedMaterial
f_name = F
args = 'c1 c2'
function = '0.25*(1+c1)^2*(1-c1)^2 + 0.25*(1+c2)^2*(1-c2)^2'
derivative_order = 2
[../]
[]
[Preconditioning]
# active = ' '
[./SMP]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = 'NEWTON'
petsc_options_iname = -pc_type
petsc_options_value = lu
l_max_its = 30
l_tol = 1.0e-4
nl_rel_tol = 1.0e-10
start_time = 0.0
num_steps = 2
dt = 10
[]
[Outputs]
exodus = true
[]
(test/tests/kernels/ad_coupled_value/ad_aux_coupled_value.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 4
ny = 4
[]
[Variables]
[./u]
[../]
[]
[AuxVariables]
[v]
initial_condition = 2
[]
[exact]
[]
[]
[ICs]
[exact]
type = FunctionIC
function = 'x*(2-x)'
variable = exact
[]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[./ad_coupled_value]
type = ADCoupledValueTest
variable = u
v = v
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'Newton'
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/gravity_head_2/gh_fu_02.i)
# unsaturated = true
# gravity = true
# supg = false
# transient = false
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
xmin = 0
xmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1.0E2
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 0.5
bulk_mod = 0.5E2
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.15
[../]
[./SatGas]
type = RichardsSat
s_res = 0.05
sum_s_res = 0.15
[../]
[./SUPGwater]
type = RichardsSUPGnone
[../]
[./SUPGgas]
type = RichardsSUPGnone
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
# get nonconvergence if initial condition is too crazy
[./water_ic]
type = FunctionIC
function = pwater_initial
variable = pwater
[../]
[./gas_ic]
type = FunctionIC
function = pgas_initial
variable = pgas
[../]
[]
[Kernels]
active = 'richardsfwater richardsfgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFullyUpwindFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFullyUpwindFlux
variable = pgas
[../]
[]
[AuxVariables]
[./seffgas]
[../]
[./seffwater]
[../]
[]
[AuxKernels]
[./seffgas_kernel]
type = RichardsSeffAux
pressure_vars = 'pwater pgas'
seff_UO = SeffGas
variable = seffgas
[../]
[./seffwater_kernel]
type = RichardsSeffAux
pressure_vars = 'pwater pgas'
seff_UO = SeffWater
variable = seffwater
[../]
[]
[Postprocessors]
[./mwater_init]
type = RichardsMass
variable = pwater
execute_on = timestep_begin
outputs = none
[../]
[./mgas_init]
type = RichardsMass
variable = pgas
execute_on = timestep_begin
outputs = none
[../]
[./mwater_fin]
type = RichardsMass
variable = pwater
execute_on = timestep_end
outputs = none
[../]
[./mgas_fin]
type = RichardsMass
variable = pgas
execute_on = timestep_end
outputs = none
[../]
[./mass_error_water]
type = FunctionValuePostprocessor
function = fcn_mass_error_w
outputs = none # no reason why mass should be conserved
[../]
[./mass_error_gas]
type = FunctionValuePostprocessor
function = fcn_mass_error_g
outputs = none # no reason why mass should be conserved
[../]
[./pw_left]
type = PointValue
point = '0 0 0'
variable = pwater
outputs = none
[../]
[./pw_right]
type = PointValue
point = '1 0 0'
variable = pwater
outputs = none
[../]
[./error_water]
type = FunctionValuePostprocessor
function = fcn_error_water
[../]
[./pg_left]
type = PointValue
point = '0 0 0'
variable = pgas
outputs = none
[../]
[./pg_right]
type = PointValue
point = '1 0 0'
variable = pgas
outputs = none
[../]
[./error_gas]
type = FunctionValuePostprocessor
function = fcn_error_gas
[../]
[]
[Functions]
[./pwater_initial]
type = ParsedFunction
value = 1-x/2
[../]
[./pgas_initial]
type = ParsedFunction
value = 2-x/5
[../]
[./fcn_mass_error_w]
type = ParsedFunction
value = 'abs(0.5*(mi-mf)/(mi+mf))'
vars = 'mi mf'
vals = 'mwater_init mwater_fin'
[../]
[./fcn_mass_error_g]
type = ParsedFunction
value = 'abs(0.5*(mi-mf)/(mi+mf))'
vars = 'mi mf'
vals = 'mgas_init mgas_fin'
[../]
[./fcn_error_water]
type = ParsedFunction
value = 'abs((-b*log(-(gdens0*xval+(-b*exp(-p0/b)))/b)-p1)/p1)'
vars = 'b gdens0 p0 xval p1'
vals = '1E2 -1 pw_left 1 pw_right'
[../]
[./fcn_error_gas]
type = ParsedFunction
value = 'abs((-b*log(-(gdens0*xval+(-b*exp(-p0/b)))/b)-p1)/p1)'
vars = 'b gdens0 p0 xval p1'
vals = '0.5E2 -0.5 pg_left 1 pg_right'
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
viscosity = '1E-3 0.5E-3'
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'gmres asm lu NONZERO 1E-10 1E-10 10000'
[../]
[]
[Executioner]
type = Steady
solve_type = Newton
[]
[Outputs]
execute_on = 'timestep_end'
file_base = gh_fu_02
csv = true
[]
(modules/phase_field/test/tests/GrandPotentialPFM/SinteringParabolic.i)
#input file to test the GrandPotentialSinteringMaterial using the parabolic energy profile
[Mesh]
type = GeneratedMesh
dim = 2
nx = 17
ny = 10
xmin = 0
xmax = 660
ymin = 0
ymax = 380
[]
[GlobalParams]
op_num = 2
var_name_base = gr
int_width = 40
[]
[Variables]
[./w]
[./InitialCondition]
type = FunctionIC
variable = w
function = f_w
[../]
[../]
[./phi]
[../]
[./PolycrystalVariables]
[../]
[]
[AuxVariables]
[./T]
order = CONSTANT
family = MONOMIAL
[./InitialCondition]
type = FunctionIC
variable = T
function = f_T
[../]
[../]
[]
[ICs]
[./phi_IC]
type = SpecifiedSmoothCircleIC
variable = phi
x_positions = '190 470'
y_positions = '190 190'
z_positions = ' 0 0'
radii = '150 150'
invalue = 0
outvalue = 1
[../]
[./gr0_IC]
type = SmoothCircleIC
variable = gr0
x1 = 190
y1 = 190
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[./gr1_IC]
type = SmoothCircleIC
variable = gr1
x1 = 470
y1 = 190
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[]
[Functions]
[./f_T]
type = ConstantFunction
value = 1600
[../]
[./f_w]
type = ParsedFunction
value = '1.515e-7 * x'
[../]
[]
[Materials]
# Free energy coefficients for parabolic curve
[./ks]
type = ParsedMaterial
f_name = ks
args = 'T'
constant_names = 'a b'
constant_expressions = '-0.0025 157.16'
function = 'a*T + b'
[../]
[./kv]
type = ParsedMaterial
f_name = kv
material_property_names = 'ks'
function = '10 * ks'
[../]
# Diffusivity and mobilities
[./chiD]
type = GrandPotentialTensorMaterial
f_name = chiD
solid_mobility = L
void_mobility = Lv
chi = chi
surface_energy = 19.7
c = phi
T = T
D0 = 2.0e11
GBmob0 = 1.4759e9
Q = 2.77
Em = 2.40
bulkindex = 1
gbindex = 20
surfindex = 100
[../]
# Equilibrium vacancy concentration
[./cs_eq]
type = DerivativeParsedMaterial
f_name = cs_eq
args = 'gr0 gr1 T'
constant_names = 'Ef Egb kB'
constant_expressions = '2.69 2.1 8.617343e-5'
function = 'bnds:=gr0^2 + gr1^2; cb:=exp(-Ef/kB/T); cgb:=exp(-(Ef-Egb)/kB/T);
cb + 4.0*(cgb-cb)*(1.0 - bnds)^2'
[../]
# Everything else
[./sintering]
type = GrandPotentialSinteringMaterial
chemical_potential = w
void_op = phi
Temperature = T
surface_energy = 19.7
grainboundary_energy = 9.86
void_energy_coefficient = kv
equilibrium_vacancy_concentration = cs_eq
solid_energy_model = PARABOLIC
outputs = exodus
[../]
# Concentration is only meant for output
[./c]
type = ParsedMaterial
f_name = c
material_property_names = 'hs rhos hv rhov'
constant_names = 'Va'
constant_expressions = '0.04092'
function = 'Va*(hs*rhos + hv*rhov)'
outputs = exodus
[../]
[]
[Kernels]
[./dt_gr0]
type = TimeDerivative
variable = gr0
[../]
[./dt_gr1]
type = TimeDerivative
variable = gr1
[../]
[./dt_phi]
type = TimeDerivative
variable = phi
[../]
[./dt_w]
type = TimeDerivative
variable = w
[../]
[]
[AuxKernels]
[./T_aux]
type = FunctionAux
variable = T
function = f_T
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = JFNK
dt = 1
num_steps = 2
nl_abs_tol = 1e-10
[]
[Outputs]
exodus = true
[]
(test/tests/auxkernels/linear_combination/test.i)
# All tested logic is in the aux system
# The non-linear problem is unrelated
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 10
[]
[Functions]
[./v1_func]
type = ParsedFunction
value = (1-x)/2
[../]
[./v2_func]
type = ParsedFunction
value = (1+x)/2
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./lc]
[../]
[./v1]
[../]
[./v2]
[../]
[./w1]
[../]
[./w2]
[../]
[]
[ICs]
[./v1_ic]
type = FunctionIC
variable = v1
function = v1_func
[../]
[./v2_ic]
type = FunctionIC
variable = v2
function = v2_func
[../]
[./w1_ic]
type = ConstantIC
variable = w1
value = 0.3
[../]
[./w2_ic]
type = ConstantIC
variable = w2
value = 0.5
[../]
[]
[AuxKernels]
[./lc-aux]
type = ParsedAux
variable = lc
function = 'v1*w1+v2*w2'
args = 'v1 w1 v2 w2'
execute_on = 'timestep_end'
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 1
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 2
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
[./out]
type = Exodus
[../]
[]
(modules/porous_flow/test/tests/mass_conservation/mass08.i)
# Checking that the mass postprocessor throws the correct error when a given phase index
# is too large
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[sat]
[]
[]
[AuxVariables]
[massfrac_ph0_sp0]
initial_condition = 1
[]
[massfrac_ph1_sp0]
initial_condition = 0
[]
[]
[ICs]
[pinit]
type = ConstantIC
value = 1
variable = pp
[]
[satinit]
type = FunctionIC
function = 1-x
variable = sat
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = sat
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp sat'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 0.1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = pp
phase1_saturation = sat
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac_ph0_sp0 massfrac_ph1_sp0'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[comp1_total_mass]
type = PorousFlowFluidMass
fluid_component = 1
phase = 2
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
(modules/phase_field/test/tests/MultiPhase/switchingfunction3phasematerial.i)
# This is a test of the SwitchingFunction3PhaseMaterial, a switching function
# used in a 3-phase phase-field model to prevent formation of the third phase
# at the interface between the two other phases
# See Folch and Plapp, Phys. Rev. E, v 72, 011602 (2005) for details
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
ymin = 0
ymax = 0.1
nx = 20
ny = 2
elem_type = QUAD4
[]
[GlobalParams]
derivative_order = 0
outputs = exodus
[]
[AuxVariables]
[./eta1]
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[./eta2]
[./InitialCondition]
type = FunctionIC
function = 1.0-x
[../]
[../]
[./eta3]
[./InitialCondition]
type = ConstantIC
value = 0.0
[../]
[../]
[]
[Materials]
[./h_material_1]
type = SwitchingFunction3PhaseMaterial
f_name = h_i1
eta_i = eta1
eta_j = eta2
eta_k = eta3
outputs = exodus
[../]
# Next we reverse eta2 and eta3 to make sure the switching function is symmetric
# with respect to interchanging these two, as it is designed to be
[./h_material_2]
type = SwitchingFunction3PhaseMaterial
f_name = h_i2
eta_i = eta1
eta_j = eta3
eta_k = eta2
outputs = exodus
[../]
[]
[Problem]
solve = false
kernel_coverage_check = false
[]
[Executioner]
type = Transient
num_steps = 1
[]
[Outputs]
execute_on = 'TIMESTEP_END'
exodus = true
[]
(modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/free-flow-hllc.i)
[GlobalParams]
fp = fp
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = .1
xmax = 1.1
nx = 2
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
[]
[]
[]
[Variables]
[rho]
type = MooseVariableFVReal
[]
[rho_u]
type = MooseVariableFVReal
[]
[rho_et]
type = MooseVariableFVReal
[]
[]
[ICs]
[rho]
type = FunctionIC
variable = rho
function = 'exact_rho'
[]
[rho_u]
type = FunctionIC
variable = rho_u
function = 'exact_rho_u'
[]
[rho_et]
type = FunctionIC
variable = rho_et
function = 'exact_rho_et'
[]
[]
[FVKernels]
[mass_advection]
type = CNSFVMassHLLC
variable = rho
[]
[mass_fn]
type = FVBodyForce
variable = rho
function = 'forcing_rho'
[]
[momentum_x_advection]
type = CNSFVMomentumHLLC
variable = rho_u
momentum_component = x
[]
[momentum_fn]
type = FVBodyForce
variable = rho_u
function = 'forcing_rho_u'
[]
[fluid_energy_advection]
type = CNSFVFluidEnergyHLLC
variable = rho_et
[]
[energy_fn]
type = FVBodyForce
variable = rho_et
function = 'forcing_rho_et'
[]
[]
[FVBCs]
[mass_in]
variable = rho
type = CNSFVHLLCSpecifiedMassFluxAndTemperatureMassBC
boundary = left
temperature = 'exact_T'
rhou = 'exact_rho_u'
[]
[momentum_in]
variable = rho_u
type = CNSFVHLLCSpecifiedMassFluxAndTemperatureMomentumBC
boundary = left
temperature = 'exact_T'
rhou = 'exact_rho_u'
momentum_component = 'x'
[]
[energy_in]
variable = rho_et
type = CNSFVHLLCSpecifiedMassFluxAndTemperatureFluidEnergyBC
boundary = left
temperature = 'exact_T'
rhou = 'exact_rho_u'
[]
[mass_out]
variable = rho
type = CNSFVHLLCSpecifiedPressureMassBC
boundary = right
pressure = 'exact_p'
[]
[momentum_out]
variable = rho_u
type = CNSFVHLLCSpecifiedPressureMomentumBC
boundary = right
pressure = 'exact_p'
momentum_component = 'x'
[]
[energy_out]
variable = rho_et
type = CNSFVHLLCSpecifiedPressureFluidEnergyBC
boundary = right
pressure = 'exact_p'
[]
[]
[Materials]
[var_mat]
type = ConservedVarValuesMaterial
rho = rho
rhou = rho_u
rho_et = rho_et
[]
[]
[Functions]
[exact_rho]
type = ParsedFunction
value = '3.48788261470924*cos(x)'
[]
[forcing_rho]
type = ParsedFunction
value = '-3.83667087618017*sin(1.1*x)'
[]
[exact_rho_u]
type = ParsedFunction
value = '3.48788261470924*cos(1.1*x)'
[]
[forcing_rho_u]
type = ParsedFunction
value = '-(10.6975765229419*cos(1.2*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.2*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 12.8370918275302*sin(1.2*x)/cos(x))*cos(x) + 3.48788261470924*sin(x)*cos(1.1*x)^2/cos(x)^2 - 7.67334175236034*sin(1.1*x)*cos(1.1*x)/cos(x)'
[]
[exact_rho_et]
type = ParsedFunction
value = '26.7439413073546*cos(1.2*x)'
[]
[forcing_rho_et]
type = ParsedFunction
value = '1.0*(3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.2*x))*sin(x)*cos(1.1*x)/cos(x)^2 - 1.1*(3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.2*x))*sin(1.1*x)/cos(x) + 1.0*(-(10.6975765229419*cos(1.2*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.2*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 12.8370918275302*sin(1.2*x)/cos(x))*cos(x) - 32.0927295688256*sin(1.2*x))*cos(1.1*x)/cos(x)'
[]
[exact_T]
type = ParsedFunction
value = '0.0106975765229418*cos(1.2*x)/cos(x) - 0.000697576522941848*cos(1.1*x)^2/cos(x)^2'
[]
[exact_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
[]
[]
[Executioner]
solve_type = NEWTON
type = Steady
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
nl_max_its = 50
line_search = none
nl_rel_tol = 1e-12
nl_abs_tol = 1e-12
[]
[Outputs]
exodus = true
csv = true
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho]
type = ElementL2Error
variable = rho
function = exact_rho
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho_u]
variable = rho_u
function = exact_rho_u
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2rho_et]
variable = rho_et
function = exact_rho_et
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(test/tests/markers/two_circle_marker/two_circle_marker_gaussian_ic.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./gaussian_ic]
type = FunctionIC
variable = u
function = gaussian_2d
[../]
[]
[Functions]
[./gaussian_2d]
type = ParsedFunction
value = exp(-((x-x0)*(x-x0)+(y-y0)*(y-y0))/2.0/sigma/sigma)
vars = 'sigma x0 y0'
vals = '0.05 0.35 0.25'
[../]
[]
[Kernels]
[./diff]
type = CoefDiffusion
variable = u
coef = 0.02
[../]
[./time]
type = TimeDerivative
variable = u
[../]
[]
[BCs]
[./Periodic]
[./all]
variable = u
auto_direction = 'x y'
[../]
[../]
[]
[Executioner]
type = Transient
num_steps = 6
dt = 0.1
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Adaptivity]
initial_steps = 1
initial_marker = two_circle_marker
cycles_per_step = 1
marker = two_circle_marker
max_h_level = 1
[./Markers]
[./two_circle_marker]
type = TwoCircleMarker
point1 = '0.5 0.5 0'
radius1 = 0.3
point2 = '0.35 0.25 0'
radius2 = 0.3
shut_off_time = 0.15
inside = refine
outside = coarsen
[../]
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
print_mesh_changed_info = true
[../]
[]
(modules/xfem/test/tests/switching_material/one_cut_stationary.i)
[Problem]
solve = false
[]
[XFEM]
qrule = volfrac
output_cut_plane = true
[]
[UserObjects]
[levelset_cut]
type = LevelSetCutUserObject
level_set_var = phi
negative_id = 1
positive_id = 33
[]
[]
[Mesh]
[square]
type = GeneratedMeshGenerator
dim = 2
nx = 2
ny = 2
[]
[]
[AuxVariables]
[phi]
[InitialCondition]
type = FunctionIC
function = 'x-0.213'
[]
[]
[]
[Materials]
[diffusivity_A]
type = GenericConstantMaterial
prop_names = 'A_D'
prop_values = '5'
[]
[diffusivity_B]
type = GenericConstantMaterial
prop_names = 'B_D'
prop_values = '0.5'
[]
[diff_combined]
type = XFEMCutSwitchingMaterialReal
cut_subdomain_ids = '1 33'
base_names = 'A B'
prop_name = D
geometric_cut_userobject = levelset_cut
outputs = 'exodus'
output_properties = 'D'
[]
[]
[Executioner]
type = Transient
num_steps = 1
max_xfem_update = 1
[]
[Outputs]
exodus = true
[]
(test/tests/kernels/mass_lumping/mass_lumping_jacobian.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 2
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = init_f
[../]
[]
[Kernels]
[./time_deriv]
type = MassLumpedTimeDerivative
variable = u
[../]
[./diff]
type = FuncCoefDiffusion
variable = u
coef = diff_f
[../]
[]
[Functions]
[./init_f]
type = ParsedFunction
value = max(x,0) #(x>0)
[../]
[./diff_f]
type = ParsedFunction
value = max(x,0)
[../]
[]
[Executioner]
type = Transient
end_time = 1
solve_type = 'NEWTON'
petsc_options_iname = '-snes_type'
petsc_options_value = 'test'
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_2D.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek, with antidiffusion from superbee flux limiting
# 2D version
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
xmin = 0
xmax = 1
ny = 4
ymin = 0
ymax = 0.5
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '0.1 0 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0.5 0'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
nl_max_its = 500
timestep_tolerance = 1E-3
[]
[Outputs]
print_linear_residuals = false
[out]
type = CSV
execute_on = final
[]
[]
(test/tests/time_integrators/rk-2/1d-linear.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 20
elem_type = EDGE2
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x
[../]
[./exact_fn]
type = ParsedFunction
value = t*x
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
[./TimeIntegrator]
type = ExplicitMidpoint
[../]
solve_type = 'LINEAR'
start_time = 0.0
num_steps = 10
dt = 0.001
l_tol = 1e-15
[]
[Outputs]
exodus = true
perf_graph = true
[]
(modules/porous_flow/examples/co2_intercomparison/1Dradial/properties.i)
# Liquid and gas properties for code intercomparison problem 3
#
# From Pruess et al, Code intercomparison builds confidence in
# numerical simulation models for geologic disposal of CO2, Energy 29 (2004)
#
# This test simply calculates density and viscosity of each phase for
# various pressures and salinities, as well as mass fractions of CO2 in the
# liquid phase and H2O in the gas phase.
#
# Four versions of this are run:
# 1) No CO2, 0 salt mass fraction (pure water)
# 2) Enough CO2 to form gas phase, 0 salt mass fraction (pure water)
# 3) No CO2, 0.15 salt mass fraction
# 4) Enough CO2 to form gas phase, 0.15 salt mass fraction
#
# These results compare well with detailed results presented in Pruess et al,
# Intercomparison of numerical simulation codes for geologic disposal of CO2,
# LBNL-51813 (2002)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 4
xmax = 4
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[AuxVariables]
[density_liquid]
order = CONSTANT
family = MONOMIAL
[]
[density_gas]
order = CONSTANT
family = MONOMIAL
[]
[viscosity_liquid]
order = CONSTANT
family = MONOMIAL
[]
[viscosity_gas]
order = CONSTANT
family = MONOMIAL
[]
[x1]
order = CONSTANT
family = MONOMIAL
[]
[y0]
order = CONSTANT
family = MONOMIAL
[]
[xnacl]
initial_condition = 0.0
[]
[]
[AuxKernels]
[density_liquid]
type = PorousFlowPropertyAux
variable = density_liquid
property = density
phase = 0
execute_on = timestep_end
[]
[density_gas]
type = PorousFlowPropertyAux
variable = density_gas
property = density
phase = 1
execute_on = timestep_end
[]
[viscosity_liquid]
type = PorousFlowPropertyAux
variable = viscosity_liquid
property = viscosity
phase = 0
execute_on = timestep_end
[]
[viscosity_gas]
type = PorousFlowPropertyAux
variable = viscosity_gas
property = viscosity
phase = 1
execute_on = timestep_end
[]
[x1]
type = PorousFlowPropertyAux
variable = x1
property = mass_fraction
phase = 0
fluid_component = 1
execute_on = timestep_end
[]
[y0]
type = PorousFlowPropertyAux
variable = y0
property = mass_fraction
phase = 1
fluid_component = 0
execute_on = timestep_end
[]
[]
[Variables]
[pgas]
order = CONSTANT
family = MONOMIAL
[]
[zi]
initial_condition = 0.0
[]
[]
[Functions]
[pic]
type = ParsedFunction
value = 'if(x<1,12e6,if(x<2,16e6,if(x<3,20e6,24e6)))'
[]
[]
[ICs]
[pic]
type = FunctionIC
function = pic
variable = pgas
[]
[]
[Kernels]
[diffusionp]
type = NullKernel
variable = pgas
[]
[diffusionz]
type = NullKernel
variable = zi
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pgas zi'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[fs]
type = PorousFlowBrineCO2
brine_fp = brine
co2_fp = co2
capillary_pressure = pc
[]
[]
[Modules]
[FluidProperties]
[co2]
type = CO2FluidProperties
[]
[brine]
type = BrineFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = 45
[]
[brineco2]
type = PorousFlowFluidState
gas_porepressure = pgas
z = zi
temperature_unit = Celsius
xnacl = xnacl
capillary_pressure = pc
fluid_state = fs
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu NONZERO 2 '
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
[]
[Outputs]
perf_graph = true
csv = true
execute_on = timestep_end
file_base = properties_water
[]
[VectorPostprocessors]
[vpp]
type = ElementValueSampler
variable = 'pgas density_liquid density_gas viscosity_liquid viscosity_gas x1 y0'
sort_by = x
[]
[]
(modules/phase_field/examples/multiphase/DerivativeMultiPhaseMaterial.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 40
ny = 40
nz = 0
xmin = -12
xmax = 12
ymin = -12
ymax = 12
elem_type = QUAD4
[]
[GlobalParams]
# let's output all material properties for demonstration purposes
outputs = exodus
# prefactor on the penalty function kernels. The higher this value is, the
# more rigorously the constraint is enforced
penalty = 1e3
[]
#
# These AuxVariables hold the directly calculated free energy density in the
# simulation cell. They are provided for visualization purposes.
#
[AuxVariables]
[./local_energy]
order = CONSTANT
family = MONOMIAL
[../]
[./cross_energy]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./local_free_energy]
type = TotalFreeEnergy
variable = local_energy
interfacial_vars = 'c'
kappa_names = 'kappa_c'
additional_free_energy = cross_energy
[../]
#
# Helper kernel to cpompute the gradient contribution from interfaces of order
# parameters evolved using the ACMultiInterface kernel
#
[./cross_terms]
type = CrossTermGradientFreeEnergy
variable = cross_energy
interfacial_vars = 'eta1 eta2 eta3'
#
# The interface coefficient matrix. This should be symmetrical!
#
kappa_names = 'kappa11 kappa12 kappa13
kappa21 kappa22 kappa23
kappa31 kappa32 kappa33'
[../]
[]
[Variables]
[./c]
order = FIRST
family = LAGRANGE
#
# We set up a smooth cradial concentrtaion gradient
# The concentration will quickly change to adapt to the preset order
# parameters eta1, eta2, and eta3
#
[./InitialCondition]
type = SmoothCircleIC
x1 = 0.0
y1 = 0.0
radius = 5.0
invalue = 1.0
outvalue = 0.01
int_width = 10.0
[../]
[../]
[./eta1]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
#
# Note: this initial conditions sets up a _sharp_ interface. Ideally
# we should start with a smooth interface with a width consistent
# with the kappa parameter supplied for the given interface.
#
function = 'r:=sqrt(x^2+y^2);if(r<=4,1,0)'
[../]
[../]
[./eta2]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt(x^2+y^2);if(r>4&r<=7,1,0)'
[../]
[../]
[./eta3]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt(x^2+y^2);if(r>7,1,0)'
[../]
[../]
[]
[Kernels]
#
# Cahn-Hilliard kernel for the concentration variable.
# Note that we are not using an interfcae kernel on this variable, but rather
# rely on the interface width enforced on the order parameters. This allows us
# to use a direct solve using the CahnHilliard kernel _despite_ only using first
# order elements.
#
[./c_res]
type = CahnHilliard
variable = c
f_name = F
args = 'eta1 eta2 eta3'
[../]
[./time]
type = TimeDerivative
variable = c
[../]
#
# Order parameter eta1
# Each order parameter is acted on by 4 kernels:
# 1. The stock time derivative deta_i/dt kernel
# 2. The Allen-Cahn kernel that takes a Dervative Material for the free energy
# 3. A gradient interface kernel that includes cross terms
# see http://mooseframework.org/wiki/PhysicsModules/PhaseField/DevelopingModels/MultiPhaseModels/ACMultiInterface/
# 4. A penalty contribution that forces the interface contributions h(eta)
# to sum up to unity
#
[./deta1dt]
type = TimeDerivative
variable = eta1
[../]
[./ACBulk1]
type = AllenCahn
variable = eta1
args = 'eta2 eta3 c'
mob_name = L1
f_name = F
[../]
[./ACInterface1]
type = ACMultiInterface
variable = eta1
etas = 'eta1 eta2 eta3'
mob_name = L1
kappa_names = 'kappa11 kappa12 kappa13'
[../]
[./penalty1]
type = SwitchingFunctionPenalty
variable = eta1
etas = 'eta1 eta2 eta3'
h_names = 'h1 h2 h3'
[../]
#
# Order parameter eta2
#
[./deta2dt]
type = TimeDerivative
variable = eta2
[../]
[./ACBulk2]
type = AllenCahn
variable = eta2
args = 'eta1 eta3 c'
mob_name = L2
f_name = F
[../]
[./ACInterface2]
type = ACMultiInterface
variable = eta2
etas = 'eta1 eta2 eta3'
mob_name = L2
kappa_names = 'kappa21 kappa22 kappa23'
[../]
[./penalty2]
type = SwitchingFunctionPenalty
variable = eta2
etas = 'eta1 eta2 eta3'
h_names = 'h1 h2 h3'
[../]
#
# Order parameter eta3
#
[./deta3dt]
type = TimeDerivative
variable = eta3
[../]
[./ACBulk3]
type = AllenCahn
variable = eta3
args = 'eta1 eta2 c'
mob_name = L3
f_name = F
[../]
[./ACInterface3]
type = ACMultiInterface
variable = eta3
etas = 'eta1 eta2 eta3'
mob_name = L3
kappa_names = 'kappa31 kappa32 kappa33'
[../]
[./penalty3]
type = SwitchingFunctionPenalty
variable = eta3
etas = 'eta1 eta2 eta3'
h_names = 'h1 h2 h3'
[../]
[]
[BCs]
[./Periodic]
[./All]
auto_direction = 'x y'
[../]
[../]
[]
[Materials]
# here we declare some of the model parameters: the mobilities and interface
# gradient prefactors. For this example we use arbitrary numbers. In an actual simulation
# physical mobilities would be used, and the interface gradient prefactors would
# be readjusted to the free energy magnitudes.
[./consts]
type = GenericConstantMaterial
prop_names = 'M kappa_c L1 L2 L3 kappa11 kappa12 kappa13 kappa21 kappa22 kappa23 kappa31 kappa32 kappa33'
prop_values = '0.2 0.75 1 1 1 0.75 0.75 0.75 0.75 0.75 0.75 0.75 0.75 0.75 '
[../]
# This material sums up the individual phase contributions. It is written to the output file
# (see GlobalParams section above) and can be used to check the constraint enforcement.
[./etasummat]
type = ParsedMaterial
f_name = etasum
args = 'eta1 eta2 eta3'
material_property_names = 'h1 h2 h3'
function = 'h1+h2+h3'
[../]
# The phase contribution factors for each material point are computed using the
# SwitchingFunctionMaterials. Each phase with an order parameter eta contributes h(eta)
# to the global free energy density. h is a function that switches smoothly from 0 to 1
[./switching1]
type = SwitchingFunctionMaterial
function_name = h1
eta = eta1
h_order = SIMPLE
[../]
[./switching2]
type = SwitchingFunctionMaterial
function_name = h2
eta = eta2
h_order = SIMPLE
[../]
[./switching3]
type = SwitchingFunctionMaterial
function_name = h3
eta = eta3
h_order = SIMPLE
[../]
# The barrier function adds a phase transformation energy barrier. It also
# Drives order parameters toward the [0:1] interval to avoid negative or larger than 1
# order parameters (these are set to 0 and 1 contribution by the switching functions
# above)
[./barrier]
type = MultiBarrierFunctionMaterial
etas = 'eta1 eta2 eta3'
[../]
# We use DerivativeParsedMaterials to specify three (very) simple free energy
# expressions for the three phases. All necessary derivatives are built automatically.
# In a real problem these expressions can be arbitrarily complex (or even provided
# by custom kernels).
[./phase_free_energy_1]
type = DerivativeParsedMaterial
f_name = F1
function = '(c-1)^2'
args = 'c'
[../]
[./phase_free_energy_2]
type = DerivativeParsedMaterial
f_name = F2
function = '(c-0.5)^2'
args = 'c'
[../]
[./phase_free_energy_3]
type = DerivativeParsedMaterial
f_name = F3
function = 'c^2'
args = 'c'
[../]
# The DerivativeMultiPhaseMaterial ties the phase free energies together into a global free energy.
# http://mooseframework.org/wiki/PhysicsModules/PhaseField/DevelopingModels/MultiPhaseModels/
[./free_energy]
type = DerivativeMultiPhaseMaterial
f_name = F
# we use a constant free energy (GeneriConstantmaterial property Fx)
fi_names = 'F1 F2 F3'
hi_names = 'h1 h2 h3'
etas = 'eta1 eta2 eta3'
args = 'c'
W = 1
[../]
[]
[Postprocessors]
# The total free energy of the simulation cell to observe the energy reduction.
[./total_free_energy]
type = ElementIntegralVariablePostprocessor
variable = local_energy
[../]
# for testing we also monitor the total solute amount, which should be conserved.
[./total_solute]
type = ElementIntegralVariablePostprocessor
variable = c
[../]
[]
[Preconditioning]
# This preconditioner makes sure the Jacobian Matrix is fully populated. Our
# kernels compute all Jacobian matrix entries.
# This allows us to use the Newton solver below.
[./SMP]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
scheme = 'bdf2'
# Automatic differentiation provedes a _full_ Jacobian in this example
# so we can safely use NEWTON for a fast solve
solve_type = 'NEWTON'
l_max_its = 15
l_tol = 1.0e-6
nl_max_its = 50
nl_rel_tol = 1.0e-6
nl_abs_tol = 1.0e-6
start_time = 0.0
end_time = 150.0
[./TimeStepper]
type = SolutionTimeAdaptiveDT
dt = 0.1
[../]
[]
[Debug]
# show_var_residual_norms = true
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[./table]
type = CSV
delimiter = ' '
[../]
[]
(test/tests/misc/check_error/function_file_test16.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_rows_more_data.csv
xy_in_file_only = false
y_index_in_file = 3 # will generate an error because no forth row of data
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/varying-eps-basic-kt-mixed.i)
[GlobalParams]
fp = fp
limiter = 'central_difference'
two_term_boundary_expansion = true
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = .1
xmax = .6
nx = 2
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
[]
[]
[]
[Problem]
fv_bcs_integrity_check = false
[]
[Variables]
[pressure]
type = MooseVariableFVReal
[]
[sup_mom_x]
type = MooseVariableFVReal
[]
[T_fluid]
type = MooseVariableFVReal
[]
[]
[ICs]
[pressure]
type = FunctionIC
variable = pressure
function = 'exact_p'
[]
[sup_mom_x]
type = FunctionIC
variable = sup_mom_x
function = 'exact_rho_ud'
[]
[T_fluid]
type = FunctionIC
variable = T_fluid
function = 'exact_T'
[]
[]
[FVKernels]
[mass_advection]
type = PCNSFVKT
variable = pressure
eqn = "mass"
[]
[mass_fn]
type = FVBodyForce
variable = pressure
function = 'forcing_rho'
[]
[momentum_x_advection]
type = PCNSFVKT
variable = sup_mom_x
momentum_component = x
eqn = "momentum"
[]
[eps_grad]
type = PNSFVPGradEpsilon
variable = sup_mom_x
momentum_component = 'x'
epsilon_function = 'eps'
[]
[momentum_fn]
type = FVBodyForce
variable = sup_mom_x
function = 'forcing_rho_ud'
[]
[fluid_energy_advection]
type = PCNSFVKT
variable = T_fluid
eqn = "energy"
[]
[energy_fn]
type = FVBodyForce
variable = T_fluid
function = 'forcing_rho_et'
[]
[]
[FVBCs]
[mass_left]
variable = pressure
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'mass'
[]
[momentum_left]
variable = sup_mom_x
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'momentum'
momentum_component = 'x'
[]
[energy_left]
variable = T_fluid
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'energy'
[]
[mass_right]
variable = pressure
type = PCNSFVStrongBC
boundary = right
eqn = 'mass'
pressure = 'exact_p'
[]
[momentum_right]
variable = sup_mom_x
type = PCNSFVStrongBC
boundary = right
eqn = 'momentum'
momentum_component = 'x'
pressure = 'exact_p'
[]
[energy_right]
variable = T_fluid
type = PCNSFVStrongBC
boundary = right
eqn = 'energy'
pressure = 'exact_p'
[]
# help gradient reconstruction
[pressure_right]
type = FVFunctionDirichletBC
variable = pressure
function = exact_p
boundary = 'right'
[]
[sup_mom_x_left]
type = FVFunctionDirichletBC
variable = sup_mom_x
function = exact_rho_ud
boundary = 'left'
[]
[T_fluid_left]
type = FVFunctionDirichletBC
variable = T_fluid
function = exact_T
boundary = 'left'
[]
[]
[Materials]
[var_mat]
type = PorousMixedVarMaterial
pressure = pressure
superficial_rhou = sup_mom_x
T_fluid = T_fluid
porosity = porosity
[]
[porosity]
type = GenericFunctionMaterial
prop_names = 'porosity'
prop_values = 'eps'
[]
[]
[Functions]
[exact_rho]
type = ParsedFunction
value = '3.48788261470924*cos(x)'
[]
[forcing_rho]
type = ParsedFunction
value = '-3.83667087618017*sin(1.1*x)*cos(1.3*x) - 4.53424739912202*sin(1.3*x)*cos(1.1*x)'
[]
[exact_rho_ud]
type = ParsedFunction
value = '3.48788261470924*cos(1.1*x)*cos(1.3*x)'
[]
[forcing_rho_ud]
type = ParsedFunction
value = '(-(10.6975765229419*cos(1.5*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.5*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 16.0463647844128*sin(1.5*x)/cos(x))*cos(x))*cos(1.3*x) + 3.48788261470924*sin(x)*cos(1.1*x)^2*cos(1.3*x)/cos(x)^2 - 7.67334175236034*sin(1.1*x)*cos(1.1*x)*cos(1.3*x)/cos(x) - 4.53424739912202*sin(1.3*x)*cos(1.1*x)^2/cos(x)'
[]
[exact_rho_et]
type = ParsedFunction
value = '26.7439413073546*cos(1.5*x)'
[]
[forcing_rho_et]
type = ParsedFunction
value = '1.0*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(x)*cos(1.1*x)*cos(1.3*x)/cos(x)^2 - 1.1*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(1.1*x)*cos(1.3*x)/cos(x) - 1.3*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(1.3*x)*cos(1.1*x)/cos(x) + 1.0*(-(10.6975765229419*cos(1.5*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.5*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 16.0463647844128*sin(1.5*x)/cos(x))*cos(x) - 40.1159119610319*sin(1.5*x))*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[exact_T]
type = ParsedFunction
value = '0.0106975765229418*cos(1.5*x)/cos(x) - 0.000697576522941848*cos(1.1*x)^2/cos(x)^2'
[]
[exact_eps_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)*cos(1.3*x)'
[]
[exact_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
[]
[exact_sup_vel_x]
type = ParsedFunction
value = '1.0*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[eps]
type = ParsedFunction
value = 'cos(1.3*x)'
[]
[exact_superficial_velocity]
type = ParsedVectorFunction
value_x = '1.0*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[]
[Executioner]
solve_type = NEWTON
type = Transient
num_steps = 1
dtmin = 1
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
nl_max_its = 50
line_search = bt
nl_rel_tol = 1e-12
nl_abs_tol = 1e-12
[]
[Outputs]
exodus = true
csv = true
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2pressure]
type = ElementL2Error
variable = pressure
function = exact_p
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2sup_mom_x]
variable = sup_mom_x
function = exact_rho_ud
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2T_fluid]
variable = T_fluid
function = exact_T
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(modules/navier_stokes/test/tests/finite_volume/pins/mms/porosity_change/1d-rc-continuous.i)
mu=1.5
rho=1.1
advected_interp_method='average'
velocity_interp_method='rc'
[Mesh]
[mesh]
type = CartesianMeshGenerator
dim = 1
dx = '1 1'
ix = '15 15'
[]
[]
[GlobalParams]
two_term_boundary_expansion = true
[]
[Problem]
error_on_jacobian_nonzero_reallocation = true
[]
[Variables]
[u]
type = PINSFVSuperficialVelocityVariable
initial_condition = 1
[]
[pressure]
type = INSFVPressureVariable
[]
[]
[AuxVariables]
[porosity]
family = MONOMIAL
order = CONSTANT
fv = true
[]
[]
[ICs]
[porosity_continuous]
type = FunctionIC
variable = porosity
function = smooth_jump
[]
[]
[Functions]
[smooth_jump]
type = ParsedFunction
value = '1 - 0.5 * 1 / (1 + exp(-30*(x-1)))'
[]
# Generated by compute-functions-1d.py
[exact_u]
type = ParsedFunction
value = 'cos((1/2)*x*pi)'
[]
[forcing_u]
type = ParsedFunction
value = '-mu*(-1/4*pi^2*cos((1/2)*x*pi)/(1 - 0.5/(exp(30 - 30*x) + 1)) - 15.0*pi*exp(30 - 30*x)*sin((1/2)*x*pi)/((1 - 0.5/(exp(30 - 30*x) + 1))^2*(exp(30 - 30*x) + 1)^2) - 450.0*exp(30 - 30*x)*cos((1/2)*x*pi)/((1 - 0.5/(exp(30 - 30*x) + 1))^2*(exp(30 - 30*x) + 1)^2) + 900.0*exp(60 - 60*x)*cos((1/2)*x*pi)/((1 - 0.5/(exp(30 - 30*x) + 1))^2*(exp(30 - 30*x) + 1)^3) + 450.0*exp(60 - 60*x)*cos((1/2)*x*pi)/((1 - 0.5/(exp(30 - 30*x) + 1))^3*(exp(30 - 30*x) + 1)^4)) - pi*rho*sin((1/2)*x*pi)*cos((1/2)*x*pi)/(1 - 0.5/(exp(30 - 30*x) + 1)) + 15.0*rho*exp(30 - 30*x)*cos((1/2)*x*pi)^2/((1 - 0.5/(exp(30 - 30*x) + 1))^2*(exp(30 - 30*x) + 1)^2) + (1 - 0.5/(exp(30 - 30*x) + 1))*cos(x)'
vars = 'mu rho'
vals = '${mu} ${rho}'
[]
[exact_p]
type = ParsedFunction
value = 'sin(x)'
[]
[forcing_p]
type = ParsedFunction
value = '-1/2*pi*rho*sin((1/2)*x*pi)'
vars = 'rho'
vals = '${rho}'
[]
[]
[FVKernels]
inactive = 'u_pressure_porosity u_pressure_porosity_gradient'
[mass]
type = PINSFVMassAdvection
variable = pressure
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
vel = 'velocity'
pressure = pressure
u = u
mu = ${mu}
rho = ${rho}
porosity = porosity
smooth_porosity = true
[]
[mass_forcing]
type = FVBodyForce
variable = pressure
function = forcing_p
[]
[u_advection]
type = PINSFVMomentumAdvection
variable = u
advected_quantity = 'rhou'
vel = 'velocity'
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
pressure = pressure
u = u
mu = ${mu}
rho = ${rho}
porosity = porosity
smooth_porosity = true
[]
[u_viscosity]
type = PINSFVMomentumDiffusion
variable = u
mu = ${mu}
porosity = porosity
vel = 'velocity'
momentum_component = 'x'
smooth_porosity = true
[]
# Option 1: eps * pressure gradient
[u_pressure]
type = PINSFVMomentumPressure
variable = u
pressure = pressure
porosity = porosity
momentum_component = 'x'
[]
# Option 2: gradient (eps * pressure) - P * gradient(eps)
[u_pressure_porosity]
type = PINSFVMomentumPressureFlux
variable = u
pressure = pressure
porosity = porosity
momentum_component = 'x'
[]
[u_pressure_porosity_gradient]
type = PINSFVMomentumPressurePorosityGradient
variable = u
pressure = pressure
porosity = porosity
momentum_component = 'x'
[]
[u_forcing]
type = FVBodyForce
variable = u
function = forcing_u
[]
[]
[FVBCs]
[inlet-u]
type = INSFVInletVelocityBC
boundary = 'left'
variable = u
function = 'exact_u'
[]
[outlet_p]
type = INSFVOutletPressureBC
boundary = 'right'
variable = pressure
function = 'exact_p'
[]
[]
[Materials]
[ins_fv]
type = INSFVMaterial
u = 'u'
pressure = 'pressure'
rho = ${rho}
[]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
petsc_options_iname = '-pc_type -ksp_gmres_restart -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm 200 lu NONZERO'
line_search = 'none'
# ksp_gmres_restart bumped to 200 for linear convergence
nl_max_its = 100
[]
[Postprocessors]
[inlet_p]
type = SideAverageValue
variable = 'pressure'
boundary = 'left'
[]
[outlet-u]
type = SideIntegralVariablePostprocessor
variable = u
boundary = 'right'
[]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2u]
type = ElementL2Error
variable = u
function = exact_u
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2p]
variable = pressure
function = exact_p
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
[Outputs]
exodus = true
csv = true
[]
(test/tests/functions/image_function/threshold.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
threshold = 2.7e4
upper_value = 1
lower_value = -1
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/level_set/examples/rotating_circle/circle_rotate_supg.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 32
ny = 32
uniform_refine = 2
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[Variables]
[./phi]
[../]
[]
[Functions]
[./phi_exact]
type = LevelSetOlssonBubble
epsilon = 0.03
center = '0 0.5 0'
radius = 0.15
[../]
[./velocity_func]
type = ParsedVectorFunction
value_x = '4*y'
value_y = '-4*x'
[../]
[]
[ICs]
[./phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[../]
[./vel_ic]
type = VectorFunctionIC
variable = velocity
function = velocity_func
[]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./advection]
type = LevelSetAdvection
velocity = velocity
variable = phi
[../]
[./advection_supg]
type = LevelSetAdvectionSUPG
velocity = velocity
variable = phi
[../]
[./time_supg]
type = LevelSetTimeDerivativeSUPG
velocity = velocity
variable = phi
[../]
[]
[Postprocessors]
[./area]
type = LevelSetVolume
threshold = 0.5
variable = phi
location = outside
execute_on = 'initial timestep_end'
[../]
[./cfl]
type = LevelSetCFLCondition
velocity = velocity
execute_on = 'initial'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
start_time = 0
end_time = 1.570796
scheme = crank-nicolson
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
[./TimeStepper]
type = PostprocessorDT
postprocessor = cfl
scale = 0.8
[../]
[]
[Outputs]
csv = true
exodus = true
[]
(modules/phase_field/test/tests/free_energy_material/RegularSolutionFreeEnergy_plog.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 50
xmax = 1
[]
[Variables]
[./c]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = c
[../]
[]
[BCs]
[./left]
type = FunctionDirichletBC
variable = c
boundary = left
function = x
[../]
[./right]
type = FunctionDirichletBC
variable = c
boundary = right
function = x
[../]
[]
[Materials]
[./free_energy]
type = RegularSolutionFreeEnergy
f_name = F
c = c
outputs = out
log_tol = 0.2
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
l_max_its = 1
nl_max_its = 1
nl_abs_tol = 1
[]
[Outputs]
execute_on = 'timestep_end'
[./out]
type = Exodus
execute_on = timestep_end
[../]
[]
(modules/porous_flow/test/tests/jacobian/fflux10.i)
# 1phase, 3components, constant viscosity, constant insitu permeability
# density with constant bulk, BW relative perm, nonzero gravity, unsaturated with BW
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
xmin = 0
xmax = 1
ny = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[massfrac0]
[]
[massfrac1]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = -0.7+x+y
[]
[massfrac0]
type = RandomIC
variable = massfrac0
min = 0
max = 0.3
[]
[massfrac1]
type = RandomIC
variable = massfrac1
min = 0
max = 0.4
[]
[]
[Kernels]
[flux0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pp
gravity = '-1 -0.1 0'
[]
[flux1]
type = PorousFlowAdvectiveFlux
fluid_component = 1
variable = massfrac0
gravity = '-1 -0.1 0'
[]
[flux2]
type = PorousFlowAdvectiveFlux
fluid_component = 2
variable = massfrac1
gravity = '-1 -0.1 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp massfrac0 massfrac1'
number_fluid_phases = 1
number_fluid_components = 3
[]
[pc]
type = PorousFlowCapillaryPressureBW
Sn = 0.05
Ss = 0.9
las = 2.2
C = 1.5
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.5
density0 = 1
thermal_expansion = 0
viscosity = 1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac0 massfrac1'
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1 0 0 0 2 0 0 0 3'
[]
[relperm]
type = PorousFlowRelativePermeabilityBW
Sn = 0.05
Ss = 0.9
Kn = 0.02
Ks = 0.95
C = 1.5
phase = 0
[]
[]
[Preconditioning]
active = check
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000'
[]
[check]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000 test'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
exodus = false
[]
(modules/richards/test/tests/buckley_leverett/bl01_lumped.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2.0E6
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.8
al = 1E-4
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[AuxKernels]
active = 'calculate_seff'
[./calculate_seff]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffVG
pressure_vars = pressure
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[BCs]
active = 'left'
[./left]
type = DirichletBC
variable = pressure
boundary = left
value = 980000
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsLumpedMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Functions]
active = 'initial_pressure'
[./initial_pressure]
type = ParsedFunction
value = max((1000000-x/5*1000000)-20000,-20000)
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'andy'
[./andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 20'
[../]
[]
[Executioner]
type = Transient
end_time = 50
dt = 2
snesmf_reuse_base = false
[]
[Outputs]
file_base = bl01_lumped
execute_on = 'initial timestep_end final'
interval = 10000
exodus = true
[]
(test/tests/materials/derivative_material_interface/ad_construction_order.i)
#
# Test the the getDefaultMaterialProperty in DerivativeMaterialInterface.
# This test should only pass, if the construction order of the Materials
# using this interface does not influence the outcome.
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 5
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 0.1
elem_type = QUAD4
[]
[GlobalParams]
derivative_order = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[]
[Kernels]
[./dummy1]
type = ADDiffusion
variable = c
[../]
[./dummy2]
type = ADTimeDerivative
variable = c
[../]
[]
[Materials]
# derivatives used both before and after being declared
[./sum_a_1]
type = ADDerivativeSumMaterial
f_name = Fa1
sum_materials = 'Fa'
args = 'c'
outputs = exodus
[../]
[./free_energy_a]
type = ADDerivativeParsedMaterial
f_name = Fa
args = 'c'
function = 'c^4'
[../]
[./sum_a_2]
type = ADDerivativeSumMaterial
f_name = Fa2
sum_materials = 'Fa'
args = 'c'
outputs = exodus
[../]
# derivatives declared after being used
[./sum_b_1]
type = ADDerivativeSumMaterial
f_name = Fb1
sum_materials = 'Fb'
args = 'c'
outputs = exodus
[../]
[./free_energy_b]
type = ADDerivativeParsedMaterial
f_name = Fb
args = 'c'
function = 'c^4'
[../]
# derivatives declared before being used
[./free_energy_c]
type = ADDerivativeParsedMaterial
f_name = Fc
args = 'c'
function = 'c^4'
[../]
[./sum_c_2]
type = ADDerivativeSumMaterial
f_name = Fc2
sum_materials = 'Fc'
args = 'c'
outputs = exodus
[../]
# non-existing derivatives
[./free_energy_d]
type = ADParsedMaterial
f_name = Fd
args = 'c'
function = 'c^4'
[../]
[./sum_d_1]
type = ADDerivativeSumMaterial
f_name = Fd1
sum_materials = 'Fd'
args = 'c'
outputs = exodus
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = 'NEWTON'
num_steps = 1
dt = 1e-5
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(modules/xfem/test/tests/moving_interface/phase_transition_3d.i)
[GlobalParams]
order = FIRST
family = LAGRANGE
[]
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 3
nx = 11
ny = 1
nz = 1
xmin = 0.0
xmax = 20.0
ymin = 0.0
ymax = 5.0
zmin = 0.0
zmax = 5.0
elem_type = HEX8
[]
[]
[XFEM]
qrule = volfrac
output_cut_plane = true
[]
[UserObjects]
[velocity]
type = XFEMPhaseTransitionMovingInterfaceVelocity
diffusivity_at_positive_level_set = 5
diffusivity_at_negative_level_set = 1
equilibrium_concentration_jump = 1
value_at_interface_uo = value_uo
[]
[value_uo]
type = NodeValueAtXFEMInterface
variable = 'u'
interface_mesh_cut_userobject = 'cut_mesh'
execute_on = TIMESTEP_END
level_set_var = ls
[]
[cut_mesh]
type = InterfaceMeshCut3DUserObject
mesh_file = flat_interface_2d.e
interface_velocity_uo = velocity
heal_always = true
[]
[]
[Variables]
[u]
[]
[]
[ICs]
[ic_u]
type = FunctionIC
variable = u
function = 'if(x<5.01, 2, 1)'
[]
[]
[AuxVariables]
[ls]
order = FIRST
family = LAGRANGE
[]
[]
[Constraints]
[u_constraint]
type = XFEMEqualValueAtInterface
geometric_cut_userobject = 'cut_mesh'
use_displaced_mesh = false
variable = u
value = 2
alpha = 1e6
[]
[]
[Kernels]
[diff]
type = MatDiffusion
variable = u
diffusivity = diffusion_coefficient
[]
[time]
type = TimeDerivative
variable = u
[]
[]
[AuxKernels]
[ls]
type = MeshCutLevelSetAux
mesh_cut_user_object = cut_mesh
variable = ls
execute_on = 'TIMESTEP_BEGIN'
[]
[]
[Materials]
[diffusivity_A]
type = GenericConstantMaterial
prop_names = A_diffusion_coefficient
prop_values = 5
[]
[diffusivity_B]
type = GenericConstantMaterial
prop_names = B_diffusion_coefficient
prop_values = 1
[]
[diff_combined]
type = LevelSetBiMaterialReal
levelset_positive_base = 'A'
levelset_negative_base = 'B'
level_set_var = ls
prop_name = diffusion_coefficient
[]
[]
[BCs]
# Define boundary conditions
[left_u]
type = DirichletBC
variable = u
value = 2
boundary = left
[]
[right_u]
type = NeumannBC
variable = u
boundary = right
value = 0
[]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
line_search = 'none'
l_tol = 1e-3
nl_max_its = 15
nl_rel_tol = 1e-8
nl_abs_tol = 1e-8
start_time = 0.0
dt = 1
num_steps = 5
max_xfem_update = 1
[]
[Outputs]
execute_on = timestep_end
exodus = true
perf_graph = true
csv = true
[]
(modules/richards/test/tests/user_objects/uo1.i)
# Relative-permeability User objects give the correct value
# (note that here p is x, where x runs between 0.01 and 0.99
# and that seff is p in the aux vars)
#
# If you want to add another test for another UserObject
# then add the UserObject, add a Function defining the expected result,
# add an AuxVariable and AuxKernel that will record the UserObjects value
# and finally add a NodalL2Error that compares this with the Function.
[UserObjects]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermPower5]
type = RichardsRelPermPower
simm = 0.0
n = 5
[../]
[./RelPermVG]
type = RichardsRelPermVG
simm = 0.0
m = 0.8
[../]
[./RelPermVG1]
type = RichardsRelPermVG1
simm = 0.0
m = 0.8
scut = 1E-6 # then we get a cubic
[../]
[./RelPermBW]
type = RichardsRelPermBW
Sn = 0.05
Ss = 0.95
Kn = 0.0
Ks = 1.0
C = 1.5
[../]
[./RelPermMonomial]
type = RichardsRelPermMonomial
simm = 0.0
n = 3
[../]
[./RelPermPowerGas]
type = RichardsRelPermPowerGas
simm = 0.0
n = 5
[../]
[./Q2PRelPermPowerGas]
type = Q2PRelPermPowerGas
simm = 0.0
n = 5
[../]
[./RelPermMonomial_zero]
type = RichardsRelPermMonomial
simm = 0.1
n = 0
zero_to_the_zero = 0
[../]
# following are unimportant in this test
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.8
al = 1E-6
[../]
[./RelPermPower_unimportant]
type = RichardsRelPermPower
simm = 0.10101
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.054321
sum_s_res = 0.054321
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E5
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = x
[../]
[./answer_RelPermPower]
type = ParsedFunction
value = ((n+1)*(x^n))-(n*(x^(n+1)))
vars = 'n'
vals = '2'
[../]
[./answer_dRelPermPower]
type = GradParsedFunction
direction = '1E-4 0 0'
value = ((n+1)*(x^n))-(n*(x^(n+1)))
vars = 'n'
vals = '2'
[../]
[./answer_d2RelPermPower]
type = Grad2ParsedFunction
direction = '1E-3 0 0'
value = ((n+1)*(x^n))-(n*(x^(n+1)))
vars = 'n'
vals = '2'
[../]
[./answer_RelPermPower5]
type = ParsedFunction
value = ((n+1)*(x^n))-(n*(x^(n+1)))
vars = 'n'
vals = '5'
[../]
[./answer_dRelPermPower5]
type = GradParsedFunction
direction = '1E-4 0 0'
value = ((n+1)*(x^n))-(n*(x^(n+1)))
vars = 'n'
vals = '5'
[../]
[./answer_d2RelPermPower5]
type = Grad2ParsedFunction
direction = '1E-5 0 0'
value = ((n+1)*(x^n))-(n*(x^(n+1)))
vars = 'n'
vals = '5'
[../]
[./answer_RelPermVG]
type = ParsedFunction
value = (x^(0.5))*(1-(1-(x^(1.0/m)))^m)^2
vars = 'm'
vals = '0.8'
[../]
[./answer_dRelPermVG]
type = GradParsedFunction
direction = '1E-4 0 0'
value = (x^(0.5))*(1-(1-(x^(1.0/m)))^m)^2
vars = 'm'
vals = '0.8'
[../]
[./answer_d2RelPermVG]
type = Grad2ParsedFunction
direction = '1E-5 0 0'
value = (x^(0.5))*(1-(1-(x^(1.0/m)))^m)^2
vars = 'm'
vals = '0.8'
[../]
[./answer_RelPermVG1]
type = ParsedFunction
value = x^3
[../]
[./answer_dRelPermVG1]
type = GradParsedFunction
direction = '1E-4 0 0'
value = x^3
[../]
[./answer_d2RelPermVG1]
type = Grad2ParsedFunction
direction = '1E-5 0 0'
value = x^3
[../]
[./answer_RelPermBW]
type = ParsedFunction
value = if(x>ss,1,if(x<sn,0,kn+(((x-sn)/(ss-sn))^2)*(c-1)*(ks-kn)/(c-((x-sn)/(ss-sn)))))
vars = 'kn ks c sn ss'
vals = '0 1 1.5 0.05 0.95'
[../]
[./answer_dRelPermBW]
type = GradParsedFunction
direction = '1E-4 0 0'
value = if(x>ss,1,if(x<sn,0,kn+(((x-sn)/(ss-sn))^2)*(c-1)*(ks-kn)/(c-((x-sn)/(ss-sn)))))
vars = 'kn ks c sn ss'
vals = '0 1 1.5 0.05 0.95'
[../]
[./answer_d2RelPermBW]
type = Grad2ParsedFunction
direction = '1E-5 0 0'
value = if(x>ss,1,if(x<sn,0,kn+(((x-sn)/(ss-sn))^2)*(c-1)*(ks-kn)/(c-((x-sn)/(ss-sn)))))
vars = 'kn ks c sn ss'
vals = '0 1 1.5 0.05 0.95'
[../]
[./answer_RelPermMonomial]
type = ParsedFunction
value = x^n
vars = 'n'
vals = '3'
[../]
[./answer_dRelPermMonomial]
type = GradParsedFunction
direction = '1E-4 0 0'
value = x^n
vars = 'n'
vals = '3'
[../]
[./answer_d2RelPermMonomial]
type = Grad2ParsedFunction
direction = '1E-3 0 0'
value = x^n
vars = 'n'
vals = '3'
[../]
[./answer_RelPermMonomial_zero]
type = ParsedFunction
value = if(x>simm,1,0)
vars = 'simm'
vals = '0.1'
[../]
[./answer_dRelPermMonomial_zero]
type = GradParsedFunction
direction = '1E-4 0 0'
value = if(x>simm,1,0)
vars = 'simm'
vals = '0.1'
[../]
[./answer_d2RelPermMonomial_zero]
type = Grad2ParsedFunction
direction = '1E-3 0 0'
value = if(x>simm,1,0)
vars = 'simm'
vals = '0.1'
[../]
[./answer_RelPermPowerGas]
type = ParsedFunction
value = 1-((n+1)*((1-x)^n))+(n*((1-x)^(n+1)))
vars = 'n'
vals = '5'
[../]
[./answer_dRelPermPowerGas]
type = GradParsedFunction
direction = '1E-4 0 0'
value = 1-((n+1)*((1-x)^n))+(n*((1-x)^(n+1)))
vars = 'n'
vals = '5'
[../]
[./answer_d2RelPermPowerGas]
type = Grad2ParsedFunction
direction = '1E-5 0 0'
value = 1-((n+1)*((1-x)^n))+(n*((1-x)^(n+1)))
vars = 'n'
vals = '5'
[../]
[./answer_Q2PRelPermPowerGas]
type = ParsedFunction
value = 1-((n+1)*(x^n))+(n*(x^(n+1)))
vars = 'n'
vals = '5'
[../]
[./answer_dQ2PRelPermPowerGas]
type = GradParsedFunction
direction = '1E-4 0 0'
value = 1-((n+1)*(x^n))+(n*(x^(n+1)))
vars = 'n'
vals = '5'
[../]
[./answer_d2Q2PRelPermPowerGas]
type = Grad2ParsedFunction
direction = '1E-5 0 0'
value = 1-((n+1)*(x^n))+(n*(x^(n+1)))
vars = 'n'
vals = '5'
[../]
[]
[AuxVariables]
[./RelPermPower_Aux]
[../]
[./dRelPermPower_Aux]
[../]
[./d2RelPermPower_Aux]
[../]
[./RelPermPower5_Aux]
[../]
[./dRelPermPower5_Aux]
[../]
[./d2RelPermPower5_Aux]
[../]
[./RelPermVG_Aux]
[../]
[./dRelPermVG_Aux]
[../]
[./d2RelPermVG_Aux]
[../]
[./RelPermVG1_Aux]
[../]
[./dRelPermVG1_Aux]
[../]
[./d2RelPermVG1_Aux]
[../]
[./RelPermBW_Aux]
[../]
[./dRelPermBW_Aux]
[../]
[./d2RelPermBW_Aux]
[../]
[./RelPermMonomial_Aux]
[../]
[./dRelPermMonomial_Aux]
[../]
[./d2RelPermMonomial_Aux]
[../]
[./RelPermPowerGas_Aux]
[../]
[./dRelPermPowerGas_Aux]
[../]
[./d2RelPermPowerGas_Aux]
[../]
[./Q2PRelPermPowerGas_Aux]
[../]
[./dQ2PRelPermPowerGas_Aux]
[../]
[./d2Q2PRelPermPowerGas_Aux]
[../]
[./RelPermMonomial_zero_Aux]
[../]
[./dRelPermMonomial_zero_Aux]
[../]
[./d2RelPermMonomial_zero_Aux]
[../]
[./check_Aux]
[../]
[]
[AuxKernels]
[./RelPermPower_AuxK]
type = RichardsRelPermAux
variable = RelPermPower_Aux
relperm_UO = RelPermPower
seff_var = pressure
[../]
[./dRelPermPower_AuxK]
type = RichardsRelPermPrimeAux
variable = dRelPermPower_Aux
relperm_UO = RelPermPower
seff_var = pressure
[../]
[./d2RelPermPower_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2RelPermPower_Aux
relperm_UO = RelPermPower
seff_var = pressure
[../]
[./RelPermPower5_AuxK]
type = RichardsRelPermAux
variable = RelPermPower5_Aux
relperm_UO = RelPermPower5
seff_var = pressure
[../]
[./dRelPermPower5_AuxK]
type = RichardsRelPermPrimeAux
variable = dRelPermPower5_Aux
relperm_UO = RelPermPower5
seff_var = pressure
[../]
[./d2RelPermPower5_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2RelPermPower5_Aux
relperm_UO = RelPermPower5
seff_var = pressure
[../]
[./RelPermVG_AuxK]
type = RichardsRelPermAux
variable = RelPermVG_Aux
relperm_UO = RelPermVG
seff_var = pressure
[../]
[./dRelPermVG_AuxK]
type = RichardsRelPermPrimeAux
variable = dRelPermVG_Aux
relperm_UO = RelPermVG
seff_var = pressure
[../]
[./d2RelPermVG_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2RelPermVG_Aux
relperm_UO = RelPermVG
seff_var = pressure
[../]
[./RelPermVG1_AuxK]
type = RichardsRelPermAux
variable = RelPermVG1_Aux
relperm_UO = RelPermVG1
seff_var = pressure
[../]
[./dRelPermVG1_AuxK]
type = RichardsRelPermPrimeAux
variable = dRelPermVG1_Aux
relperm_UO = RelPermVG1
seff_var = pressure
[../]
[./d2RelPermVG1_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2RelPermVG1_Aux
relperm_UO = RelPermVG1
seff_var = pressure
[../]
[./RelPermBW_AuxK]
type = RichardsRelPermAux
variable = RelPermBW_Aux
relperm_UO = RelPermBW
seff_var = pressure
[../]
[./dRelPermBW_AuxK]
type = RichardsRelPermPrimeAux
variable = dRelPermBW_Aux
relperm_UO = RelPermBW
seff_var = pressure
[../]
[./d2RelPermBW_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2RelPermBW_Aux
relperm_UO = RelPermBW
seff_var = pressure
[../]
[./RelPermMonomial_AuxK]
type = RichardsRelPermAux
variable = RelPermMonomial_Aux
relperm_UO = RelPermMonomial
seff_var = pressure
[../]
[./dRelPermMonomial_AuxK]
type = RichardsRelPermPrimeAux
variable = dRelPermMonomial_Aux
relperm_UO = RelPermMonomial
seff_var = pressure
[../]
[./d2RelPermMonomial_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2RelPermMonomial_Aux
relperm_UO = RelPermMonomial
seff_var = pressure
[../]
[./RelPermPowerGas_AuxK]
type = RichardsRelPermAux
variable = RelPermPowerGas_Aux
relperm_UO = RelPermPowerGas
seff_var = pressure
[../]
[./dRelPermPowerGas_AuxK]
type = RichardsRelPermPrimeAux
variable = dRelPermPowerGas_Aux
relperm_UO = RelPermPowerGas
seff_var = pressure
[../]
[./d2RelPermPowerGas_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2RelPermPowerGas_Aux
relperm_UO = RelPermPowerGas
seff_var = pressure
[../]
[./Q2PRelPermPowerGas_AuxK]
type = RichardsRelPermAux
variable = Q2PRelPermPowerGas_Aux
relperm_UO = Q2PRelPermPowerGas
seff_var = pressure
[../]
[./dQ2PRelPermPowerGas_AuxK]
type = RichardsRelPermPrimeAux
variable = dQ2PRelPermPowerGas_Aux
relperm_UO = Q2PRelPermPowerGas
seff_var = pressure
[../]
[./d2Q2PRelPermPowerGas_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2Q2PRelPermPowerGas_Aux
relperm_UO = Q2PRelPermPowerGas
seff_var = pressure
[../]
[./RelPermMonomial_zero_AuxK]
type = RichardsRelPermAux
variable = RelPermMonomial_zero_Aux
relperm_UO = RelPermMonomial_zero
seff_var = pressure
[../]
[./dRelPermMonomial_zero_AuxK]
type = RichardsRelPermPrimeAux
variable = dRelPermMonomial_zero_Aux
relperm_UO = RelPermMonomial_zero
seff_var = pressure
[../]
[./d2RelPermMonomial_zero_AuxK]
type = RichardsRelPermPrimePrimeAux
variable = d2RelPermMonomial_zero_Aux
relperm_UO = RelPermMonomial_zero
seff_var = pressure
[../]
[./check_AuxK]
type = FunctionAux
variable = check_Aux
function = answer_RelPermBW
[../]
[]
[Postprocessors]
[./cf_RelPermPower]
type = NodalL2Error
function = answer_RelPermPower
variable = RelPermPower_Aux
[../]
[./cf_dRelPermPower]
type = NodalL2Error
function = answer_dRelPermPower
variable = dRelPermPower_Aux
[../]
[./cf_d2RelPermPower]
type = NodalL2Error
function = answer_d2RelPermPower
variable = d2RelPermPower_Aux
[../]
[./cf_RelPermPower5]
type = NodalL2Error
function = answer_RelPermPower5
variable = RelPermPower5_Aux
[../]
[./cf_dRelPermPower5]
type = NodalL2Error
function = answer_dRelPermPower5
variable = dRelPermPower5_Aux
[../]
[./cf_d2RelPermPower5]
type = NodalL2Error
function = answer_d2RelPermPower5
variable = d2RelPermPower5_Aux
[../]
[./cf_RelPermVG]
type = NodalL2Error
function = answer_RelPermVG
variable = RelPermVG_Aux
[../]
[./cf_dRelPermVG]
type = NodalL2Error
function = answer_dRelPermVG
variable = dRelPermVG_Aux
[../]
[./cf_d2RelPermVG]
type = NodalL2Error
function = answer_d2RelPermVG
variable = d2RelPermVG_Aux
[../]
[./cf_RelPermVG1]
type = NodalL2Error
function = answer_RelPermVG1
variable = RelPermVG1_Aux
[../]
[./cf_dRelPermVG1]
type = NodalL2Error
function = answer_dRelPermVG1
variable = dRelPermVG1_Aux
[../]
[./cf_d2RelPermVG1]
type = NodalL2Error
function = answer_d2RelPermVG1
variable = d2RelPermVG1_Aux
[../]
[./cf_RelPermBW]
type = NodalL2Error
function = answer_RelPermBW
variable = RelPermBW_Aux
[../]
[./cf_dRelPermBW]
type = NodalL2Error
function = answer_dRelPermBW
variable = dRelPermBW_Aux
[../]
[./cf_d2RelPermBW]
type = NodalL2Error
function = answer_d2RelPermBW
variable = d2RelPermBW_Aux
[../]
[./cf_RelPermMonomial]
type = NodalL2Error
function = answer_RelPermMonomial
variable = RelPermMonomial_Aux
[../]
[./cf_dRelPermMonomial]
type = NodalL2Error
function = answer_dRelPermMonomial
variable = dRelPermMonomial_Aux
[../]
[./cf_d2RelPermMonomial]
type = NodalL2Error
function = answer_d2RelPermMonomial
variable = d2RelPermMonomial_Aux
[../]
[./cf_RelPermPowerGas]
type = NodalL2Error
function = answer_RelPermPowerGas
variable = RelPermPowerGas_Aux
[../]
[./cf_dRelPermPowerGas]
type = NodalL2Error
function = answer_dRelPermPowerGas
variable = dRelPermPowerGas_Aux
[../]
[./cf_d2RelPermPowerGas]
type = NodalL2Error
function = answer_d2RelPermPowerGas
variable = d2RelPermPowerGas_Aux
[../]
[./cf_Q2PRelPermPowerGas]
type = NodalL2Error
function = answer_Q2PRelPermPowerGas
variable = Q2PRelPermPowerGas_Aux
[../]
[./cf_dQ2PRelPermPowerGas]
type = NodalL2Error
function = answer_dQ2PRelPermPowerGas
variable = dQ2PRelPermPowerGas_Aux
[../]
[./cf_d2Q2PRelPermPowerGas]
type = NodalL2Error
function = answer_d2Q2PRelPermPowerGas
variable = d2Q2PRelPermPowerGas_Aux
[../]
[./cf_RelPermMonomial_zero]
type = NodalL2Error
function = answer_RelPermMonomial_zero
variable = RelPermMonomial_zero_Aux
[../]
[./cf_dRelPermMonomial_zero]
type = NodalL2Error
function = answer_dRelPermMonomial_zero
variable = dRelPermMonomial_zero_Aux
[../]
[./cf_d2RelPermMonomial_zero]
type = NodalL2Error
function = answer_d2RelPermMonomial_zero
variable = d2RelPermMonomial_zero_Aux
[../]
[]
#############################################################################
#
# Following is largely unimportant as we are not running an actual similation
#
#############################################################################
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0.01
xmax = 0.99
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
richardsVarNames_UO = PPNames
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
richardsVarNames_UO = PPNames
variable = pressure
[../]
[]
[Materials]
[./unimportant_material]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-20 0 0 0 1E-20 0 0 0 1E-20'
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower_unimportant
sat_UO = Saturation
seff_UO = SeffVG
SUPG_UO = SUPGstandard
viscosity = 1E-3
gravity = '0 0 -10'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./does_nothing]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E50 1E50 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
num_steps = 1
dt = 1E-100
[]
[Outputs]
execute_on = 'timestep_end'
active = 'csv'
file_base = uo1
[./csv]
type = CSV
[../]
[./exodus]
type = Exodus
hide = pressure
[../]
[]
(test/tests/bcs/coupled_var_neumann/coupled_var_neumann.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
ymin = 0
ymax = 1
nx = 10
ny = 10
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[AuxVariables]
[./coupled_bc_var]
[../]
[]
[ICs]
[./coupled_bc_var]
type = FunctionIC
variable = coupled_bc_var
function = set_coupled_bc_var
[../]
[]
[Functions]
[./set_coupled_bc_var]
type = ParsedFunction
value = 'y - 0.5'
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = CoupledVarNeumannBC
variable = u
boundary = 1
v = coupled_bc_var
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/heat_advection/heat_advection_1d_KT.i)
# 1phase, heat advecting with a moving fluid
# Using the Kuzmin-Turek stabilization scheme
[Mesh]
type = GeneratedMesh
dim = 1
nx = 50
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[temp]
initial_condition = 200
[]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = '1-x'
[]
[]
[BCs]
[pp0]
type = DirichletBC
variable = pp
boundary = left
value = 1
[]
[pp1]
type = DirichletBC
variable = pp
boundary = right
value = 0
[]
[spit_heat]
type = DirichletBC
variable = temp
boundary = left
value = 300
[]
[suck_heat]
type = DirichletBC
variable = temp
boundary = right
value = 200
[]
[]
[Kernels]
[mass_dot]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[fluid_advection]
type = PorousFlowFluxLimitedTVDAdvection
variable = pp
advective_flux_calculator = fluid_advective_flux
[]
[energy_dot]
type = PorousFlowEnergyTimeDerivative
variable = temp
[]
[heat_advection]
type = PorousFlowFluxLimitedTVDAdvection
variable = temp
advective_flux_calculator = heat_advective_flux
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.6
alpha = 1.3
[]
[fluid_advective_flux]
type = PorousFlowAdvectiveFluxCalculatorSaturated
flux_limiter_type = superbee
[]
[heat_advective_flux]
type = PorousFlowAdvectiveFluxCalculatorSaturatedHeat
flux_limiter_type = superbee
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 100
density0 = 1000
viscosity = 4.4
thermal_expansion = 0
cv = 2
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.2
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 1.0
density = 125
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 2 0 0 0 3'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[massfrac]
type = PorousFlowMassFraction
[]
[PS]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'gmres bjacobi 1E-15 1E-10 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 0.01
end_time = 0.6
[]
[VectorPostprocessors]
[T]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 51
sort_by = x
variable = temp
[]
[]
[Outputs]
file_base = heat_advection_1d_KT
[csv]
type = CSV
sync_times = '0.1 0.6'
sync_only = true
[]
[]
(modules/porous_flow/test/tests/numerical_diffusion/fully_saturated_action.i)
# Using the fully-saturated action, which does mass lumping but no upwinding
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[PorousFlowFullySaturated]
porepressure = porepressure
coupling_type = Hydro
gravity = '0 0 0'
fp = the_simple_fluid
mass_fraction_vars = tracer
stabilization = none
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-1
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/porous_flow/test/tests/heat_advection/heat_advection_1d.i)
# 1phase, heat advecting with a moving fluid
# Full upwinding is used
[Mesh]
type = GeneratedMesh
dim = 1
nx = 50
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[temp]
initial_condition = 200
[]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = '1-x'
[]
[]
[BCs]
[pp0]
type = DirichletBC
variable = pp
boundary = left
value = 1
[]
[pp1]
type = DirichletBC
variable = pp
boundary = right
value = 0
[]
[spit_heat]
type = DirichletBC
variable = temp
boundary = left
value = 300
[]
[suck_heat]
type = DirichletBC
variable = temp
boundary = right
value = 200
[]
[]
[Kernels]
[mass_dot]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[advection]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pp
[]
[energy_dot]
type = PorousFlowEnergyTimeDerivative
variable = temp
[]
[heat_advection]
type = PorousFlowHeatAdvection
variable = temp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.6
alpha = 1.3
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 100
density0 = 1000
viscosity = 4.4
thermal_expansion = 0
cv = 2
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.2
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 1.0
density = 125
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 2 0 0 0 3'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[massfrac]
type = PorousFlowMassFraction
[]
[PS]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'gmres bjacobi 1E-15 1E-10 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 0.01
end_time = 0.6
[]
[VectorPostprocessors]
[T]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 51
sort_by = x
variable = temp
[]
[]
[Outputs]
[csv]
type = CSV
sync_times = '0.1 0.6'
sync_only = true
[]
[]
(python/peacock/tests/common/spherical_average.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 10
ny = 10
nz = 10
xmin = -5
xmax = 5
ymin = -5
ymax = 5
zmin = -5
zmax = 5
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = sin(x*7.4+z*4.1)+cos(y*3.8+x*8.7)+sin(z*9.1+y*2.6)
[../]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[]
[VectorPostprocessors]
[./average]
type = SphericalAverage
variable = c
radius = 5
bin_number = 10
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
num_steps = 1
dt = 1
solve_type = PJFNK
[]
[Outputs]
execute_on = 'initial timestep_end'
exodus = true
csv = true
[]
(test/tests/misc/check_error/function_file_test6.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
x = '1'
y = '2'
xy_data = '1 2'
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/richards/test/tests/user_objects/uo3.i)
# Seff User objects give the correct value
# Sat User objects give the correct value
#
# If you want to add another test for another UserObject
# then add the UserObject, add a Function defining the expected result,
# add an AuxVariable and AuxKernel that will record the UserObjects value
# and finally add a NodalL2Error that compares this with the Function
#
# Here pressure is x where x runs between -5E6 and 5E6
[UserObjects]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-6
[../]
[./Seff1BWsmall]
type = RichardsSeff1BWsmall
Sn = 0.0
Ss = 1.0
C = 1.01
las = 1E5
[../]
[./Seff1RSC]
type = RichardsSeff1RSC
oil_viscosity = 4.0
scale_ratio = 1E6
shift = -2E6
[../]
[./Seff1VGcut]
type = RichardsSeff1VGcut
m = 0.8
al = 1E-6
p_cut = -1E6
[../]
# following are unimportant in this test
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.10101
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.054321
sum_s_res = 0.054321
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E5
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = x
[../]
[./answer_Seff1VG]
type = ParsedFunction
value = (1+max((-x)*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '1E-6 0.8'
[../]
[./answer_dSeff1VG]
type = GradParsedFunction
direction = '1 0 0'
value = (1+max((-x)*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '1E-6 0.8'
[../]
[./answer_d2Seff1VG]
type = Grad2ParsedFunction
direction = '1 0 0'
value = (1+max((-x)*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '1E-6 0.8'
[../]
[./answer_Seff1BW]
type = PiecewiseLinear
format = columns
data_file = satBW.csv
axis = x
[../]
[./answer_Seff1BWprime]
type = PiecewiseLinear
format = columns
data_file = satBWprime.csv
axis = x
[../]
[./answer_Seff1BW2prime]
type = PiecewiseLinear
format = columns
data_file = satBW2prime.csv
axis = x
[../]
[./answer_Seff1RSC]
type = ParsedFunction
value = (1+exp((-x-shift)/scale))^(-0.5)
vars = 'shift scale'
vals = '-2E6 1E6'
[../]
[./answer_dSeff1RSC]
type = GradParsedFunction
direction = '1 0 0'
value = (1+exp((-x-shift)/scale))^(-0.5)
vars = 'shift scale'
vals = '-2E6 1E6'
[../]
[./answer_d2Seff1RSC]
type = Grad2ParsedFunction
direction = '1 0 0'
value = (1+exp((-x-shift)/scale))^(-0.5)
vars = 'shift scale'
vals = '-2E6 1E6'
[../]
[./answer_Seff1VGcut]
type = ParsedFunction
value = if(x<pcut,scut+dscut*(x-pcut),(1+max((-x)*al,0)^(1/(1-m)))^(-m))
vars = 'al m pcut scut dscut'
vals = '1E-6 0.8 -1E6 0.574349177498517 1.14869835499703e-06'
[../]
[./answer_dSeff1VGcut]
type = GradParsedFunction
direction = '1 0 0'
value = if(x<pcut,scut+dscut*(x-pcut),(1+max((-x)*al,0)^(1/(1-m)))^(-m))
vars = 'al m pcut scut dscut'
vals = '1E-6 0.8 -1E6 0.574349177498517 1.14869835499703e-06'
[../]
[./answer_d2Seff1VGcut]
type = Grad2ParsedFunction
direction = '1 0 0'
value = if(x<pcut,scut+dscut*(x-pcut),(1+max((-x)*al,0)^(1/(1-m)))^(-m))
vars = 'al m pcut scut dscut'
vals = '1E-6 0.8 -1E6 0.574349177498517 1.14869835499703e-06'
[../]
[./answer_Sat]
type = ParsedFunction
value = sres+((1-sumsres)*((1+max((-x)*al,0)^(1/(1-m)))^(-m)))
vars = 'al m sres sumsres'
vals = '1E-6 0.8 0.054321 0.054321'
[../]
[./answer_dSat]
type = ParsedFunction
value = 1-sumsres
vars = 'sumsres'
vals = '0.054321'
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[./dSeff1VG_Aux]
[../]
[./d2Seff1VG_Aux]
[../]
[./Seff1BWsmall_Aux]
[../]
[./dSeff1BWsmall_Aux]
[../]
[./d2Seff1BWsmall_Aux]
[../]
[./Seff1RSC_Aux]
[../]
[./dSeff1RSC_Aux]
[../]
[./d2Seff1RSC_Aux]
[../]
[./Seff1VGcut_Aux]
[../]
[./dSeff1VGcut_Aux]
[../]
[./d2Seff1VGcut_Aux]
[../]
[./Sat_Aux]
[../]
[./dSat_Aux]
[../]
[./check_Aux]
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[./dSeff1VG_AuxK]
type = RichardsSeffPrimeAux
variable = dSeff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
wrtnum = 0
[../]
[./d2Seff1VG_AuxK]
type = RichardsSeffPrimePrimeAux
variable = d2Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
wrtnum1 = 0
wrtnum2 = 0
[../]
[./Seff1BWsmall_AuxK]
type = RichardsSeffAux
variable = Seff1BWsmall_Aux
seff_UO = Seff1BWsmall
pressure_vars = pressure
[../]
[./dSeff1BWsmall_AuxK]
type = RichardsSeffPrimeAux
variable = dSeff1BWsmall_Aux
seff_UO = Seff1BWsmall
pressure_vars = pressure
wrtnum = 0
[../]
[./d2Seff1BWsmall_AuxK]
type = RichardsSeffPrimePrimeAux
variable = d2Seff1BWsmall_Aux
seff_UO = Seff1BWsmall
pressure_vars = pressure
wrtnum1 = 0
wrtnum2 = 0
[../]
[./Seff1RSC_AuxK]
type = RichardsSeffAux
variable = Seff1RSC_Aux
seff_UO = Seff1RSC
pressure_vars = pressure
[../]
[./dSeff1RSC_AuxK]
type = RichardsSeffPrimeAux
variable = dSeff1RSC_Aux
seff_UO = Seff1RSC
pressure_vars = pressure
wrtnum = 0
[../]
[./d2Seff1RSC_AuxK]
type = RichardsSeffPrimePrimeAux
variable = d2Seff1RSC_Aux
seff_UO = Seff1RSC
pressure_vars = pressure
wrtnum1 = 0
wrtnum2 = 0
[../]
[./Seff1VGcut_AuxK]
type = RichardsSeffAux
variable = Seff1VGcut_Aux
seff_UO = Seff1VGcut
pressure_vars = pressure
[../]
[./dSeff1VGcut_AuxK]
type = RichardsSeffPrimeAux
variable = dSeff1VGcut_Aux
seff_UO = Seff1VGcut
pressure_vars = pressure
wrtnum = 0
[../]
[./d2Seff1VGcut_AuxK]
type = RichardsSeffPrimePrimeAux
variable = d2Seff1VGcut_Aux
seff_UO = Seff1VGcut
pressure_vars = pressure
wrtnum1 = 0
wrtnum2 = 0
[../]
[./Sat_AuxK]
type = RichardsSatAux
sat_UO = Saturation
seff_var = Seff1VG_Aux
variable = Sat_Aux
[../]
[./dSat_AuxK]
type = RichardsSatPrimeAux
sat_UO = Saturation
seff_var = Seff1VG_Aux
variable = dSat_Aux
[../]
[./check_AuxK]
type = FunctionAux
variable = check_Aux
function = answer_Seff1VGcut
[../]
[]
[Postprocessors]
[./cf_Seff1VG]
type = NodalL2Error
function = answer_Seff1VG
variable = Seff1VG_Aux
[../]
[./cf_dSeff1VG]
type = NodalL2Error
function = answer_dSeff1VG
variable = dSeff1VG_Aux
[../]
[./cf_d2Seff1VG]
type = NodalL2Error
function = answer_d2Seff1VG
variable = d2Seff1VG_Aux
[../]
[./cf_Seff1BW]
type = NodalL2Error
function = answer_Seff1BW
variable = Seff1BWsmall_Aux
[../]
[./cf_Seff1BWprime]
type = NodalL2Error
function = answer_Seff1BWprime
variable = dSeff1BWsmall_Aux
[../]
[./cf_Seff1BW2prime]
type = NodalL2Error
function = answer_Seff1BW2prime
variable = d2Seff1BWsmall_Aux
[../]
[./cf_Seff1RSC]
type = NodalL2Error
function = answer_Seff1RSC
variable = Seff1RSC_Aux
[../]
[./cf_dSeff1RSC]
type = NodalL2Error
function = answer_dSeff1RSC
variable = dSeff1RSC_Aux
[../]
[./cf_d2Seff1RSC]
type = NodalL2Error
function = answer_d2Seff1RSC
variable = d2Seff1RSC_Aux
[../]
[./cf_Seff1VGcut]
type = NodalL2Error
function = answer_Seff1VGcut
variable = Seff1VGcut_Aux
[../]
[./cf_dSeff1VGcut]
type = NodalL2Error
function = answer_dSeff1VGcut
variable = dSeff1VGcut_Aux
[../]
[./cf_d2Seff1VGcut]
type = NodalL2Error
function = answer_d2Seff1VGcut
variable = d2Seff1VGcut_Aux
[../]
[./cf_Sat]
type = NodalL2Error
function = answer_Sat
variable = Sat_Aux
[../]
[./cf_dSat]
type = NodalL2Error
function = answer_dSat
variable = dSat_Aux
[../]
[]
#############################################################################
#
# Following is largely unimportant as we are not running an actual similation
#
#############################################################################
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = -5E6
xmax = 5E6
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
richardsVarNames_UO = PPNames
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
richardsVarNames_UO = PPNames
variable = pressure
[../]
[]
[Materials]
[./unimportant_material]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-20 0 0 0 1E-20 0 0 0 1E-20'
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
viscosity = 1E-3
gravity = '0 0 -10'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./does_nothing]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E50 1E50 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
num_steps = 1
dt = 1E-100
[]
[Outputs]
execute_on = 'timestep_end'
active = 'csv'
file_base = uo3
[./csv]
type = CSV
[../]
[./exodus]
type = Exodus
hide = pressure
[../]
[]
(test/tests/functions/solution_function/solution_function_test.i)
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
# This test uses SolutionUserObject which doesn't work with DistributedMesh.
parallel_type = replicated
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_cond_func
[../]
[../]
[]
[AuxVariables]
[./u_aux]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_cond_func
[../]
[../]
[]
[Functions]
[./initial_cond_func]
type = SolutionFunction
solution = ex_soln
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[UserObjects]
[./ex_soln]
type = SolutionUserObject
system_variables = u
mesh = build_out_0001_mesh.xda
es = build_out_0001.xda
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
nl_rel_tol = 1e-10
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/fsi/test/tests/fsi_acoustics/1D_fluid_only/1D_fluid_only.i)
# Test for `AcousticInertia` and `Diffusion` kernels with only the fluid domain. The
# domain is 1D with length 1m and is subjected to an initial condition composed of
# a combination of sine waves. Fluid pressure is recorded at the midpoint of the
# domain. The recorded fluid pressure should match with analytical results. Because
# this implementation is equivalent to solving a 1D wave equation, analytical results
# exist.
#
# Input parameters:
# Dimensions = 1
# Length = 1 meter
# Fluid speed of sound = 1 m/s
# Initial condition = sin(pi*x) + sin(3*pi*x) + sin(5*3.141*x) + sin(7*pi*x) + sin(9*pi*x)
# Fluid domain = true
# Fluid BCs = pressures are zero on both the boundaries
# Structural domain = false
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 1
nx = 500
xmax = 1
[]
[]
[GlobalParams]
[]
[Variables]
[./p]
[../]
[]
[Kernels]
[./diffusion]
type = Diffusion
variable = 'p'
[../]
[./inertia]
type = AcousticInertia
variable = p
[../]
[]
[BCs]
[./leftright_pressure]
type = DirichletBC
variable = p
boundary = 'left right'
value = 0
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = 'p'
function = initial_cond
[../]
[]
[Functions]
[./initial_cond]
type = ParsedFunction
value = 'sin(pi*x) + sin(3*pi*x) + sin(5*3.141*x) + sin(7*pi*x) + sin(9*pi*x)'
[../]
[]
[Materials]
[./co_sq]
type = GenericConstantMaterial
prop_names = inv_co_sq
prop_values = 1
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = 'lu superlu_dist'
start_time = 0.0
end_time = 1.0
dt = 0.005
dtmin = 0.00001
nl_abs_tol = 1e-12
nl_rel_tol = 1e-12
l_tol = 1e-12
l_max_its = 25
timestep_tolerance = 1e-8
automatic_scaling = true
[TimeIntegrator]
type = NewmarkBeta
[]
[]
[Postprocessors]
[./p1]
type = PointValue
point = '0.5 0.0 0.0'
variable = p
[../]
[]
[Outputs]
csv = true
exodus = true
perf_graph = true
print_linear_residuals = true
[]
(test/tests/functions/solution_function/solution_function_scale_transl.i)
# checking scale and translation, with ordering scale first, then translation second
[Mesh]
type = GeneratedMesh
dim = 3
xmin = -1
xmax = 1
nx = 3
ymin = -1
ymax = 1
ny = 3
zmin = -1
zmax = 1
nz = 3
[]
[UserObjects]
[./solution_uo]
type = SolutionUserObject
mesh = cube_with_u_equals_x.e
timestep = 1
system_variables = u
scale = '0.5 1 1'
translation = '2 0 0'
transformation_order = 'scale translation'
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = solution_fcn
[../]
[]
[Functions]
[./solution_fcn]
type = SolutionFunction
from_variable = u
solution = solution_uo
[../]
[]
[Kernels]
[./diff]
type = TimeDerivative
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
l_max_its = 800
nl_rel_tol = 1e-10
num_steps = 1
end_time = 1
dt = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = solution_function_scale_transl
exodus = true
[]
(test/tests/time_integrators/actually_explicit_euler_verification/ee-1d-linear.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 200
elem_type = EDGE2
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x
[../]
[./exact_fn]
type = ParsedFunction
value = t*x
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
lumping = true
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
preset = false
boundary = '0 1'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
start_time = 0.0
num_steps = 20
dt = 0.00005
[./TimeIntegrator]
type = ActuallyExplicitEuler
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(test/tests/mortar/continuity-2d-conforming/equalgradient.i)
[Mesh]
[file]
type = FileMeshGenerator
file = 2blk-conf.e
[]
[secondary]
input = file
type = LowerDBlockFromSidesetGenerator
sidesets = '101'
new_block_id = '10001'
new_block_name = 'secondary_lower'
[]
[primary]
input = secondary
type = LowerDBlockFromSidesetGenerator
sidesets = '100'
new_block_id = '10000'
new_block_name = 'primary_lower'
[]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
block = '1 2'
[../]
[./lmx]
order = FIRST
family = LAGRANGE
block = 'secondary_lower'
[../]
[./lmy]
order = FIRST
family = LAGRANGE
block = 'secondary_lower'
[../]
[]
[ICs]
[./block1]
type = FunctionIC
variable = u
block = 1
function = y
[../]
[./block2]
type = FunctionIC
variable = u
block = 2
function = y-0.5
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[./dt]
type = TimeDerivative
variable = u
[../]
[]
[Constraints]
[./cedx]
type = EqualGradientConstraint
secondary_variable = u
variable = lmx
primary_boundary = 100
primary_subdomain = 10000
secondary_boundary = 101
secondary_subdomain = 10001
component = 0
[../]
[./cedy]
type = EqualGradientConstraint
secondary_variable = u
variable = lmy
primary_boundary = 100
primary_subdomain = 10000
secondary_boundary = 101
secondary_subdomain = 10001
component = 1
[../]
[]
[BCs]
[./all]
type = DiffusionFluxBC
variable = u
boundary = '2 4 100 101'
[../]
[./boundary]
type = DirichletBC
boundary = 1
variable = u
value = 0.0
[../]
[./top]
type = FunctionDirichletBC
boundary = 3
variable = u
function = 0.5-t
[../]
[]
[Preconditioning]
[./fmp]
type = SMP
full = true
solve_type = 'NEWTON'
[../]
[]
[Executioner]
type = Transient
nl_rel_tol = 1e-11
l_tol = 1e-10
l_max_its = 10
dt = 0.05
num_steps = 3
[]
[Outputs]
exodus = true
print_linear_residuals = false
[]
(modules/porous_flow/test/tests/dirackernels/pls03_action.i)
# Test that the upwinding works correctly.
#
# A poly-line sink sits at the centre of the element.
# It has length=4 and weight=0.5, and extracts fluid
# at a constant rate of
# (1 * relative_permeability) kg.m^-1.s^-1
# Since it sits at the centre of the element, it extracts
# equally from each node, so the rate of extraction from
# each node is
# (0.5 * relative_permeability) kg.s^-1
# including the length and weight effects.
#
# There is no fluid flow.
#
# The initial conditions are such that all nodes have
# relative_permeability=0, except for one which has
# relative_permeaility = 1. Therefore, all nodes should
# remain at their initial porepressure, except the one.
#
# The porosity is 0.1, and the elemental volume is 2,
# so the fluid mass at the node in question = 0.2 * density / 4,
# where the 4 is the number of nodes in the element.
# In this simulation density = dens0 * exp(P / bulk), with
# dens0 = 100, and bulk = 20 MPa.
# The initial porepressure P0 = 10 MPa, so the final (after
# 1 second of simulation) is
# P(t=1) = 8.748592 MPa
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 2
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
thermal_expansion = 0.0
bulk_modulus = 2.0E7
viscosity = 1.0
density0 = 100.0
[]
[]
[]
[PorousFlowUnsaturated]
porepressure = pp
gravity = '0 0 0'
fp = the_simple_fluid
van_genuchten_alpha = 1.0E-7
van_genuchten_m = 0.5
relative_permeability_exponent = 2
residual_saturation = 0.99
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
#function = if((x<1)&(y<0.5),1E7,-1E7)
function = if((x<1)&(y>0.5),1E7,-1E7)
#function = if((x>1)&(y<0.5),1E7,-1E7)
#function = if((x>1)&(y>0.5),1E7,-1E7)
[]
[]
[UserObjects]
[pls_total_outflow_mass]
type = PorousFlowSumQuantity
[]
[]
[Materials]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '0 0 0 0 0 0 0 0 0'
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[DiracKernels]
[pls]
type = PorousFlowPolyLineSink
fluid_phase = 0
point_file = pls03.bh
use_relative_permeability = true
line_length = 4
SumQuantityUO = pls_total_outflow_mass
variable = pp
p_or_t_vals = '0 1E7'
fluxes = '1 1'
[]
[]
[Postprocessors]
[pls_report]
type = PorousFlowPlotQuantity
uo = pls_total_outflow_mass
[]
[fluid_mass0]
type = PorousFlowFluidMass
execute_on = timestep_begin
[]
[fluid_mass1]
type = PorousFlowFluidMass
execute_on = timestep_end
[]
[zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[]
[p00]
type = PointValue
variable = pp
point = '0 0 0'
execute_on = timestep_end
[]
[p01]
type = PointValue
variable = pp
point = '0 1 0'
execute_on = timestep_end
[]
[p20]
type = PointValue
variable = pp
point = '2 0 0'
execute_on = timestep_end
[]
[p21]
type = PointValue
variable = pp
point = '2 1 0'
execute_on = timestep_end
[]
[]
[Functions]
[mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 pls_report'
[]
[]
[Preconditioning]
[usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[]
[]
[Executioner]
type = Transient
end_time = 1
dt = 1
solve_type = NEWTON
[]
[Outputs]
file_base = pls03_action
exodus = false
csv = true
execute_on = timestep_end
[]
(test/tests/restart/restart_subapp_not_master/two_step_solve_sub.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Postprocessors]
[./average]
type = ElementAverageValue
variable = u
[../]
[]
[Executioner]
type = Transient
start_time = 0.0
end_time = 2.0
dt = 1.0
[]
[Outputs]
[./checkpoint]
type = Checkpoint
num_files = 3
[../]
[]
(modules/navier_stokes/test/tests/finite_volume/pins/mms/porosity_change/2d-rc-continuous.i)
mu=1.1
rho=1.1
advected_interp_method='average'
velocity_interp_method='rc'
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
xmin = 0
xmax = 2
ymin = -1
ymax = 1
nx = 8
ny = 8
[]
[]
[GlobalParams]
two_term_boundary_expansion = true
[]
[Problem]
fv_bcs_integrity_check = true
[]
[Variables]
[u]
type = PINSFVSuperficialVelocityVariable
initial_condition = 1
[]
[v]
type = PINSFVSuperficialVelocityVariable
initial_condition = 1
[]
[pressure]
type = INSFVPressureVariable
[]
[]
[AuxVariables]
[porosity]
family = MONOMIAL
order = CONSTANT
fv = true
[]
[]
[ICs]
[porosity_continuous]
type = FunctionIC
variable = porosity
function = smooth_jump
[]
[]
[GlobalParams]
porosity = porosity
[]
[FVKernels]
inactive = 'u_pressure_porosity u_pressure_porosity_gradient
v_pressure_porosity v_pressure_porosity_gradient'
[mass]
type = PINSFVMassAdvection
variable = pressure
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
vel = 'velocity'
pressure = pressure
u = u
v = v
mu = ${mu}
rho = ${rho}
smooth_porosity = true
[]
[mass_forcing]
type = FVBodyForce
variable = pressure
function = forcing_p
[]
[u_advection]
type = PINSFVMomentumAdvection
variable = u
advected_quantity = 'rhou'
vel = 'velocity'
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
pressure = pressure
u = u
v = v
mu = ${mu}
rho = ${rho}
smooth_porosity = true
[]
[u_viscosity]
type = PINSFVMomentumDiffusion
variable = u
mu = ${mu}
porosity = porosity
smooth_porosity = false
vel = 'velocity'
momentum_component = 'x'
[]
# Option 1: eps * pressure gradient
[u_pressure]
type = PINSFVMomentumPressure
variable = u
pressure = pressure
porosity = porosity
momentum_component = 'x'
[]
# Option 2: gradient (eps * pressure) - P * gradient(eps)
[u_pressure_porosity]
type = PINSFVMomentumPressureFlux
variable = u
pressure = pressure
porosity = porosity
momentum_component = 'x'
[]
[u_pressure_porosity_gradient]
type = PINSFVMomentumPressurePorosityGradient
variable = u
pressure = pressure
porosity = porosity
momentum_component = 'x'
[]
[u_forcing]
type = FVBodyForce
variable = u
function = forcing_u
[]
[v_advection]
type = PINSFVMomentumAdvection
variable = v
advected_quantity = 'rhov'
vel = 'velocity'
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
pressure = pressure
u = u
v = v
mu = ${mu}
rho = ${rho}
smooth_porosity = true
[]
[v_viscosity]
type = PINSFVMomentumDiffusion
variable = v
mu = ${mu}
porosity = porosity
smooth_porosity = false
vel = 'velocity'
momentum_component = 'y'
[]
# Option 1: eps * pressure gradient
[v_pressure]
type = PINSFVMomentumPressure
variable = v
pressure = pressure
porosity = porosity
momentum_component = 'y'
[]
# Option 2: gradient (eps * pressure) - P * gradient(eps)
[v_pressure_porosity]
type = PINSFVMomentumPressureFlux
variable = v
pressure = pressure
porosity = porosity
momentum_component = 'y'
[]
[v_pressure_porosity_gradient]
type = PINSFVMomentumPressurePorosityGradient
variable = v
pressure = pressure
porosity = porosity
momentum_component = 'y'
[]
[v_forcing]
type = FVBodyForce
variable = v
function = forcing_v
[]
[]
[FVBCs]
[inlet-u]
type = INSFVInletVelocityBC
boundary = 'left'
variable = u
function = 'exact_u'
[]
[inlet-v]
type = INSFVInletVelocityBC
boundary = 'left'
variable = v
function = 'exact_v'
[]
[walls-u]
type = INSFVNoSlipWallBC
boundary = 'top bottom'
variable = u
function = 'exact_u'
[]
[walls-v]
type = INSFVNoSlipWallBC
boundary = 'top bottom'
variable = v
function = 'exact_v'
[]
[outlet_p]
type = INSFVOutletPressureBC
boundary = 'right'
variable = pressure
function = 'exact_p'
[]
[]
[Materials]
[ins_fv]
type = INSFVMaterial
u = 'u'
v = 'v'
pressure = 'pressure'
rho = ${rho}
[]
[]
[Functions]
[smooth_jump]
type = ParsedFunction
value = '1 - 0.5 * 1 / (1 + exp(-30*(x-1))) - 0.01 * y'
[]
# Output from compute-functions-2d.py
[exact_u]
type = ParsedFunction
value = 'sin((1/2)*y*pi)*cos((1/2)*x*pi)'
[]
[forcing_u]
type = ParsedFunction
value = '(1/2)*pi^2*mu*sin((1/2)*y*pi)*cos((1/2)*x*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1)) - 0.005*pi*mu*cos((1/2)*x*pi)*cos((1/2)*y*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))^2 + 7.5*pi*mu*exp(30 - 30*x)*sin((1/2)*x*pi)*sin((1/2)*y*pi)/((exp(30 - 30*x) + 1)^2*(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))^2) - 1/2*pi*rho*sin((1/4)*x*pi)*sin((1/2)*y*pi)^2*cos((1/2)*x*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1)) + (1/2)*pi*rho*sin((1/4)*x*pi)*cos((1/2)*x*pi)*cos((1/2)*y*pi)^2/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1)) - pi*rho*sin((1/2)*x*pi)*sin((1/2)*y*pi)^2*cos((1/2)*x*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1)) + 0.01*rho*sin((1/4)*x*pi)*sin((1/2)*y*pi)*cos((1/2)*x*pi)*cos((1/2)*y*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))^2 + 15.0*rho*exp(30 - 30*x)*sin((1/2)*y*pi)^2*cos((1/2)*x*pi)^2/((exp(30 - 30*x) + 1)^2*(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))^2) - 1/4*pi*(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))*sin((1/4)*x*pi)*sin((3/2)*y*pi)'
vars = 'mu rho'
vals = '${mu} ${rho}'
[]
[exact_v]
type = ParsedFunction
value = 'sin((1/4)*x*pi)*cos((1/2)*y*pi)'
[]
[forcing_v]
type = ParsedFunction
value = '(5/16)*pi^2*mu*sin((1/4)*x*pi)*cos((1/2)*y*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1)) + 0.005*pi*mu*sin((1/4)*x*pi)*sin((1/2)*y*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))^2 - 3.75*pi*mu*exp(30 - 30*x)*cos((1/4)*x*pi)*cos((1/2)*y*pi)/((exp(30 - 30*x) + 1)^2*(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))^2) - pi*rho*sin((1/4)*x*pi)^2*sin((1/2)*y*pi)*cos((1/2)*y*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1)) - 1/2*pi*rho*sin((1/4)*x*pi)*sin((1/2)*x*pi)*sin((1/2)*y*pi)*cos((1/2)*y*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1)) + (1/4)*pi*rho*sin((1/2)*y*pi)*cos((1/4)*x*pi)*cos((1/2)*x*pi)*cos((1/2)*y*pi)/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1)) + 0.01*rho*sin((1/4)*x*pi)^2*cos((1/2)*y*pi)^2/(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))^2 + 15.0*rho*exp(30 - 30*x)*sin((1/4)*x*pi)*sin((1/2)*y*pi)*cos((1/2)*x*pi)*cos((1/2)*y*pi)/((exp(30 - 30*x) + 1)^2*(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))^2) + (3/2)*pi*(-0.01*y + 1 - 0.5/(exp(30 - 30*x) + 1))*cos((1/4)*x*pi)*cos((3/2)*y*pi)'
vars = 'mu rho'
vals = '${mu} ${rho}'
[]
[exact_p]
type = ParsedFunction
value = 'sin((3/2)*y*pi)*cos((1/4)*x*pi)'
[]
[forcing_p]
type = ParsedFunction
value = '-1/2*pi*rho*sin((1/4)*x*pi)*sin((1/2)*y*pi) - 1/2*pi*rho*sin((1/2)*x*pi)*sin((1/2)*y*pi)'
vars = 'rho'
vals = '${rho}'
[]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
petsc_options_iname = '-pc_type -ksp_gmres_restart -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm 100 lu NONZERO'
line_search = 'none'
nl_rel_tol = 1e-12
[]
[Outputs]
exodus = true
csv = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2u]
type = ElementL2Error
variable = u
function = exact_u
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2v]
type = ElementL2Error
variable = v
function = exact_v
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2p]
type = ElementL2Error
variable = pressure
function = exact_p
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(test/tests/kernels/mass_lumping/mass_lumping.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 2
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = init_f
[../]
[]
[Kernels]
[./time_deriv]
type = MassLumpedTimeDerivative
variable = u
[../]
[./diff]
type = FuncCoefDiffusion
variable = u
coef = diff_f
[../]
[]
[Functions]
[./init_f]
type = ParsedFunction
value = max(x,0) #(x>0)
[../]
[./diff_f]
type = ParsedFunction
value = max(x,0)
[../]
[]
[Executioner]
type = Transient
end_time = 1
solve_type = 'NEWTON'
[]
[Outputs]
exodus = true
[]
(test/tests/time_steppers/function_dt/function_dt_no_interpolation.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[./dts]
type = PiecewiseConstant
x = '0 4 8 12 20'
y = '0 1 2 4 8'
direction = right
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
start_time = 0
end_time = 20
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
exodus = true
[]
(modules/tensor_mechanics/test/tests/interface_stress/multi.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 10
ny = 10
nz = 10
xmax = 1
ymax = 1
zmax = 1
xmin = -1
ymin = -1
zmin = -1
[]
[GlobalParams]
order = CONSTANT
family = MONOMIAL
rank_two_tensor = extra_stress
[]
[Functions]
[./sphere1]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2); if(r>1,0,1-3*r^2+2*r^3)'
[../]
[./sphere2]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2); 0.5-0.5*if(r>1,0,1-3*r^2+2*r^3)'
[../]
[]
[Variables]
[./dummy]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = dummy
[../]
[]
[AuxVariables]
[./eta1]
[./InitialCondition]
type = FunctionIC
function = sphere1
[../]
order = FIRST
family = LAGRANGE
[../]
[./eta2]
[./InitialCondition]
type = FunctionIC
function = sphere2
[../]
order = FIRST
family = LAGRANGE
[../]
[./s00]
[../]
[./s01]
[../]
[./s02]
[../]
[./s10]
[../]
[./s11]
[../]
[./s12]
[../]
[./s20]
[../]
[./s21]
[../]
[./s22]
[../]
[]
[AuxKernels]
[./s00]
type = RankTwoAux
variable = s00
index_i = 0
index_j = 0
[../]
[./s01]
type = RankTwoAux
variable = s01
index_i = 0
index_j = 1
[../]
[./s02]
type = RankTwoAux
variable = s02
index_i = 0
index_j = 2
[../]
[./s10]
type = RankTwoAux
variable = s10
index_i = 1
index_j = 0
[../]
[./s11]
type = RankTwoAux
variable = s11
index_i = 1
index_j = 1
[../]
[./s12]
type = RankTwoAux
variable = s12
index_i = 1
index_j = 2
[../]
[./s20]
type = RankTwoAux
variable = s20
index_i = 2
index_j = 0
[../]
[./s21]
type = RankTwoAux
variable = s21
index_i = 2
index_j = 1
[../]
[./s22]
type = RankTwoAux
variable = s22
index_i = 2
index_j = 2
[../]
[]
[Materials]
[./interface]
type = ComputeInterfaceStress
v = 'eta1 eta2'
stress = '1.0 2.0'
op_range = '1.0 0.5'
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
file_base = test_out
execute_on = timestep_end
hide = 'dummy eta1 eta2'
[]
(modules/phase_field/test/tests/MultiPhase/thirdphasesuppressionmaterial.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 5
ny = 5
nz = 0
xmin = 0
xmax = 1
ymin = 0
ymax = 1
elem_type = QUAD4
[]
[AuxVariables]
[./eta1]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
variable = eta1
function = x
[../]
[../]
[./eta2]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
variable = eta2
function = 1-x
[../]
[../]
[./eta3]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
variable = eta3
function = y
[../]
[../]
[]
[BCs]
[./Periodic]
[./All]
auto_direction = 'x y'
[../]
[../]
[]
[Materials]
[./suppressionbarrier]
type = ThirdPhaseSuppressionMaterial
etas = 'eta1 eta2 eta3'
function_name = g
outputs = exodus
[../]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
[]
[Problem]
solve = false
[]
[Outputs]
exodus = true
[]
(test/tests/postprocessors/displaced_mesh/side.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
ny = 2
displacements = 'ux uy'
[]
[AuxVariables]
[./ux]
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[./uy]
[./InitialCondition]
type = FunctionIC
function = y
[../]
[../]
[./c]
initial_condition = 1
[../]
[]
[Variables]
[./a]
[../]
[]
[Kernels]
[./a]
type = Diffusion
variable = a
[../]
[]
[Postprocessors]
[./without]
type = SideIntegralVariablePostprocessor
variable = c
execute_on = initial
boundary = left
[../]
[./with]
type = SideIntegralVariablePostprocessor
variable = c
use_displaced_mesh = true
execute_on = initial
boundary = left
[../]
[]
[Problem]
solve = false
[]
[Executioner]
type = Transient
num_steps = 0
[]
[Outputs]
[./out]
type = Exodus
[../]
[]
(test/tests/misc/check_error/function_file_test1.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_columns.csv #Will generate error because data is expected in rows
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/porous_flow/test/tests/dispersion/disp01_heavy.i)
# Test dispersive part of PorousFlowDispersiveFlux kernel by setting diffusion
# coefficients to zero. A pressure gradient is applied over the mesh to give a
# uniform velocity. Gravity is set to zero.
# Mass fraction is set to 1 on the left hand side and 0 on the right hand side.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 200
xmax = 10
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
compute_enthalpy = false
compute_internal_energy = false
[]
[Variables]
[pp]
[]
[massfrac0]
[]
[]
[AuxVariables]
[velocity]
family = MONOMIAL
order = FIRST
[]
[]
[AuxKernels]
[velocity]
type = PorousFlowDarcyVelocityComponent
variable = velocity
component = x
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = pic
[]
[massfrac0]
type = ConstantIC
variable = massfrac0
value = 0
[]
[]
[Functions]
[pic]
type = ParsedFunction
value = 1.1e5-x*1e3
[]
[]
[BCs]
[xleft]
type = DirichletBC
value = 1
variable = massfrac0
boundary = left
[]
[xright]
type = DirichletBC
value = 0
variable = massfrac0
boundary = right
[]
[pright]
type = DirichletBC
variable = pp
boundary = right
value = 1e5
[]
[pleft]
type = DirichletBC
variable = pp
boundary = left
value = 1.1e5
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[adv0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pp
[]
[diff0]
type = PorousFlowDispersiveFlux
variable = pp
disp_trans = 0
disp_long = 0.2
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = massfrac0
[]
[adv1]
type = PorousFlowAdvectiveFlux
fluid_component = 1
variable = massfrac0
[]
[diff1]
type = PorousFlowDispersiveFlux
fluid_component = 1
variable = massfrac0
disp_trans = 0
disp_long = 0.2
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp massfrac0'
number_fluid_phases = 1
number_fluid_components = 2
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1e9
density0 = 1000
viscosity = 0.001
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseFullySaturated
porepressure = pp
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = massfrac0
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[poro]
type = PorousFlowPorosityConst
porosity = 0.3
[]
[diff]
type = PorousFlowDiffusivityConst
diffusion_coeff = '0 0'
tortuosity = 0.1
[]
[relp]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1e-9 0 0 0 1e-9 0 0 0 1e-9'
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu NONZERO 2 '
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 1e3
dtmax = 10
[TimeStepper]
type = IterationAdaptiveDT
growth_factor = 1.5
cutback_factor = 0.5
dt = 1
[]
[]
[VectorPostprocessors]
[xmass]
type = NodalValueSampler
sort_by = id
variable = massfrac0
[]
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/fluid_properties/test/tests/co2/co2.i)
# Test thermophysical property calculations in CO2FluidProperties
#
# Comparison with values from Span and Wagner, "A New Equation of State for
# Carbon Dioxide Covering the Fluid Region from the Triple-Point Temperature
# to 1100K at Pressures up to 800 MPa", J. Phys. Chem. Ref. Data, 25 (1996)
#
# Viscosity values from Fenghour et al., "The viscosity of carbon dioxide",
# J. Phys. Chem. Ref. Data, 27, 31-44 (1998)
#
#
# --------------------------------------------------------------
# Pressure (Mpa) | 1 | 1 | 1
# Temperature (K) | 280 | 360 | 500
# --------------------------------------------------------------
# Expected values
# --------------------------------------------------------------
# Density (kg/m^3) | 20.199 | 15.105 | 10.664
# Internal energy (kJ/kg/K) | -75.892 | -18.406 | 91.829
# Enthalpy (kJ/kg) | -26.385 | 47.797 | 185.60
# Entropy (kJ/kg/K) | -0.51326 | -0.28033 | 0.04225
# cv (kJ/kg/K) | 0.67092 | 0.72664 | 0.82823
# cp (kJ/kg/K) | 0.92518 | 0.94206 | 1.0273
# Speed of sound (m/s) | 252.33 | 289.00 | 339.81
# Viscosity (1e-6Pa.s) | 14.15 | 17.94 | 24.06
# --------------------------------------------------------------
# Calculated values
# --------------------------------------------------------------
# Density (kg/m^3) | 20.199 | 15.105 | 10.664
# Internal energy (kJ/kg/K) | -75.892 | -18.406 | 91.829
# Enthalpy (kJ/kg) | -26.385 | 47.797 | 185.60
# Entropy (kJ/kg/K) | -0.51326 | -0.28033 | 0.04225
# cv (kJ/kg/K) | 0.67092 | 0.72664 | 0.82823
# cp (kJ/kg/K) | 0.92518 | 0.94206 | 1.0273
# Speed of sound (m/s) | 252.33 | 289.00 | 339.81
# Viscosity (1e-6 Pa.s) | 14.15 | 17.94 | 24.06
# --------------------------------------------------------------
[Mesh]
type = GeneratedMesh
dim = 2
nx = 3
xmax = 3
# This test uses ElementalVariableValue postprocessors on specific
# elements, so element numbering needs to stay unchanged
allow_renumbering = false
[]
[Variables]
[./dummy]
[../]
[]
[AuxVariables]
[./pressure]
initial_condition = 1e6
family = MONOMIAL
order = CONSTANT
[../]
[./temperature]
family = MONOMIAL
order = CONSTANT
[../]
[./rho]
family = MONOMIAL
order = CONSTANT
[../]
[./mu]
family = MONOMIAL
order = CONSTANT
[../]
[./e]
family = MONOMIAL
order = CONSTANT
[../]
[./h]
family = MONOMIAL
order = CONSTANT
[../]
[./s]
family = MONOMIAL
order = CONSTANT
[../]
[./cv]
family = MONOMIAL
order = CONSTANT
[../]
[./cp]
family = MONOMIAL
order = CONSTANT
[../]
[./c]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Functions]
[./tic]
type = ParsedFunction
value = if(x<1,280,if(x<2,360,500))
[../]
[]
[ICs]
[./t_ic]
type = FunctionIC
function = tic
variable = temperature
[../]
[]
[AuxKernels]
[./rho]
type = MaterialRealAux
variable = rho
property = density
[../]
[./my]
type = MaterialRealAux
variable = mu
property = viscosity
[../]
[./internal_energy]
type = MaterialRealAux
variable = e
property = e
[../]
[./enthalpy]
type = MaterialRealAux
variable = h
property = h
[../]
[./entropy]
type = MaterialRealAux
variable = s
property = s
[../]
[./cv]
type = MaterialRealAux
variable = cv
property = cv
[../]
[./cp]
type = MaterialRealAux
variable = cp
property = cp
[../]
[./c]
type = MaterialRealAux
variable = c
property = c
[../]
[]
[Modules]
[./FluidProperties]
[./co2]
type = CO2FluidProperties
[../]
[]
[]
[Materials]
[./fp_mat]
type = FluidPropertiesMaterialPT
pressure = pressure
temperature = temperature
fp = co2
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = dummy
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
[]
[Postprocessors]
[./rho0]
type = ElementalVariableValue
elementid = 0
variable = rho
[../]
[./rho1]
type = ElementalVariableValue
elementid = 1
variable = rho
[../]
[./rho2]
type = ElementalVariableValue
elementid = 2
variable = rho
[../]
[./mu0]
type = ElementalVariableValue
elementid = 0
variable = mu
[../]
[./mu1]
type = ElementalVariableValue
elementid = 1
variable = mu
[../]
[./mu2]
type = ElementalVariableValue
elementid = 2
variable = mu
[../]
[./e0]
type = ElementalVariableValue
elementid = 0
variable = e
[../]
[./e1]
type = ElementalVariableValue
elementid = 1
variable = e
[../]
[./e2]
type = ElementalVariableValue
elementid = 2
variable = e
[../]
[./h0]
type = ElementalVariableValue
elementid = 0
variable = h
[../]
[./h1]
type = ElementalVariableValue
elementid = 1
variable = h
[../]
[./h2]
type = ElementalVariableValue
elementid = 2
variable = h
[../]
[./s0]
type = ElementalVariableValue
elementid = 0
variable = s
[../]
[./s1]
type = ElementalVariableValue
elementid = 1
variable = s
[../]
[./s2]
type = ElementalVariableValue
elementid = 2
variable = s
[../]
[./cv0]
type = ElementalVariableValue
elementid = 0
variable = cv
[../]
[./cv1]
type = ElementalVariableValue
elementid = 1
variable = cv
[../]
[./cv2]
type = ElementalVariableValue
elementid = 2
variable = cv
[../]
[./cp0]
type = ElementalVariableValue
elementid = 0
variable = cp
[../]
[./cp1]
type = ElementalVariableValue
elementid = 1
variable = cp
[../]
[./cp2]
type = ElementalVariableValue
elementid = 2
variable = cp
[../]
[./c0]
type = ElementalVariableValue
elementid = 0
variable = c
[../]
[./c1]
type = ElementalVariableValue
elementid = 1
variable = c
[../]
[./c2]
type = ElementalVariableValue
elementid = 2
variable = c
[../]
[]
[Outputs]
csv = true
execute_on = 'TIMESTEP_END'
[]
(test/tests/functions/image_function/crop.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
uniform_refine = 2
xmin = 0.5
ymin = 0.5
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
file_suffix = png
origin = '0 0 0'
dimensions = '1 1 0'
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(test/tests/nodalkernels/constraint_enforcement/upper-and-lower-bound.i)
l=10
nx=100
num_steps=10
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[lm_upper]
[]
[lm_lower]
[]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x'
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = u
[]
[diff]
type = Diffusion
variable = u
[]
[ffn]
type = BodyForce
variable = u
function = 'if(x<5,-1,1)'
[]
[]
[NodalKernels]
[upper_bound]
type = UpperBoundNodalKernel
variable = lm_upper
v = u
exclude_boundaries = 'left right'
upper_bound = 10
[]
[forces_from_upper]
type = CoupledForceNodalKernel
variable = u
v = lm_upper
coef = -1
[]
[lower_bound]
type = LowerBoundNodalKernel
variable = lm_lower
v = u
exclude_boundaries = 'left right'
lower_bound = 0
[]
[forces_from_lower]
type = CoupledForceNodalKernel
variable = u
v = lm_lower
coef = 1
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 0
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = ${l}
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type'
petsc_options_value = '0 30 asm 16 basic'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[active_upper_lm]
type = GreaterThanLessThanPostprocessor
variable = lm_upper
execute_on = 'nonlinear timestep_end'
value = 1e-8
comparator = 'greater'
[]
[upper_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = ${fparse 10+1e-8}
comparator = 'greater'
[]
[active_lower_lm]
type = GreaterThanLessThanPostprocessor
variable = lm_lower
execute_on = 'nonlinear timestep_end'
value = 1e-8
comparator = 'greater'
[]
[lower_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = -1e-8
comparator = 'less'
[]
[nls]
type = NumNonlinearIterations
[]
[cum_nls]
type = CumulativeValuePostprocessor
postprocessor = nls
[]
[]
(test/tests/misc/check_error/function_conflict.i)
# A function name that could be interpreted as a ParsedFunction
[Mesh]
type = GeneratedMesh
dim = 2
[]
[Functions]
[./x]
type = ConstantFunction
[../]
[]
[Variables]
[./var]
[../]
[]
[ICs]
[./dummy]
type = FunctionIC
variable = var
function = x
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = var
[../]
[]
[Executioner]
type = Steady
[]
(modules/phase_field/test/tests/MultiPhase/asymmetriccrosstermbarrierfunction.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 200
xmin = 0
xmax = 9
[]
[Functions]
[./func1]
type = ParsedFunction
value = 'il:=x-7; ir:=2-x; if(x<1, 1,
if(x<2, 0.5-0.5*cos(ir*pi),
if(x<7, 0,
if(x<8, 0.5-0.5*cos(il*pi),
1))))'
[../]
[./func2]
type = ParsedFunction
value = 'il:=x-1; ir:=5-x; if(x<1, 0,
if(x<2, 0.5-0.5*cos(il*pi),
if(x<4, 1,
if(x<5, 0.5-0.5*cos(ir*pi),
0))))'
[../]
[./func3]
type = ParsedFunction
value = 'il:=x-4; ir:=8-x; if(x<4, 0,
if(x<5, 0.5-0.5*cos(il*pi),
if(x<7, 1,
if(x<8, 0.5-0.5*cos(ir*pi),
0))))'
[../]
[]
[AuxVariables]
[./eta1]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = func1
[../]
[../]
[./eta2]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = func2
[../]
[../]
[./eta3]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = func3
[../]
[../]
[]
[Materials]
[./symmetriccrosstermbarrier_low]
type = AsymmetricCrossTermBarrierFunctionMaterial
etas = 'eta1 eta2 eta3'
hi_names = 'h1 h2 h3'
W_ij = '0 1 2.2
1 0 3.1
2.2 3.1 0'
function_name = gsl
g_order = LOW
outputs = exodus
[../]
[./asymmetriccrosstermbarrier_low]
type = AsymmetricCrossTermBarrierFunctionMaterial
etas = 'eta1 eta2 eta3'
hi_names = 'h1 h2 h3'
W_ij = ' 0 1.2 5.2
0.8 0 2.1
-0.8 4.1 0'
function_name = gal
g_order = LOW
outputs = exodus
[../]
[./asymmetriccrosstermbarrie_simple]
type = AsymmetricCrossTermBarrierFunctionMaterial
etas = 'eta1 eta2 eta3'
hi_names = 'h1 h2 h3'
W_ij = '0 1.2 3.2
0.8 0 2.1
1.2 4.1 0'
function_name = gas
g_order = SIMPLE
outputs = exodus
[../]
[./switch1]
type = SwitchingFunctionMaterial
function_name = h1
eta = eta1
[../]
[./switch2]
type = SwitchingFunctionMaterial
function_name = h2
eta = eta2
[../]
[./switch3]
type = SwitchingFunctionMaterial
function_name = h3
eta = eta3
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
num_steps = 1
[]
[Problem]
solve = false
kernel_coverage_check = false
[]
[Outputs]
exodus = true
execute_on = final
[]
(modules/combined/test/tests/CHSplitFlux/flux_gb.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 50
ny = 2
xmin = 0
xmax = 10
ymin = 0
ymax = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);0.1+0.1*v'
[../]
[../]
[./mu]
[../]
[./jx]
[../]
[./jy]
[../]
[]
[AuxVariables]
[./gb]
family = LAGRANGE
order = FIRST
[../]
[./mobility_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./mobility_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./diffusivity_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./diffusivity_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./aniso_tensor_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./aniso_tensor_yy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Kernels]
[./conc]
type = CHSplitConcentration
variable = c
mobility = mobility_prop
chemical_potential_var = mu
[../]
[./chempot]
type = CHSplitChemicalPotential
variable = mu
chemical_potential_prop = mu_prop
c = c
[../]
[./flux_x]
type = CHSplitFlux
variable = jx
component = 0
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./flux_y]
type = CHSplitFlux
variable = jy
component = 1
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[]
[AuxKernels]
[./gb]
type = FunctionAux
variable = gb
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);v'
[../]
[./mobility_xx]
type = MaterialRealTensorValueAux
variable = mobility_xx
property = mobility_prop
row = 0
column = 0
[../]
[./mobility_yy]
type = MaterialRealTensorValueAux
variable = mobility_yy
property = mobility_prop
row = 1
column = 1
[../]
[./diffusivity_xx]
type = MaterialRealTensorValueAux
variable = diffusivity_xx
property = diffusivity
row = 0
column = 0
[../]
[./diffusivity_yy]
type = MaterialRealTensorValueAux
variable = diffusivity_yy
property = diffusivity
row = 1
column = 1
[../]
[./aniso_tensor_xx]
type = MaterialRealTensorValueAux
variable = aniso_tensor_xx
property = aniso_tensor
row = 0
column = 0
[../]
[./aniso_tensor_yy]
type = MaterialRealTensorValueAux
variable = aniso_tensor_yy
property = aniso_tensor
row = 1
column = 1
[../]
[]
[Materials]
[./chemical_potential]
type = DerivativeParsedMaterial
block = 0
f_name = mu_prop
args = c
function = 'c'
derivative_order = 1
[../]
[./var_dependence]
type = DerivativeParsedMaterial
block = 0
function = 'c*(1.0-c)'
args = c
f_name = var_dep
derivative_order = 1
[../]
[./mobility]
type = CompositeMobilityTensor
block = 0
M_name = mobility_prop
tensors = diffusivity
weights = var_dep
args = c
[../]
[./phase_normal]
type = PhaseNormalTensor
phase = gb
normal_tensor_name = gb_normal
[../]
[./aniso_tensor]
type = GBDependentAnisotropicTensor
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = aniso_tensor
[../]
[./diffusivity]
type = GBDependentDiffusivity
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = diffusivity
[../]
[]
[BCs]
[./Periodic]
[./all]
auto_direction = 'x y'
[../]
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -ksp_grmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
nl_max_its = 5
dt = 20
num_steps = 5
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/examples/tidal/atm_tides.i)
# A 10m x 10m "column" of height 100m is subjected to cyclic pressure at its top
# Assumptions:
# the boundaries are impermeable, except the top boundary
# only vertical displacement is allowed
# the atmospheric pressure sets the total stress at the top of the model
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 10
xmin = 0
xmax = 10
ymin = 0
ymax = 10
zmin = -100
zmax = 0
[]
[GlobalParams]
displacements = 'disp_x disp_y disp_z'
PorousFlowDictator = dictator
block = 0
biot_coefficient = 0.6
multiply_by_density = false
[]
[Variables]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[porepressure]
scaling = 1E11
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '-10000*z' # approximately correct
[]
[]
[Functions]
[ini_stress_zz]
type = ParsedFunction
value = '(25000 - 0.6*10000)*z' # remember this is effective stress
[]
[cyclic_porepressure]
type = ParsedFunction
value = 'if(t>0,5000 * sin(2 * pi * t / 3600.0 / 24.0),0)'
[]
[neg_cyclic_porepressure]
type = ParsedFunction
value = '-if(t>0,5000 * sin(2 * pi * t / 3600.0 / 24.0),0)'
[]
[]
[BCs]
# zmin is called 'back'
# zmax is called 'front'
# ymin is called 'bottom'
# ymax is called 'top'
# xmin is called 'left'
# xmax is called 'right'
[no_x_disp]
type = DirichletBC
variable = disp_x
value = 0
boundary = 'bottom top' # because of 1-element meshing, this fixes u_x=0 everywhere
[]
[no_y_disp]
type = DirichletBC
variable = disp_y
value = 0
boundary = 'bottom top' # because of 1-element meshing, this fixes u_y=0 everywhere
[]
[no_z_disp_at_bottom]
type = DirichletBC
variable = disp_z
value = 0
boundary = back
[]
[pp]
type = FunctionDirichletBC
variable = porepressure
function = cyclic_porepressure
boundary = front
[]
[total_stress_at_top]
type = FunctionNeumannBC
variable = disp_z
function = neg_cyclic_porepressure
boundary = front
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
thermal_expansion = 0.0
bulk_modulus = 2E9
viscosity = 1E-3
density0 = 1000.0
[]
[]
[]
[PorousFlowBasicTHM]
coupling_type = HydroMechanical
displacements = 'disp_x disp_y disp_z'
porepressure = porepressure
gravity = '0 0 -10'
fp = the_simple_fluid
[]
[Materials]
[elasticity_tensor]
type = ComputeIsotropicElasticityTensor
bulk_modulus = 10.0E9 # drained bulk modulus
poissons_ratio = 0.25
[]
[strain]
type = ComputeSmallStrain
eigenstrain_names = ini_stress
[]
[stress]
type = ComputeLinearElasticStress
[]
[ini_stress]
type = ComputeEigenstrainFromInitialStress
initial_stress = '0 0 0 0 0 0 0 0 ini_stress_zz'
eigenstrain_name = ini_stress
[]
[porosity]
type = PorousFlowPorosityConst # only the initial value of this is ever used
porosity = 0.1
[]
[biot_modulus]
type = PorousFlowConstantBiotModulus
solid_bulk_compliance = 1E-10
fluid_bulk_modulus = 2E9
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-14'
[]
[density]
type = GenericConstantMaterial
prop_names = density
prop_values = 2500.0
[]
[]
[Postprocessors]
[p0]
type = PointValue
outputs = csv
point = '0 0 0'
variable = porepressure
[]
[uz0]
type = PointValue
outputs = csv
point = '0 0 0'
variable = disp_z
[]
[p100]
type = PointValue
outputs = csv
point = '0 0 -100'
variable = porepressure
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = Newton
start_time = -3600 # so postprocessors get recorded correctly at t=0
dt = 3600
end_time = 360000
nl_abs_tol = 5E-7
nl_rel_tol = 1E-10
[]
[Outputs]
csv = true
[]
(test/tests/functions/solution_function/solution_function_rot2.i)
# checking rotation of points by 45 deg about y axis in a SolutionUserObject
[Mesh]
# this is chosen so when i rotate through 45deg i get a length of "1" along the x or y or z direction
type = GeneratedMesh
dim = 3
xmin = -0.70710678
xmax = 0.70710678
nx = 3
ymin = -0.70710678
ymax = 0.70710678
ny = 3
zmin = -0.70710678
zmax = 0.70710678
nz = 3
[]
[UserObjects]
[./solution_uo]
type = SolutionUserObject
mesh = cube_with_u_equals_x.e
timestep = 1
system_variables = u
rotation0_vector = '0 1 0'
rotation0_angle = 45
transformation_order = rotation0
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = solution_fcn
[../]
[]
[Functions]
[./solution_fcn]
type = SolutionFunction
from_variable = u
solution = solution_uo
[../]
[]
[Kernels]
[./diff]
type = TimeDerivative
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
l_max_its = 800
nl_rel_tol = 1e-10
num_steps = 1
end_time = 1
dt = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = solution_function_rot2
exodus = true
[]
(test/tests/functions/image_function/threshold_adapt.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
ny = 2
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
threshold = 2.7e4
upper_value = 1
lower_value = -1
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Adaptivity]
max_h_level = 5
initial_steps = 5
initial_marker = marker
[Indicators]
[indicator]
type = GradientJumpIndicator
variable = u
[]
[]
[Markers]
[marker]
type = ErrorFractionMarker
indicator = indicator
refine = 0.9
[]
[]
[]
[Outputs]
exodus = true
[]
(modules/phase_field/test/tests/ExpressionBuilderCoupledVectorTest/testCoupledVector.i)
[Mesh]
type = GeneratedMesh
dim = 2 # Problem dimension
nx = 10
ny = 10
[]
[GlobalParams]
op_num = 2 # Number of grains
var_name_base = gr # Base name of grains
[]
[AuxVariables]
[./gr0]
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[./gr1]
[./InitialCondition]
type = FunctionIC
function = y
[../]
[../]
[]
[Materials]
[./Tester]
type = EBCoupledVarTest
outputs = exodus
[../]
[]
[Executioner]
type = Steady
[]
[Problem]
solve = false
[../]
[Outputs]
exodus = true
execute_on = 'INITIAL TIMESTEP_END'
[]
(test/tests/auxkernels/time_derivative/time_derivative_nl.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = -5.0
xmax = 5.0
[]
[Variables]
[./c]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./c_dot]
order = FIRST
family = LAGRANGE
[../]
[./c_dot_elem]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./coupled_dot]
type = DotCouplingAux
variable = c_dot
v = c
[../]
[./coupled_dot_elem]
type = DotCouplingAux
variable = c_dot_elem
v = c
[../]
[]
[ICs]
[./centered_gauss_func]
type = FunctionIC
variable = c
function = gaussian_1d
[../]
[]
[Functions]
[./gaussian_1d]
type = ParsedFunction
value = exp(-x*x/2.0/1.0/1.0)
[../]
[]
[Kernels]
[./dot]
type = TimeDerivative
variable = c
[../]
[./diff]
type = Diffusion
variable = c
[../]
[]
[BCs]
[./Periodic]
[./auto]
variable = c
auto_direction = 'x'
[../]
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
dt = 0.1
num_steps = 5
[]
[Outputs]
exodus = true
#
[]
(modules/porous_flow/test/tests/chemistry/2species_equilibrium.i)
# PorousFlow analogy of chemical_reactions/test/tests/aqueous_equilibrium/2species.i
#
# Simple equilibrium reaction example to illustrate the use of PorousFlowMassFractionAqueousEquilibriumChemistry
#
# In this example, two primary species a and b are transported by diffusion and convection
# from the left of the porous medium, reacting to form two equilibrium species pa2 and pab
# according to the equilibrium reaction:
#
# reactions = '2a = pa2 rate = 10^2
# a + b = pab rate = 10^-2'
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
[]
[Variables]
[a]
order = FIRST
family = LAGRANGE
[InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[]
[]
[b]
order = FIRST
family = LAGRANGE
[InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[]
[]
[]
[AuxVariables]
[eqm_k0]
initial_condition = 1E2
[]
[eqm_k1]
initial_condition = 1E-2
[]
[pressure]
[]
[pa2]
family = MONOMIAL
order = CONSTANT
[]
[pab]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[pa2]
type = PorousFlowPropertyAux
property = secondary_concentration
secondary_species = 0
variable = pa2
[]
[pab]
type = PorousFlowPropertyAux
property = secondary_concentration
secondary_species = 1
variable = pab
[]
[]
[ICs]
[pressure]
type = FunctionIC
variable = pressure
function = 2-x
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Kernels]
[mass_a]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = a
[]
[flux_a]
type = PorousFlowFullySaturatedDarcyFlow
variable = a
fluid_component = 0
[]
[diff_a]
type = PorousFlowDispersiveFlux
variable = a
fluid_component = 0
disp_trans = 0
disp_long = 0
[]
[mass_b]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = b
[]
[flux_b]
type = PorousFlowFullySaturatedDarcyFlow
variable = b
fluid_component = 1
[]
[diff_b]
type = PorousFlowDispersiveFlux
variable = b
fluid_component = 1
disp_trans = 0
disp_long = 0
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'a b'
number_fluid_phases = 1
number_fluid_components = 3
number_aqueous_equilibrium = 2
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e9 # huge, so mimic chemical_reactions
density0 = 1000
thermal_expansion = 0
viscosity = 1e-3
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseFullySaturated
porepressure = pressure
[]
[massfrac]
type = PorousFlowMassFractionAqueousEquilibriumChemistry
mass_fraction_vars = 'a b'
num_reactions = 2
equilibrium_constants = 'eqm_k0 eqm_k1'
primary_activity_coefficients = '1 1'
secondary_activity_coefficients = '1 1'
reactions = '2 0
1 1'
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.2
[]
[permeability]
type = PorousFlowPermeabilityConst
# porous_flow permeability / porous_flow viscosity = chemical_reactions conductivity = 1E-4
permeability = '1E-7 0 0 0 1E-7 0 0 0 1E-7'
[]
[relp]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[diff]
type = PorousFlowDiffusivityConst
# porous_flow diffusion_coeff * tortuousity * porosity = chemical_reactions diffusivity = 1E-4
diffusion_coeff = '5E-4 5E-4 5E-4'
tortuosity = 1.0
[]
[]
[BCs]
[a_left]
type = DirichletBC
variable = a
boundary = left
value = 1.0e-2
[]
[b_left]
type = DirichletBC
variable = b
boundary = left
value = 1.0e-2
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 10
end_time = 100
[]
[Outputs]
print_linear_residuals = true
exodus = true
perf_graph = true
[]
(test/tests/auxkernels/grad_component/grad_component_monomial.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmax = 2
nx = 20
ny = 10
[]
[Variables]
[./not_u]
[../]
[]
[AuxVariables]
[./u]
family = MONOMIAL
order = FIRST
[../]
[./grad_u_x]
order = CONSTANT
family = MONOMIAL
[../]
[]
[ICs]
[./u]
type = FunctionIC
variable = u
function = 'if(x>0.5,if(x<1.5,2*x,3),0)'
[../]
[]
[AuxKernels]
[./grad_u_x_aux]
type = VariableGradientComponent
variable = grad_u_x
component = x
gradient_variable = u
execute_on = initial
[../]
[]
[Problem]
type = FEProblem
solve = false
kernel_coverage_check = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/chemical_reactions/examples/calcium_bicarbonate/calcium_bicarbonate.i)
# Example of reactive transport model with precipitation and dissolution.
# Calcium (ca2) and bicarbonate (hco3) reaction to form calcite (CaCO3).
# Models bicarbonate injection following calcium injection, so that a
# moving reaction front forms a calcite precipitation zone. As the front moves,
# the upstream side of the front continues to form calcite via precipitation,
# while at the downstream side, dissolution of the solid calcite occurs.
#
# The reaction network considered is as follows:
# Aqueous equilibrium reactions:
# a) h+ + hco3- = CO2(aq), Keq = 10^(6.341)
# b) hco3- = h+ + CO23-, Keq = 10^(-10.325)
# c) ca2+ + hco3- = h+ + CaCO3(aq), Keq = 10^(-7.009)
# d) ca2+ + hco3- = cahco3+, Keq = 10^(-0.653)
# e) ca2+ = h+ + CaOh+, Keq = 10^(-12.85)
# f) - h+ = oh-, Keq = 10^(-13.991)
#
# Kinetic reactions
# g) ca2+ + hco3- = h+ + CaCO3(s), A = 0.461 m^2/L, k = 6.456542e-2 mol/m^2 s,
# Keq = 10^(1.8487)
#
# The primary chemical species are h+, hco3- and ca2+. The pressure gradient is fixed,
# and a conservative tracer is also included.
#
# This example is taken from:
# Guo et al, A parallel, fully coupled, fully implicit solution to reactive
# transport in porous media using the preconditioned Jacobian-Free Newton-Krylov
# Method, Advances in Water Resources, 53, 101-108 (2013).
[Mesh]
type = GeneratedMesh
dim = 2
nx = 100
xmax = 1
ymax = 0.25
[]
[Variables]
[./tracer]
[../]
[./ca2+]
[../]
[./h+]
initial_condition = 1.0e-7
scaling = 1e6
[../]
[./hco3-]
[../]
[]
[AuxVariables]
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./pressure_ic]
type = FunctionIC
variable = pressure
function = pic
[../]
[./hco3_ic]
type = BoundingBoxIC
variable = hco3-
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 0.25
inside = 5.0e-2
outside = 1.0e-6
[../]
[./ca2_ic]
type = BoundingBoxIC
variable = ca2+
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 0.25
inside = 1.0e-6
outside = 5.0e-2
[../]
[./tracer_ic]
type = BoundingBoxIC
variable = tracer
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 0.25
inside = 1.0
outside = 0.0
[../]
[]
[Functions]
[./pic]
type = ParsedFunction
value = 60-50*x
[../]
[]
[ReactionNetwork]
[./AqueousEquilibriumReactions]
primary_species = 'ca2+ hco3- h+'
secondary_species = 'co2_aq co32- caco3_aq cahco3+ caoh+ oh-'
pressure = pressure
reactions = 'h+ + hco3- = co2_aq 6.341,
hco3- - h+ = co32- -10.325,
ca2+ + hco3- - h+ = caco3_aq -7.009,
ca2+ + hco3- = cahco3+ -0.653,
ca2+ - h+ = caoh+ -12.85,
- h+ = oh- -13.991'
[../]
[./SolidKineticReactions]
primary_species = 'ca2+ hco3- h+'
kin_reactions = 'ca2+ + hco3- - h+ = caco3_s'
secondary_species = caco3_s
log10_keq = 1.8487
reference_temperature = 298.15
system_temperature = 298.15
gas_constant = 8.314
specific_reactive_surface_area = 4.61e-4
kinetic_rate_constant = 6.456542e-7
activation_energy = 1.5e4
[../]
[]
[Kernels]
[./tracer_ie]
type = PrimaryTimeDerivative
variable = tracer
[../]
[./tracer_pd]
type = PrimaryDiffusion
variable = tracer
[../]
[./tracer_conv]
type = PrimaryConvection
variable = tracer
p = pressure
[../]
[./ca2+_ie]
type = PrimaryTimeDerivative
variable = ca2+
[../]
[./ca2+_pd]
type = PrimaryDiffusion
variable = ca2+
[../]
[./ca2+_conv]
type = PrimaryConvection
variable = ca2+
p = pressure
[../]
[./h+_ie]
type = PrimaryTimeDerivative
variable = h+
[../]
[./h+_pd]
type = PrimaryDiffusion
variable = h+
[../]
[./h+_conv]
type = PrimaryConvection
variable = h+
p = pressure
[../]
[./hco3-_ie]
type = PrimaryTimeDerivative
variable = hco3-
[../]
[./hco3-_pd]
type = PrimaryDiffusion
variable = hco3-
[../]
[./hco3-_conv]
type = PrimaryConvection
variable = hco3-
p = pressure
[../]
[]
[BCs]
[./tracer_left]
type = DirichletBC
variable = tracer
boundary = left
value = 1.0
[../]
[./tracer_right]
type = ChemicalOutFlowBC
variable = tracer
boundary = right
[../]
[./ca2+_left]
type = SinDirichletBC
variable = ca2+
boundary = left
initial = 5.0e-2
final = 1.0e-6
duration = 1
[../]
[./ca2+_right]
type = ChemicalOutFlowBC
variable = ca2+
boundary = right
[../]
[./hco3-_left]
type = SinDirichletBC
variable = hco3-
boundary = left
initial = 1.0e-6
final = 5.0e-2
duration = 1
[../]
[./hco3-_right]
type = ChemicalOutFlowBC
variable = hco3-
boundary = right
[../]
[./h+_left]
type = DirichletBC
variable = h+
boundary = left
value = 1.0e-7
[../]
[./h+_right]
type = ChemicalOutFlowBC
variable = h+
boundary = right
[../]
[]
[Materials]
[./porous]
type = GenericConstantMaterial
prop_names = 'diffusivity conductivity porosity'
prop_values = '1e-7 2e-4 0.2'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
l_max_its = 50
l_tol = 1e-5
nl_max_its = 10
nl_rel_tol = 1e-5
end_time = 10
[./TimeStepper]
type = ConstantDT
dt = 0.1
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
perf_graph = true
exodus = true
[]
(modules/chemical_reactions/test/tests/aqueous_equilibrium/2species.i)
# Simple equilibrium reaction example to illustrate the use of the AqueousEquilibriumReactions
# action.
# In this example, two primary species a and b are transported by diffusion and convection
# from the left of the porous medium, reacting to form two equilibrium species pa2 and pab
# according to the equilibrium reaction specified in the AqueousEquilibriumReactions block as:
#
# reactions = '2a = pa2 2
# a + b = pab -2'
#
# where the 2 is the weight of the equilibrium species, the 2 on the RHS of the first reaction
# refers to the equilibrium constant (log10(Keq) = 2), and the -2 on the RHS of the second
# reaction equates to log10(Keq) = -2.
#
# The AqueousEquilibriumReactions action creates all the required kernels and auxkernels
# to compute the reaction given by the above equilibrium reaction equation.
#
# Specifically, it adds to following:
# * An AuxVariable named 'pa2' (given in the reactions equations)
# * An AuxVariable named 'pab' (given in the reactions equations)
# * A AqueousEquilibriumRxnAux AuxKernel for each AuxVariable with all parameters
# * A CoupledBEEquilibriumSub Kernel for each primary species with all parameters
# * A CoupledDiffusionReactionSub Kernel for each primary species with all parameters
# * A CoupledConvectionReactionSub Kernel for each primary species with all parameters if
# pressure is a coupled variable
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
[]
[Variables]
[./a]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[../]
[./b]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[../]
[]
[AuxVariables]
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./pressure]
type = FunctionIC
variable = pressure
function = 2-x
[../]
[]
[ReactionNetwork]
[./AqueousEquilibriumReactions]
primary_species = 'a b'
reactions = '2a = pa2 2,
a + b = pab -2'
secondary_species = 'pa2 pab'
pressure = pressure
[../]
[]
[Kernels]
[./a_ie]
type = PrimaryTimeDerivative
variable = a
[../]
[./a_diff]
type = PrimaryDiffusion
variable = a
[../]
[./a_conv]
type = PrimaryConvection
variable = a
p = pressure
[../]
[./b_ie]
type = PrimaryTimeDerivative
variable = b
[../]
[./b_diff]
type = PrimaryDiffusion
variable = b
[../]
[./b_conv]
type = PrimaryConvection
variable = b
p = pressure
[../]
[]
[BCs]
[./a_left]
type = DirichletBC
variable = a
boundary = left
value = 1.0e-2
[../]
[./a_right]
type = ChemicalOutFlowBC
variable = a
boundary = right
[../]
[./b_left]
type = DirichletBC
variable = b
boundary = left
value = 1.0e-2
[../]
[./b_right]
type = ChemicalOutFlowBC
variable = b
boundary = right
[../]
[]
[Materials]
[./porous]
type = GenericConstantMaterial
prop_names = 'diffusivity conductivity porosity'
prop_values = '1e-4 1e-4 0.2'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
nl_abs_tol = 1e-12
start_time = 0.0
end_time = 100
dt = 10.0
[]
[Outputs]
file_base = 2species_out
exodus = true
perf_graph = true
print_linear_residuals = true
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
(modules/richards/test/tests/gravity_head_2/gh04.i)
# unsaturated = true
# gravity = true
# supg = true
# transient = false
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
xmin = 0
xmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1.0E2
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 0.5
bulk_mod = 0.5E2
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.15
[../]
[./SatGas]
type = RichardsSat
s_res = 0.05
sum_s_res = 0.15
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-3
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-3
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
# get nonconvergence if initial condition is too crazy
[./water_ic]
type = FunctionIC
function = '1-x/2'
variable = pwater
[../]
[./gas_ic]
type = FunctionIC
function = '4-x/5'
variable = pgas
[../]
[]
[Kernels]
active = 'richardsfwater richardsfgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[]
[AuxVariables]
[./seffgas]
[../]
[./seffwater]
[../]
[]
[AuxKernels]
[./seffgas_kernel]
type = RichardsSeffAux
pressure_vars = 'pwater pgas'
seff_UO = SeffGas
variable = seffgas
[../]
[./seffwater_kernel]
type = RichardsSeffAux
pressure_vars = 'pwater pgas'
seff_UO = SeffWater
variable = seffwater
[../]
[]
[Postprocessors]
[./pw_left]
type = PointValue
point = '0 0 0'
variable = pwater
outputs = none
[../]
[./pw_right]
type = PointValue
point = '1 0 0'
variable = pwater
outputs = none
[../]
[./error_water]
type = FunctionValuePostprocessor
function = fcn_error_water
[../]
[./pg_left]
type = PointValue
point = '0 0 0'
variable = pgas
outputs = none
[../]
[./pg_right]
type = PointValue
point = '1 0 0'
variable = pgas
outputs = none
[../]
[./error_gas]
type = FunctionValuePostprocessor
function = fcn_error_gas
[../]
[]
[Functions]
[./fcn_error_water]
type = ParsedFunction
value = 'abs((-b*log(-(gdens0*xval+(-b*exp(-p0/b)))/b)-p1)/p1)'
vars = 'b gdens0 p0 xval p1'
vals = '1E2 -1 pw_left 1 pw_right'
[../]
[./fcn_error_gas]
type = ParsedFunction
value = 'abs((-b*log(-(gdens0*xval+(-b*exp(-p0/b)))/b)-p1)/p1)'
vars = 'b gdens0 p0 xval p1'
vals = '0.5E2 -0.5 pg_left 1 pg_right'
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 0.5E-3'
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'gmres asm lu NONZERO 1E-10 1E-10 10000'
[../]
[]
[Executioner]
type = Steady
solve_type = Newton
[]
[Outputs]
execute_on = 'timestep_end'
file_base = gh04
csv = true
[]
(modules/combined/test/tests/DiffuseCreep/strain_gb_relax.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 50
ny = 2
xmin = 0
xmax = 10
ymin = 0
ymax = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);0.1+0.1*v'
[../]
[../]
[./mu]
[../]
[./jx]
[../]
[./jy]
[../]
[]
[AuxVariables]
[./gb]
family = LAGRANGE
order = FIRST
[../]
[./strain_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./strain_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./strain_xy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Kernels]
[./conc]
type = CHSplitConcentration
variable = c
mobility = mobility_prop
chemical_potential_var = mu
[../]
[./chempot]
type = CHSplitChemicalPotential
variable = mu
chemical_potential_prop = mu_prop
c = c
[../]
[./flux_x]
type = CHSplitFlux
variable = jx
component = 0
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./flux_y]
type = CHSplitFlux
variable = jy
component = 1
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[]
[AuxKernels]
[./gb]
type = FunctionAux
variable = gb
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);v'
[../]
[./strain_xx]
type = RankTwoAux
variable = strain_xx
rank_two_tensor = strain
index_i = 0
index_j = 0
[../]
[./strain_yy]
type = RankTwoAux
variable = strain_yy
rank_two_tensor = strain
index_i = 1
index_j = 1
[../]
[./strain_xy]
type = RankTwoAux
variable = strain_xy
rank_two_tensor = strain
index_i = 0
index_j = 1
[../]
[]
[Materials]
[./chemical_potential]
type = DerivativeParsedMaterial
block = 0
f_name = mu_prop
args = c
function = 'c'
derivative_order = 1
[../]
[./var_dependence]
type = DerivativeParsedMaterial
block = 0
function = 'c*(1.0-c)'
args = c
f_name = var_dep
derivative_order = 1
[../]
[./mobility]
type = CompositeMobilityTensor
block = 0
M_name = mobility_prop
tensors = diffusivity
weights = var_dep
args = c
[../]
[./phase_normal]
type = PhaseNormalTensor
phase = gb
normal_tensor_name = gb_normal
[../]
[./aniso_tensor]
type = GBDependentAnisotropicTensor
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = aniso_tensor
[../]
[./diffusivity]
type = GBDependentDiffusivity
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = diffusivity
[../]
[./gb_relax_prefactor]
type = DerivativeParsedMaterial
block = 0
function = '0.01*(c-0.15)*gb'
args = 'c gb'
f_name = gb_relax_prefactor
derivative_order = 1
[../]
[./gb_relax]
type = GBRelaxationStrainIncrement
property_name = gb_relax
prefactor_name = gb_relax_prefactor
gb_normal_name = gb_normal
[../]
[./strain]
type = SumTensorIncrements
tensor_name = strain
coupled_tensor_increment_names = gb_relax
[../]
[]
[BCs]
[./Periodic]
[./all]
auto_direction = 'x y'
[../]
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -ksp_grmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
nl_max_its = 5
dt = 20
num_steps = 5
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/energy_conservation/heat02.i)
# checking that the heat-energy postprocessor correctly calculates the energy
# 1phase, constant porosity
[Mesh]
type = GeneratedMesh
dim = 1
nx = 3
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[temp]
[]
[pp]
[]
[]
[ICs]
[tinit]
type = FunctionIC
function = '100*x'
variable = temp
[]
[pinit]
type = FunctionIC
function = 'x'
variable = pp
[]
[]
[Kernels]
[dummyt]
type = TimeDerivative
variable = temp
[]
[dummyp]
type = TimeDerivative
variable = pp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
viscosity = 0.001
thermal_expansion = 0
cv = 1.3
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 2.2
density = 0.5
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[]
[Postprocessors]
[total_heat]
type = PorousFlowHeatEnergy
phase = 0
[]
[rock_heat]
type = PorousFlowHeatEnergy
[]
[fluid_heat]
type = PorousFlowHeatEnergy
include_porous_skeleton = false
phase = 0
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1 1 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = heat02
csv = true
[]
(test/tests/fvkernels/fv_burgers/fv_burgers.i)
[Mesh]
[./gen_mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 10
nx = 50
[../]
[]
[Variables]
[./v]
family = MONOMIAL
order = CONSTANT
fv = true
[../]
[]
[ICs]
[./v_ic]
type = FunctionIC
variable = v
function = 'if (x > 2 & x < 3, 0.5, 0)'
[../]
[]
[FVKernels]
[./burgers]
type = FVBurgers1D
variable = v
[../]
[./time]
type = FVTimeKernel
variable = v
[../]
[]
[FVBCs]
[./fv_burgers_outflow]
type = FVBurgersOutflowBC
variable = v
boundary = 'left right'
[../]
[]
[Executioner]
type = Transient
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
petsc_options = '-snes_converged_reason'
nl_abs_tol = 1e-7
nl_rel_tol = 1e-8
num_steps = 5
dt = 0.05
[]
[Outputs]
exodus = true
[]
(test/tests/time_integrators/explicit-euler/ee-2d-linear-adapt.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 10
ny = 10
elem_type = QUAD4
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = (x+y)
[../]
[./exact_fn]
type = ParsedFunction
value = t*(x+y)
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
lumping = true
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[BCs]
active = 'all'
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1 2 3'
function = exact_fn
implicit = true
[../]
[]
[Adaptivity]
steps = 1
marker = box
max_h_level = 2
[./Markers]
[./box]
bottom_left = '-0.4 -0.4 0'
inside = refine
top_right = '0.4 0.4 0'
outside = do_nothing
type = BoxMarker
[../]
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
scheme = 'explicit-euler'
start_time = 0.0
num_steps = 4
dt = 0.005
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(test/tests/ics/array_function_ic/array_function_ic_test.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 8
[]
[Problem]
kernel_coverage_check = false
solve = false
[]
[Variables]
[u]
components = 2
[]
[u0]
[]
[u1]
[]
[]
[AuxVariables]
[v]
components = 2
[]
[]
[Functions]
[sinx]
type = ParsedFunction
value = sin(x)
[]
[siny]
type = ParsedFunction
value = sin(y)
[]
[]
[ICs]
[uic]
type = ArrayFunctionIC
variable = u
function = 'sinx siny'
[]
[u0ic]
type = FunctionIC
variable = u0
function = sinx
[]
[u1ic]
type = FunctionIC
variable = u1
function = siny
[]
[vic]
type = ArrayFunctionIC
variable = v
function = 'sinx siny'
[]
[]
[Postprocessors]
[uint0]
type = ElementIntegralArrayVariablePostprocessor
variable = u
component = 0
[]
[uint1]
type = ElementIntegralArrayVariablePostprocessor
variable = u
component = 1
[]
[u0int]
type = ElementIntegralVariablePostprocessor
variable = u0
[]
[u1int]
type = ElementIntegralVariablePostprocessor
variable = u1
[]
[vint0]
type = ElementIntegralArrayVariablePostprocessor
variable = v
component = 0
[]
[vint1]
type = ElementIntegralArrayVariablePostprocessor
variable = v
component = 1
[]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/chemical_reactions/test/tests/parser/equilibrium_action.i)
# Test AqueousEquilibriumReactions parser
[Mesh]
type = GeneratedMesh
dim = 2
[]
[Variables]
[./a]
[../]
[./b]
[../]
[]
[AuxVariables]
[./pressure]
[../]
[]
[ICs]
[./a]
type = BoundingBoxIC
variable = a
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[./b]
type = BoundingBoxIC
variable = b
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[./pressure]
type = FunctionIC
variable = pressure
function = 2-x
[../]
[]
[ReactionNetwork]
[./AqueousEquilibriumReactions]
primary_species = 'a b'
reactions = '2a = pa2 2,
(1.0)a + (1.0)b = pab -2'
secondary_species = 'pa2 pab'
pressure = pressure
[../]
[]
[Kernels]
[./a_ie]
type = PrimaryTimeDerivative
variable = a
[../]
[./a_diff]
type = PrimaryDiffusion
variable = a
[../]
[./a_conv]
type = PrimaryConvection
variable = a
p = pressure
[../]
[./b_ie]
type = PrimaryTimeDerivative
variable = b
[../]
[./b_diff]
type = PrimaryDiffusion
variable = b
[../]
[./b_conv]
type = PrimaryConvection
variable = b
p = pressure
[../]
[]
[BCs]
[./a_left]
type = DirichletBC
variable = a
boundary = left
value = 1.0e-2
[../]
[./a_right]
type = ChemicalOutFlowBC
variable = a
boundary = right
[../]
[./b_left]
type = DirichletBC
variable = b
boundary = left
value = 1.0e-2
[../]
[./b_right]
type = ChemicalOutFlowBC
variable = b
boundary = right
[../]
[]
[Materials]
[./porous]
type = GenericConstantMaterial
prop_names = 'diffusivity conductivity porosity'
prop_values = '1e-4 1e-4 0.2'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
nl_abs_tol = 1e-12
end_time = 10
dt = 10
[]
[Outputs]
file_base = equilibrium_out
exodus = true
perf_graph = true
print_linear_residuals = true
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
(modules/richards/test/tests/sinks/q2p01.i)
# Q2PPiecewiseLinearSink (and the Flux Postprocessor)
# There are three sinks: water with no relperm and density;
# water with relperm and density; gas with relperm and density.
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
[]
[UserObjects]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 0.5
bulk_mod = 0.5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = Q2PRelPermPowerGas
simm = 0.0
n = 3
[../]
[]
[Variables]
[./pp]
[./InitialCondition]
type = FunctionIC
function = 1
[../]
[../]
[./sat]
[./InitialCondition]
type = FunctionIC
function = 0.5
[../]
[../]
[]
[Q2P]
porepressure = pp
saturation = sat
water_density = DensityWater
water_relperm = RelPermWater
water_viscosity = 0.8
gas_density = DensityGas
gas_relperm = RelPermGas
gas_viscosity = 0.5
diffusivity = 0.0
output_total_masses_to = 'CSV'
save_gas_flux_in_Q2PGasFluxResidual = true
save_water_flux_in_Q2PWaterFluxResidual = true
save_gas_Jacobian_in_Q2PGasJacobian = true
save_water_Jacobian_in_Q2PWaterJacobian = true
[]
[Postprocessors]
[./left_water_out]
type = Q2PPiecewiseLinearSinkFlux
boundary = left
porepressure = pp
pressures = '0 1'
bare_fluxes = '0 1.5'
multiplying_fcn = 0.1
execute_on = 'initial timestep_end'
[../]
[./right_water_out]
type = Q2PPiecewiseLinearSinkFlux
boundary = right
porepressure = pp
pressures = '0 1'
bare_fluxes = '1 2'
fluid_density = DensityWater
fluid_viscosity = 0.8
fluid_relperm = RelPermWater
saturation = sat
execute_on = 'initial timestep_end'
[../]
[./right_gas_out]
type = Q2PPiecewiseLinearSinkFlux
boundary = right
porepressure = pp
pressures = '0 1'
bare_fluxes = '1 1'
fluid_density = DensityGas
fluid_viscosity = 0.5
fluid_relperm = RelPermGas
saturation = sat
execute_on = 'initial timestep_end'
[../]
[./p_left]
type = PointValue
point = '0 0 0'
variable = pp
execute_on = 'initial timestep_end'
[../]
[./sat_left]
type = PointValue
point = '0 0 0'
variable = sat
execute_on = 'initial timestep_end'
[../]
[./p_right]
type = PointValue
point = '1 0 0'
variable = pp
execute_on = 'initial timestep_end'
[../]
[./sat_right]
type = PointValue
point = '1 0 0'
variable = sat
execute_on = 'initial timestep_end'
[../]
[]
[BCs]
[./left_water]
type = Q2PPiecewiseLinearSink
boundary = left
pressures = '0 1'
bare_fluxes = '0 1.5'
multiplying_fcn = 0.1
variable = sat
other_var = pp
var_is_porepressure = false
use_mobility = false
use_relperm = false
fluid_density = DensityWater
fluid_viscosity = 0.8
fluid_relperm = RelPermWater
[../]
[./right_water]
type = Q2PPiecewiseLinearSink
boundary = right
pressures = '0 1'
bare_fluxes = '1 2'
variable = sat
other_var = pp
var_is_porepressure = false
use_mobility = true
use_relperm = true
fluid_density = DensityWater
fluid_viscosity = 0.8
fluid_relperm = RelPermWater
[../]
[./right_gas]
type = Q2PPiecewiseLinearSink
boundary = right
pressures = '0 1'
bare_fluxes = '1 1'
variable = pp
other_var = sat
var_is_porepressure = true
use_mobility = true
use_relperm = true
fluid_density = DensityGas
fluid_viscosity = 0.5
fluid_relperm = RelPermGas
[../]
[]
[AuxVariables]
[./one]
initial_condition = 1
[../]
[]
[Materials]
[./rock]
type = Q2PMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
gravity = '0 0 0'
[../]
[]
[Preconditioning]
active = 'andy'
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-10 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 0.1
end_time = 0.5
[]
[Outputs]
file_base = q2p01
exodus = true
[./CSV]
type = CSV
[../]
[]
(modules/geochemistry/test/tests/nodal_void_volume/nodal_void_volume_adaptive.i)
# Computes nodal void volume, when using adaptivity, and compares with the Postprocessor hand-calculated values
[Mesh]
[mesh]
type = CartesianMeshGenerator
dim = 2
dx = '1 1 2 2'
dy = '1 4'
[]
[]
[Adaptivity]
initial_marker = u_marker
marker = u_marker
max_h_level = 1
[Markers]
[u_marker]
type = ValueRangeMarker
variable = u
invert = true
lower_bound = 0.02
upper_bound = 0.98
[]
[]
[]
[Variables]
[u]
[]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'if(x<2,0,1)'
[]
[]
[Kernels]
[dot]
type = TimeDerivative
variable = u
[]
[u]
type = Diffusion
variable = u
[]
[]
[Executioner]
type = Transient
dt = 1
end_time = 2
[]
[Outputs]
csv = true
[]
[UserObjects]
[nodal_void_volume]
type = NodalVoidVolume
porosity = porosity
[]
[]
[AuxVariables]
[porosity]
family = MONOMIAL
order = CONSTANT
[]
[vol]
[]
[]
[AuxKernels]
[porosity]
type = FunctionAux
variable = porosity
function = 'if(x<4, 1, 2)'
[]
[vol]
type = NodalVoidVolumeAux
variable = vol
nodal_void_volume_uo = nodal_void_volume
[]
[]
[Postprocessors]
[quarter]
type = PointValue
point = '0 0 0'
variable = vol
[]
[half]
type = PointValue
point = '1 0 0'
variable = vol
[]
[three_quarters]
type = PointValue
point = '2 0 0'
variable = vol
[]
[one_and_half_to_34s]
type = PointValue
point = '4 0 0'
variable = vol
[]
[one_to_14]
type = PointValue
point = '6 0 0'
variable = vol
[]
[one_and_quarter]
type = PointValue
point = '0 1 0'
variable = vol
[]
[two_and_half]
type = PointValue
point = '1 1 0'
variable = vol
[]
[three_and_three_quarters]
type = PointValue
point = '2 1 0'
variable = vol
[]
[seven_and_half_to_334]
type = PointValue
point = '4 1 0'
variable = vol
[]
[five_to_54]
type = PointValue
point = '6 1 0'
variable = vol
[]
[]
(test/tests/bcs/sin_bc/sin_neumann_test.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
nz = 0
zmin = 0
zmax = 0
elem_type = QUAD4
[]
[Functions]
[./initial_value]
type = ParsedFunction
value = 'x'
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
# [./InitialCondition]
# type = FunctionIC
# function = initial_value
# [../]
[../]
[]
[Kernels]
active = 'diff ie'
[./diff]
type = Diffusion
variable = u
[../]
[./ie]
type = TimeDerivative
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 1
[../]
[./right]
type = SinNeumannBC
variable = u
boundary = 1
initial = 1.0
final = 2.0
duration = 10.0
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
num_steps = 10
dt = 1.0
[]
[Outputs]
exodus = true
[]
(modules/tensor_mechanics/test/tests/CylindricalRankTwoAux/test.i)
[Mesh]
[file_mesh]
type = FileMeshGenerator
file = circle.e
[]
[cnode]
type = ExtraNodesetGenerator
coord = '1000.0 0.0'
new_boundary = 10
input = file_mesh
[]
[]
[Variables]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[AuxVariables]
[./T]
[../]
[./stress_rr]
order = CONSTANT
family = MONOMIAL
[../]
[./stress_tt]
order = CONSTANT
family = MONOMIAL
[../]
[]
[ICs]
[./T_IC]
type = FunctionIC
variable = T
function = '1000-0.7*sqrt(x^2+y^2)'
[../]
[]
[Kernels]
[./TensorMechanics]
displacements = 'disp_x disp_y'
[../]
[]
[AuxKernels]
[./stress_rr]
type = CylindricalRankTwoAux
variable = stress_rr
rank_two_tensor = stress
index_j = 0
index_i = 0
center_point = '0 0 0'
[../]
[./stress_tt]
type = CylindricalRankTwoAux
variable = stress_tt
rank_two_tensor = stress
index_j = 1
index_i = 1
center_point = '0 0 0'
[../]
[]
[BCs]
[./outer_x]
type = DirichletBC
variable = disp_x
boundary = 2
value = 0
[../]
[./outer_y]
type = DirichletBC
variable = disp_y
boundary = '2 10'
value = 0
[../]
[]
[Materials]
[./iso_C]
type = ComputeElasticityTensor
fill_method = symmetric_isotropic
C_ijkl = '2.15e5 0.74e5'
block = 1
[../]
[./strain]
type = ComputeSmallStrain
displacements = 'disp_x disp_y'
block = 1
eigenstrain_names = eigenstrain
[../]
[./stress]
type = ComputeLinearElasticStress
block = 1
[../]
[./thermal_strain]
type= ComputeThermalExpansionEigenstrain
thermal_expansion_coeff = 1e-6
temperature = T
stress_free_temperature = 273
block = 1
eigenstrain_name = eigenstrain
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type -ksp_gmres_restart'
petsc_options_value = 'hypre boomeramg 101'
l_max_its = 30
nl_max_its = 10
nl_abs_tol = 1e-9
nl_rel_tol = 1e-14
l_tol = 1e-4
[]
[Outputs]
exodus = true
perf_graph = true
[]
(modules/navier_stokes/test/tests/bcs/advection_bc/2d_advection_bc.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 10.0
ymax = 10
nx = 10
ny = 10
[]
[Variables]
[./phi]
[../]
[]
[AuxVariables]
[./vx]
[../]
[./force]
[../]
[]
[ICs]
[./vx]
type = FunctionIC
variable = vx
function = vx_function
[../]
[./force]
type = FunctionIC
variable = force
function = forcing
[../]
[]
[Kernels]
[./advection]
type = MassConvectiveFlux
variable = phi
vel_x = vx
[../]
[./rhs]
type = CoupledForce
variable = phi
v = force
[../]
[]
[BCs]
[./inflow_enthalpy]
type = DirichletBC
variable = phi
boundary = 'left'
value = 1
[../]
[./outflow_term]
type = AdvectionBC
variable = phi
velocity_vector = 'vx'
boundary = 'right'
[../]
[]
[Functions]
[./vx_function]
type = ParsedFunction
value = '1 + x * x'
[../]
[./forcing]
type = ParsedFunction
value = 'x'
[../]
[./analytical]
type = ParsedFunction
value = '(1 + 0.5 * x * x) / (1 + x * x)'
[../]
[]
[Postprocessors]
[./error]
type = ElementL2Error
variable = phi
function = analytical
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
perf_graph = true
[]
(test/tests/postprocessors/variable_inner_product/variable_inner_product.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
ny = 2
xmin = -1
xmax = 1
ymin = 0
ymax = 1
elem_type = QUAD9
[]
[AuxVariables]
[./f]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = leg2
[../]
[../]
[./g]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = leg1
[../]
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[Functions]
[./leg1]
type = ParsedFunction
value = 'x'
[../]
[./leg2]
type = ParsedFunction
value = '0.5*(3.0*x*x-1.0)'
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 1
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 2
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[./Quadrature]
order = fourth
[]
[]
[Postprocessors]
[./f_dot_g]
type = VariableInnerProduct
variable = f
second_variable = g
[../]
[./f_dot_f]
type = VariableInnerProduct
variable = f
second_variable = f
[../]
[./norm_f]
type = ElementL2Norm
variable = f
[../]
[]
[Outputs]
file_base = variable_inner_product
csv = true
[]
(modules/phase_field/examples/interfacekernels/interface_fluxbc.i)
#
# This test demonstrates an InterfaceKernel (InterfaceDiffusionFlux) that can
# replace a pair of integrated DiffusionFluxBC boundary conditions.
#
# The AuxVariable 'diff' shows the difference between the BC and the InterfaceKernel
# approach.
#
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 50
ny = 50
[]
[./box1]
input = gen
type = SubdomainBoundingBoxGenerator
block_id = 1
bottom_left = '0 0 0'
top_right = '0.51 1 0'
[../]
[./box2]
input = box1
type = SubdomainBoundingBoxGenerator
block_id = 2
bottom_left = '0.49 0 0'
top_right = '1 1 0'
[../]
[./iface_u]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 1
paired_block = 2
new_boundary = 10
input = box2
[../]
[./iface_v]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 2
paired_block = 1
new_boundary = 11
input = iface_u
[../]
[]
[Variables]
[./u1]
block = 1
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.4)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[./v1]
block = 2
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.7)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[./u2]
block = 1
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.4)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[./v2]
block = 2
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.7)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[]
[Kernels]
[./u1_diff]
type = Diffusion
variable = u1
block = 1
[../]
[./u1_dt]
type = TimeDerivative
variable = u1
block = 1
[../]
[./v1_diff]
type = Diffusion
variable = v1
block = 2
[../]
[./v1_dt]
type = TimeDerivative
variable = v1
block = 2
[../]
[./u2_diff]
type = Diffusion
variable = u2
block = 1
[../]
[./u2_dt]
type = TimeDerivative
variable = u2
block = 1
[../]
[./v2_diff]
type = Diffusion
variable = v2
block = 2
[../]
[./v2_dt]
type = TimeDerivative
variable = v2
block = 2
[../]
[]
[AuxVariables]
[./diff]
[../]
[]
[AuxKernels]
[./u_side]
type = ParsedAux
variable = diff
block = 1
args = 'u1 u2'
function = 'u1 - u2'
[../]
[./v_side]
type = ParsedAux
variable = diff
block = 2
args = 'v1 v2'
function = 'v1 - v2'
[../]
[]
[InterfaceKernels]
[./iface]
type = InterfaceDiffusionBoundaryTerm
boundary = 10
variable = u2
neighbor_var = v2
[../]
[]
[BCs]
[./u_boundary_term]
type = DiffusionFluxBC
variable = u1
boundary = 10
[../]
[./v_boundary_term]
type = DiffusionFluxBC
variable = v1
boundary = 11
[../]
[]
[Executioner]
type = Transient
dt = 0.001
num_steps = 20
[]
[Outputs]
exodus = true
print_linear_residuals = false
[]
(test/tests/functions/constant_function/constant_function_test.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 4
ny = 4
elem_type = QUAD4
[]
[Functions]
[./bc_fn]
type = ParsedFunction
value = 'x*x+y*y'
[../]
[./icfn]
type = ConstantFunction
value = 1
[../]
[./ffn]
type = ConstantFunction
value = -4
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = icfn
[../]
[../]
[]
[Kernels]
# Coupling of nonlinear to Aux
[./diff]
type = Diffusion
variable = u
[../]
[./force]
type = BodyForce
variable = u
function = ffn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1 2 3'
function = bc_fn
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
exodus = true
[]
(modules/navier_stokes/test/tests/finite_volume/cns/userobject/HLLC/hllc_uo_1D.i)
rho_left = 1.162633159
E_left = 2.1502913276e+05
u_left = 100
rho_right = 1.116127833
E_right = 1.7919094397e+05
u_right = 90
[Mesh]
allow_renumbering = false
[./cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 1
nx = 2
[../]
[]
[Modules]
[./FluidProperties]
[./fp]
type = IdealGasFluidProperties
allow_imperfect_jacobians = true
[../]
[../]
[]
[Problem]
kernel_coverage_check = false
[]
[Variables]
[./rho]
order = CONSTANT
family = MONOMIAL
[../]
[./rho_u]
order = CONSTANT
family = MONOMIAL
[../]
[./rho_E]
order = CONSTANT
family = MONOMIAL
[../]
[]
[ICs]
[./rho_ic]
type = FunctionIC
variable = rho
function = 'if (x < 0.5, ${rho_left}, ${rho_right})'
[../]
[./rho_u_ic]
type = FunctionIC
variable = rho_u
function = 'if (x < 0.5, ${fparse rho_left * u_left}, ${fparse rho_right * u_right})'
[../]
[./rho_E_ic]
type = FunctionIC
variable = rho_E
function = 'if (x < 0.5, ${fparse E_left * rho_left}, ${fparse E_right * rho_right})'
[../]
[]
[Materials]
[./var_mat]
type = ConservedVarValuesMaterial
rho = rho
rhou = rho_u
rho_et = rho_E
fp = fp
[../]
[]
[UserObjects]
[./hllc]
type = HLLCUserObject
fp = fp
[../]
[]
[VectorPostprocessors]
[./wave_speeds]
type = WaveSpeedVPP
hllc_uo = hllc
elem_id = 0
side_id = 1
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
csv = true
[]
(modules/porous_flow/test/tests/numerical_diffusion/fltvd_none.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek
# No antidiffusion, so this is identical to full-upwinding
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculator
flux_limiter_type = none
u = tracer
velocity = '0.1 0 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-1
nl_abs_tol = 1E-8
nl_max_its = 500
timestep_tolerance = 1E-3
[]
[Outputs]
csv = true
execute_on = final
[]
(modules/porous_flow/test/tests/poroperm/except2.i)
# Exception test: fluid=true but no solid_bulk is provided
[Mesh]
type = GeneratedMesh
dim = 3
[]
[GlobalParams]
PorousFlowDictator = dictator
displacements = 'disp_x disp_y disp_z'
biot_coefficient = 0.7
[]
[Variables]
[porepressure]
initial_condition = 2
[]
[temperature]
initial_condition = 4
[]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[]
[ICs]
[disp_x]
type = FunctionIC
function = '0.5 * x'
variable = disp_x
[]
[]
[Kernels]
[dummy_p]
type = TimeDerivative
variable = porepressure
[]
[dummy_t]
type = TimeDerivative
variable = temperature
[]
[dummy_x]
type = TimeDerivative
variable = disp_x
[]
[dummy_y]
type = TimeDerivative
variable = disp_y
[]
[dummy_z]
type = TimeDerivative
variable = disp_z
[]
[]
[AuxVariables]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[porosity]
type = PorousFlowPropertyAux
property = porosity
variable = porosity
[]
[]
[Postprocessors]
[porosity]
type = PointValue
variable = porosity
point = '0 0 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure temperature'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temperature
[]
[eff_fluid_pressure]
type = PorousFlowEffectiveFluidPressure
[]
[vol_strain]
type = PorousFlowVolumetricStrain
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[porosity]
type = PorousFlowPorosity
mechanical = true
fluid = true
thermal = true
ensure_positive = false
porosity_zero = 0.5
thermal_expansion_coeff = 0.5
reference_porepressure = 3
reference_temperature = 3.5
[]
[]
[Executioner]
solve_type = Newton
type = Transient
num_steps = 1
[]
[Outputs]
csv = true
[]
(modules/porous_flow/examples/lava_lamp/1phase_convection.i)
# Two phase density-driven convection of dissolved CO2 in brine
#
# The model starts with CO2 in the liquid phase only. The CO2 diffuses into the brine.
# As the density of the CO2-saturated brine is greater
# than the unsaturated brine, a gravitational instability arises and density-driven
# convection of CO2-rich fingers descend into the unsaturated brine.
#
# The instability is seeded by a random perturbation to the porosity field.
# Mesh adaptivity is used to refine the mesh as the fingers form.
#
# Note: this model is computationally expensive, so should be run with multiple cores.
[GlobalParams]
PorousFlowDictator = 'dictator'
gravity = '0 -9.81 0'
[]
[Adaptivity]
max_h_level = 2
marker = marker
initial_marker = initial
initial_steps = 2
[Indicators]
[indicator]
type = GradientJumpIndicator
variable = zi
[]
[]
[Markers]
[marker]
type = ErrorFractionMarker
indicator = indicator
refine = 0.8
[]
[initial]
type = BoxMarker
bottom_left = '0 1.95 0'
top_right = '2 2 0'
inside = REFINE
outside = DO_NOTHING
[]
[]
[]
[Mesh]
type = GeneratedMesh
dim = 2
ymin = 1.5
ymax = 2
xmax = 2
ny = 20
nx = 40
bias_y = 0.95
[]
[AuxVariables]
[xnacl]
initial_condition = 0.01
[]
[saturation_gas]
order = FIRST
family = MONOMIAL
[]
[xco2l]
order = FIRST
family = MONOMIAL
[]
[density_liquid]
order = FIRST
family = MONOMIAL
[]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[saturation_gas]
type = PorousFlowPropertyAux
variable = saturation_gas
property = saturation
phase = 1
execute_on = 'timestep_end'
[]
[xco2l]
type = PorousFlowPropertyAux
variable = xco2l
property = mass_fraction
phase = 0
fluid_component = 1
execute_on = 'timestep_end'
[]
[density_liquid]
type = PorousFlowPropertyAux
variable = density_liquid
property = density
phase = 0
execute_on = 'timestep_end'
[]
[]
[Variables]
[pgas]
[]
[zi]
scaling = 1e4
[]
[]
[ICs]
[pressure]
type = FunctionIC
function = 10e6-9.81*1000*y
variable = pgas
[]
[zi]
type = ConstantIC
value = 0
variable = zi
[]
[porosity]
type = RandomIC
variable = porosity
min = 0.25
max = 0.275
seed = 0
[]
[]
[BCs]
[top]
type = DirichletBC
value = 0.04
variable = zi
boundary = top
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pgas
[]
[flux0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pgas
[]
[diff0]
type = PorousFlowDispersiveFlux
fluid_component = 0
variable = pgas
disp_long = '0 0'
disp_trans = '0 0'
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = zi
[]
[flux1]
type = PorousFlowAdvectiveFlux
fluid_component = 1
variable = zi
[]
[diff1]
type = PorousFlowDispersiveFlux
fluid_component = 1
variable = zi
disp_long = '0 0'
disp_trans = '0 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pgas zi'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[fs]
type = PorousFlowBrineCO2
brine_fp = brine
co2_fp = co2
capillary_pressure = pc
[]
[]
[Modules]
[FluidProperties]
[co2sw]
type = CO2FluidProperties
[]
[co2]
type = TabulatedFluidProperties
fp = co2sw
[]
[brine]
type = BrineFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = '45'
[]
[brineco2]
type = PorousFlowFluidState
gas_porepressure = 'pgas'
z = 'zi'
temperature_unit = Celsius
xnacl = 'xnacl'
capillary_pressure = pc
fluid_state = fs
[]
[porosity]
type = PorousFlowPorosityConst
porosity = porosity
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1e-11 0 0 0 1e-11 0 0 0 1e-11'
[]
[relperm_water]
type = PorousFlowRelativePermeabilityCorey
phase = 0
n = 2
s_res = 0.1
sum_s_res = 0.2
[]
[relperm_gas]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
s_res = 0.1
sum_s_res = 0.2
[]
[diffusivity]
type = PorousFlowDiffusivityConst
diffusion_coeff = '2e-9 2e-9 2e-9 2e-9'
tortuosity = '1 1'
[]
[]
[Preconditioning]
active = basic
[mumps_is_best_for_parallel_jobs]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[basic]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu NONZERO 2 '
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 1e6
nl_max_its = 25
l_max_its = 100
dtmax = 1e4
nl_abs_tol = 1e-6
[TimeStepper]
type = IterationAdaptiveDT
dt = 100
growth_factor = 2
cutback_factor = 0.5
[]
[]
[Functions]
[flux]
type = ParsedFunction
vals = 'delta_xco2 dt'
vars = 'dx dt'
value = 'dx/dt'
[]
[]
[Postprocessors]
[total_co2_in_gas]
type = PorousFlowFluidMass
phase = 1
fluid_component = 1
[]
[total_co2_in_liquid]
type = PorousFlowFluidMass
phase = 0
fluid_component = 1
[]
[numdofs]
type = NumDOFs
[]
[delta_xco2]
type = ChangeOverTimePostprocessor
postprocessor = total_co2_in_liquid
[]
[dt]
type = TimestepSize
[]
[flux]
type = FunctionValuePostprocessor
function = flux
[]
[]
[Outputs]
print_linear_residuals = false
perf_graph = true
exodus = true
csv = true
[]
(modules/porous_flow/test/tests/jacobian/fflux02_fully_saturated.i)
# Using PorousFlowFullySaturatedAdvectiveFlux
# 1phase, 3components, constant insitu permeability
# density with constant bulk, constant viscosity, nonzero gravity
[Mesh]
type = GeneratedMesh
dim = 1
nx = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[massfrac0]
[]
[massfrac1]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = -0.7+x+y
[]
[massfrac0]
type = RandomIC
variable = massfrac0
min = 0
max = 0.3
[]
[massfrac1]
type = RandomIC
variable = massfrac1
min = 0
max = 0.4
[]
[]
[Kernels]
[flux0]
type = PorousFlowFullySaturatedAdvectiveFlux
fluid_component = 0
variable = pp
gravity = '-1 -0.1 0'
[]
[flux1]
type = PorousFlowFullySaturatedAdvectiveFlux
fluid_component = 1
variable = massfrac0
gravity = '-1 -0.1 0'
[]
[flux2]
type = PorousFlowFullySaturatedAdvectiveFlux
fluid_component = 2
variable = massfrac1
gravity = '-1 -0.1 0'
[]
[flux0_nodensity]
type = PorousFlowFullySaturatedAdvectiveFlux
fluid_component = 0
variable = pp
gravity = '-1 -0.1 0'
multiply_by_density = false
[]
[flux1_nodensity]
type = PorousFlowFullySaturatedAdvectiveFlux
fluid_component = 1
variable = massfrac0
gravity = '-1 -0.1 0'
multiply_by_density = false
[]
[flux2_nodensity]
type = PorousFlowFullySaturatedAdvectiveFlux
fluid_component = 2
variable = massfrac1
gravity = '-1 -0.1 0'
multiply_by_density = false
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp massfrac0 massfrac1'
number_fluid_phases = 1
number_fluid_components = 3
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.5
density0 = 1
thermal_expansion = 0
viscosity = 1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseFullySaturated
porepressure = pp
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac0 massfrac1'
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '2 0 0 0 2 0 0 0 3'
[]
[]
[Preconditioning]
active = check
[check]
type = SMP
full = true
petsc_options_iname = '-snes_type'
petsc_options_value = 'test'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
num_steps = 1
[]
(test/tests/time_integrators/explicit-euler/ee-1d-quadratic-neumann.i)
[GlobalParams]
implicit = false
[]
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 10
elem_type = EDGE3
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x*x-2*t+t*x*x
[../]
[./exact_fn]
type = ParsedFunction
value = t*x*x
[../]
[./left_bc_fn]
type = ParsedFunction
value = -t*2*x
[../]
[./right_bc_fn]
type = ParsedFunction
value = t*2*x
[../]
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./abs]
type = Reaction
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./left]
type = FunctionNeumannBC
variable = u
boundary = '0'
function = left_bc_fn
[../]
[./right]
type = FunctionNeumannBC
variable = u
boundary = '1'
function = right_bc_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
scheme = 'explicit-euler'
solve_type = 'LINEAR'
l_tol = 1e-12
start_time = 0.0
num_steps = 10
dt = 0.001
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/porous_flow/examples/groundwater/ex01.i)
# Groundwater extraction example.
# System consists of two confined aquifers separated by an aquitard
# There is a hydraulic gradient in the upper aquifer
# A well extracts water from the lower aquifer, and the impact on the upper aquifer is observed
# In the center of the model, the roof of the upper aquifer sits 70m below the local water table
[Mesh]
[basic_mesh]
type = GeneratedMeshGenerator
dim = 3
xmin = -50
xmax = 50
nx = 20
ymin = -25
ymax = 25
ny = 10
zmin = -100
zmax = -70
nz = 3
[]
[lower_aquifer]
type = SubdomainBoundingBoxGenerator
input = basic_mesh
block_id = 1
block_name = lower_aquifer
bottom_left = '-1000 -500 -100'
top_right = '1000 500 -90'
[]
[aquitard]
type = SubdomainBoundingBoxGenerator
input = lower_aquifer
block_id = 2
block_name = aquitard
bottom_left = '-1000 -500 -90'
top_right = '1000 500 -80'
[]
[upper_aquifer]
type = SubdomainBoundingBoxGenerator
input = aquitard
block_id = 3
block_name = upper_aquifer
bottom_left = '-1000 -500 -80'
top_right = '1000 500 -70'
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = insitu_pp
[]
[]
[BCs]
[pp]
type = FunctionDirichletBC
variable = pp
function = insitu_pp
boundary = 'left right top bottom front back'
[]
[]
[Functions]
[upper_aquifer_head]
type = ParsedFunction
value = '10 + x / 200'
[]
[lower_aquifer_head]
type = ParsedFunction
value = '20'
[]
[insitu_head]
type = ParsedFunction
vals = 'lower_aquifer_head upper_aquifer_head'
vars = 'low up'
value = 'if(z <= -90, low, if(z >= -80, up, (up * (z + 90) - low * (z + 80)) / (10.0)))'
[]
[insitu_pp]
type = ParsedFunction
vals = 'insitu_head'
vars = 'h'
value = '(h - z) * 1E4'
[]
[l_rate]
type = ParsedFunction
vals = 'm3_produced dt'
vars = 'm3_produced dt'
value = '1000 * m3_produced / dt'
[]
[]
[AuxVariables]
[insitu_head]
[]
[head_change]
[]
[]
[AuxKernels]
[insitu_head]
type = FunctionAux
variable = insitu_head
function = insitu_head
[]
[head_change]
type = ParsedAux
args = 'pp insitu_head'
use_xyzt = true
function = 'pp / 1E4 + z - insitu_head'
variable = head_change
[]
[]
[Postprocessors]
[m3_produced]
type = PorousFlowPlotQuantity
uo = volume_extracted
outputs = 'none'
[]
[dt]
type = TimestepSize
outputs = 'none'
[]
[l_per_s]
type = FunctionValuePostprocessor
function = l_rate
[]
[]
[VectorPostprocessors]
[drawdown]
type = LineValueSampler
variable = head_change
start_point = '-50 0 -75'
end_point = '50 0 -75'
num_points = 101
sort_by = x
[]
[]
[PorousFlowBasicTHM]
fp = simple_fluid
gravity = '0 0 -10'
porepressure = pp
multiply_by_density = false
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
# the following mean that density = 1000 * exp(P / 1E15) ~ 1000
thermal_expansion = 0
bulk_modulus = 1E15
[]
[]
[]
[Materials]
[porosity_aquifers]
type = PorousFlowPorosityConst
porosity = 0.05
block = 'upper_aquifer lower_aquifer'
[]
[porosity_aquitard]
type = PorousFlowPorosityConst
porosity = 0.2
block = aquitard
[]
[biot_mod]
type = PorousFlowConstantBiotModulus
fluid_bulk_modulus = 2E9
biot_coefficient = 1.0
[]
[permeability_aquifers]
type = PorousFlowPermeabilityConst
permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
block = 'upper_aquifer lower_aquifer'
[]
[permeability_aquitard]
type = PorousFlowPermeabilityConst
permeability = '1E-16 0 0 0 1E-16 0 0 0 1E-17'
block = aquitard
[]
[]
[DiracKernels]
[sink]
type = PorousFlowPolyLineSink
SumQuantityUO = volume_extracted
point_file = ex01.bh_lower
line_length = 10
variable = pp
# following produces a flux of 0 m^3(water)/m(borehole length)/s if porepressure = 0, and a flux of 1 m^3/m/s if porepressure = 1E9
p_or_t_vals = '0 1E9'
fluxes = '0 1'
[]
[]
[UserObjects]
[volume_extracted]
type = PorousFlowSumQuantity
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = Newton
[TimeStepper]
type = SolutionTimeAdaptiveDT
dt = 1.1E5
[]
end_time = 3.456E5 # 4 days
nl_abs_tol = 1E-13
[]
[Outputs]
[csv]
type = CSV
file_base = ex01_lower_extraction
execute_on = final
[]
[]
(modules/combined/test/tests/DiffuseCreep/stress_based_chem_pot.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 50
ny = 2
xmin = 0
xmax = 10
ymin = 0
ymax = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);0.1+0.1*v'
[../]
[../]
[./mu]
[../]
[./jx]
[../]
[./jy]
[../]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[AuxVariables]
[./gb]
family = LAGRANGE
order = FIRST
[../]
[./creep_strain_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_xy]
family = MONOMIAL
order = CONSTANT
[../]
[./mu_prop]
family = MONOMIAL
order = CONSTANT
[../]
[./mech_prop]
family = MONOMIAL
order = CONSTANT
[../]
[./total_potential]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Kernels]
[./conc]
type = CHSplitConcentration
variable = c
mobility = mobility_prop
chemical_potential_var = mu
[../]
[./chempot]
type = CHSplitChemicalPotential
variable = mu
chemical_potential_prop = total_potential
c = c
[../]
[./flux_x]
type = CHSplitFlux
variable = jx
component = 0
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./flux_y]
type = CHSplitFlux
variable = jy
component = 1
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[./TensorMechanics]
displacements = 'disp_x disp_y'
[../]
[]
[AuxKernels]
[./gb]
type = FunctionAux
variable = gb
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);v'
[../]
[./creep_strain_xx]
type = RankTwoAux
variable = creep_strain_xx
rank_two_tensor = creep_strain
index_i = 0
index_j = 0
[../]
[./stress_xx]
type = RankTwoAux
variable = stress_xx
rank_two_tensor = stress
index_i = 0
index_j = 0
[../]
[./stress_yy]
type = RankTwoAux
variable = stress_yy
rank_two_tensor = stress
index_i = 1
index_j = 1
[../]
[./stress_xy]
type = RankTwoAux
variable = stress_xy
rank_two_tensor = stress
index_i = 0
index_j = 1
[../]
[./mu_prop]
type = MaterialRealAux
property = mu_prop
variable = mu_prop
[../]
[./mech_prop]
type = MaterialRealAux
property = mech_prop
variable = mech_prop
[../]
[./total_potential]
type = MaterialRealAux
property = total_potential
variable = total_potential
[../]
[]
[Materials]
[./chemical_potential]
type = DerivativeParsedMaterial
block = 0
f_name = mu_prop
args = c
function = 'c'
derivative_order = 1
[../]
[./mechanical_potential]
type = StressBasedChemicalPotential
property_name = mech_prop
stress_name = stress
direction_tensor_name = aniso_tensor
prefactor_name = 1.0
[../]
[./total_potential]
type = DerivativeSumMaterial
block = 0
f_name = total_potential
sum_materials = 'mu_prop mech_prop'
args = 'c'
derivative_order = 2
[../]
[./var_dependence]
type = DerivativeParsedMaterial
block = 0
function = 'c*(1.0-c)'
args = c
f_name = var_dep
derivative_order = 1
[../]
[./mobility]
type = CompositeMobilityTensor
block = 0
M_name = mobility_prop
tensors = diffusivity
weights = var_dep
args = c
[../]
[./phase_normal]
type = PhaseNormalTensor
phase = gb
normal_tensor_name = gb_normal
[../]
[./aniso_tensor]
type = GBDependentAnisotropicTensor
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = aniso_tensor
[../]
[./diffusivity]
type = GBDependentDiffusivity
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = diffusivity
[../]
[./diffuse_strain_increment]
type = FluxBasedStrainIncrement
xflux = jx
yflux = jy
gb = gb
property_name = diffuse
[../]
[./diffuse_creep_strain]
type = SumTensorIncrements
tensor_name = creep_strain
coupled_tensor_increment_names = diffuse
[../]
[./strain]
type = ComputeIncrementalSmallStrain
displacements = 'disp_x disp_y'
[../]
[./stress]
type = ComputeStrainIncrementBasedStress
inelastic_strain_names = creep_strain
[../]
[./elasticity_tensor]
type = ComputeElasticityTensor
C_ijkl = '120.0 80.0'
fill_method = symmetric_isotropic
[../]
[]
[BCs]
[./Periodic]
[./cbc]
auto_direction = 'x y'
variable = c
[../]
[../]
[./fix_x]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[./fix_y]
type = DirichletBC
variable = disp_y
boundary = bottom
value = 0
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -ksp_grmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
nl_rel_tol = 1e-10
nl_max_its = 5
l_tol = 1e-4
l_max_its = 20
dt = 1
num_steps = 5
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(modules/navier_stokes/test/tests/finite_volume/cns/benchmark_shock_tube_1D/hllc_sod_shocktube.i)
rho_left = 1
E_left = 2.501505578
u_left = 1e-15
rho_right = 0.125
E_right = 1.999770935
u_right = 1e-15
middle = 50
[GlobalParams]
fp = fp
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = ${fparse 2 * middle}
nx = 1000
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
[]
[]
[]
[Variables]
[rho]
order = CONSTANT
family = MONOMIAL
fv = true
[]
[rho_u]
order = CONSTANT
family = MONOMIAL
fv = true
[]
[rho_E]
order = CONSTANT
family = MONOMIAL
fv = true
[]
[]
[AuxVariables]
[rho_a]
order = CONSTANT
family = MONOMIAL
[]
[]
[FVKernels]
[mass_time]
type = FVTimeKernel
variable = rho
[]
[mass_advection]
type = CNSFVMassHLLC
variable = rho
[]
[momentum_time]
type = FVTimeKernel
variable = rho_u
[]
[momentum_advection]
type = CNSFVMomentumHLLC
variable = rho_u
momentum_component = x
[]
[fluid_energy_time]
type = FVTimeKernel
variable = rho_E
[../]
[fluid_energy_advection]
type = CNSFVFluidEnergyHLLC
variable = rho_E
[]
[]
[FVBCs]
[mass_implicit]
type = CNSFVHLLCMassImplicitBC
variable = rho
fp = fp
boundary = 'left right'
[]
[mom_implicit]
type = CNSFVHLLCMomentumImplicitBC
variable = rho_u
momentum_component = x
fp = fp
boundary = 'left right'
[]
[fluid_energy_implicit]
type = CNSFVHLLCFluidEnergyImplicitBC
variable = rho_E
fp = fp
boundary = 'left right'
[]
[]
[ICs]
[rho_ic]
type = FunctionIC
variable = rho
function = 'if (x < ${middle}, ${rho_left}, ${rho_right})'
[]
[rho_u_ic]
type = FunctionIC
variable = rho_u
function = 'if (x < ${middle}, ${fparse rho_left * u_left}, ${fparse rho_right * u_right})'
[]
[rho_E_ic]
type = FunctionIC
variable = rho_E
function = 'if (x < ${middle}, ${fparse E_left * rho_left}, ${fparse E_right * rho_right})'
[]
[]
[Materials]
[var_mat]
type = ConservedVarValuesMaterial
rho = rho
rhou = rho_u
rho_et = rho_E
fp = fp
[]
[]
[Preconditioning]
active = ''
[./smp]
type = SMP
full = true
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
[../]
[]
[Executioner]
type = Transient
[TimeIntegrator]
type = ExplicitSSPRungeKutta
order = 2
[]
l_tol = 1e-8
start_time = 0.0
dt = 1e-2
end_time = 20
abort_on_solve_fail = true
[]
[Outputs]
exodus = true
perf_graph = true
[]
(test/tests/materials/derivative_material_interface/parsed_material.i)
#
# Test the parsed function free enery Allen-Cahn Bulk kernel
#
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[AuxVariables]
[./eta]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[]
[Materials]
[./consts]
type = ParsedMaterial
args = 'eta'
function ='(eta-0.5)^2'
outputs = exodus
[../]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(test/tests/multiapps/grid-sequencing/vi-coarse.i)
l=10
nx=40
num_steps=2
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[bounds][]
[]
[Bounds]
[./u_upper_bound]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = upper
bound_value = ${l}
[../]
[./u_lower_bound]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = lower
bound_value = 0
[../]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x'
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = u
[]
[diff]
type = Diffusion
variable = u
[]
[ffn]
type = BodyForce
variable = u
function = 'if(x<5,-1,1)'
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 0
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = ${l}
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options = '-snes_vi_monitor'
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type -snes_type'
petsc_options_value = '0 30 asm 16 basic vinewtonrsls'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
active = 'upper_violations lower_violations'
[upper_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = ${fparse 10+1e-8}
comparator = 'greater'
[]
[lower_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = -1e-8
comparator = 'less'
[]
[nls]
type = NumNonlinearIterations
[]
[cum_nls]
type = CumulativeValuePostprocessor
postprocessor = nls
[]
[]
[MultiApps]
[./coarser]
type = TransientMultiApp
app_type = MooseTestApp
execute_on = timestep_begin
positions = '0 0 0'
input_files = vi-coarser.i
[../]
[]
[Transfers]
[./mesh_function_begin]
type = MultiAppMeshFunctionTransfer
direction = from_multiapp
multi_app = coarser
source_variable = u
variable = u
execute_on = timestep_begin
[../]
[]
(test/tests/misc/check_error/function_file_test10.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
xy_data = '1 2'
scale_factor = 1.0
axis = 3
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/richards/test/tests/user_objects/uo4.i)
# Seff 2-phase User objects give the correct value
#
# If you want to add another test for another UserObject
# then add the UserObject, add a Function defining the expected result,
# add an AuxVariable and AuxKernel that will record the UserObjects value
# and finally add a NodalL2Error that compares this with the Function
#
# Here pressure is x where x is between -5 and 5
[UserObjects]
[./Seff2waterVG]
type = RichardsSeff2waterVG
m = 0.8
al = 0.3
[../]
[./Seff2gasVG]
type = RichardsSeff2gasVG
m = 0.8
al = 0.3
[../]
[./Seff2waterVGshifted]
type = RichardsSeff2waterVGshifted
m = 0.8
al = 0.3
shift = 2
[../]
[./Seff2gasVGshifted]
type = RichardsSeff2gasVGshifted
m = 0.8
al = 0.3
shift = 2
[../]
# following are unimportant in this test
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.10101
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.05
sum_s_res = 0.1
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1
[../]
[]
[Functions]
[./initial_pwater]
type = ParsedFunction
value = x
[../]
[./initial_pgas]
type = ParsedFunction
value = 5.0
[../]
[./answer_Seff2waterVG]
type = ParsedFunction
value = (1+max((-(x-5))*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '0.3 0.8'
[../]
[./answer_dSeff2waterVG]
type = GradParsedFunction
direction = '1E-5 0 0'
value = (1+max((-(x-5))*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '0.3 0.8'
[../]
[./answer_d2Seff2waterVG]
type = Grad2ParsedFunction
direction = '1E-4 0 0'
value = (1+max((-(x-5))*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '0.3 0.8'
[../]
[./answer_Seff2gasVG]
type = ParsedFunction
value = 1-(1+max((-(x-5))*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '0.3 0.8'
[../]
[./answer_dSeff2gasVG]
type = GradParsedFunction
direction = '1E-5 0 0'
value = 1-(1+max((-(x-5))*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '0.3 0.8'
[../]
[./answer_d2Seff2gasVG]
type = Grad2ParsedFunction
direction = '1E-4 0 0'
value = 1-(1+max((-(x-5))*al,0)^(1/(1-m)))^(-m)
vars = 'al m'
vals = '0.3 0.8'
[../]
[./answer_Seff2waterVGshifted]
type = ParsedFunction
value = ((1+max((-(x-5-shift))*al,0)^(1/(1-m)))^(-m))/((1+max((-(-shift))*al,0)^(1/(1-m)))^(-m))
vars = 'al m shift'
vals = '0.3 0.8 2'
[../]
[./answer_dSeff2waterVGshifted]
type = GradParsedFunction
direction = '1E-5 0 0'
value = ((1+max((-(x-5-shift))*al,0)^(1/(1-m)))^(-m))/((1+max((-(-shift))*al,0)^(1/(1-m)))^(-m))
vars = 'al m shift'
vals = '0.3 0.8 2'
[../]
[./answer_d2Seff2waterVGshifted]
type = Grad2ParsedFunction
direction = '1E-4 0 0'
value = ((1+max((-(x-5-shift))*al,0)^(1/(1-m)))^(-m))/((1+max((-(-shift))*al,0)^(1/(1-m)))^(-m))
vars = 'al m shift'
vals = '0.3 0.8 2'
[../]
[./answer_Seff2gasVGshifted]
type = ParsedFunction
value = 1-((1+max((-(x-5-shift))*al,0)^(1/(1-m)))^(-m))/((1+max((-(-shift))*al,0)^(1/(1-m)))^(-m))
vars = 'al m shift'
vals = '0.3 0.8 2'
[../]
[./answer_dSeff2gasVGshifted]
type = GradParsedFunction
direction = '1E-5 0 0'
value = 1-((1+max((-(x-5-shift))*al,0)^(1/(1-m)))^(-m))/((1+max((-(-shift))*al,0)^(1/(1-m)))^(-m))
vars = 'al m shift'
vals = '0.3 0.8 2'
[../]
[./answer_d2Seff2gasVGshifted]
type = Grad2ParsedFunction
direction = '1E-4 0 0'
value = 1-((1+max((-(x-5-shift))*al,0)^(1/(1-m)))^(-m))/((1+max((-(-shift))*al,0)^(1/(1-m)))^(-m))
vars = 'al m shift'
vals = '0.3 0.8 2'
[../]
[]
[AuxVariables]
[./Seff2waterVG_Aux]
[../]
[./dSeff2waterVG_Aux]
[../]
[./d2Seff2waterVG_Aux]
[../]
[./Seff2gasVG_Aux]
[../]
[./dSeff2gasVG_Aux]
[../]
[./d2Seff2gasVG_Aux]
[../]
[./Seff2waterVGshifted_Aux]
[../]
[./dSeff2waterVGshifted_Aux]
[../]
[./d2Seff2waterVGshifted_Aux]
[../]
[./Seff2gasVGshifted_Aux]
[../]
[./dSeff2gasVGshifted_Aux]
[../]
[./d2Seff2gasVGshifted_Aux]
[../]
[./check_Aux]
[../]
[]
[AuxKernels]
[./Seff2waterVG_AuxK]
type = RichardsSeffAux
variable = Seff2waterVG_Aux
seff_UO = Seff2waterVG
pressure_vars = 'pwater pgas'
[../]
[./dSeff2waterVG_AuxK]
type = RichardsSeffPrimeAux
variable = dSeff2waterVG_Aux
seff_UO = Seff2waterVG
pressure_vars = 'pwater pgas'
wrtnum = 0
[../]
[./d2Seff2waterVG_AuxK]
type = RichardsSeffPrimePrimeAux
variable = d2Seff2waterVG_Aux
seff_UO = Seff2waterVG
pressure_vars = 'pwater pgas'
wrtnum1 = 0
wrtnum2 = 0
[../]
[./Seff2gasVG_AuxK]
type = RichardsSeffAux
variable = Seff2gasVG_Aux
seff_UO = Seff2gasVG
pressure_vars = 'pwater pgas'
[../]
[./dSeff2gasVG_AuxK]
type = RichardsSeffPrimeAux
variable = dSeff2gasVG_Aux
seff_UO = Seff2gasVG
pressure_vars = 'pwater pgas'
wrtnum = 0
[../]
[./d2Seff2gasVG_AuxK]
type = RichardsSeffPrimePrimeAux
variable = d2Seff2gasVG_Aux
seff_UO = Seff2gasVG
pressure_vars = 'pwater pgas'
wrtnum1 = 0
wrtnum2 = 0
[../]
[./Seff2waterVGshifted_AuxK]
type = RichardsSeffAux
variable = Seff2waterVGshifted_Aux
seff_UO = Seff2waterVGshifted
pressure_vars = 'pwater pgas'
[../]
[./dSeff2waterVGshifted_AuxK]
type = RichardsSeffPrimeAux
variable = dSeff2waterVGshifted_Aux
seff_UO = Seff2waterVGshifted
pressure_vars = 'pwater pgas'
wrtnum = 0
[../]
[./d2Seff2waterVGshifted_AuxK]
type = RichardsSeffPrimePrimeAux
variable = d2Seff2waterVGshifted_Aux
seff_UO = Seff2waterVGshifted
pressure_vars = 'pwater pgas'
wrtnum1 = 0
wrtnum2 = 0
[../]
[./Seff2gasVGshifted_AuxK]
type = RichardsSeffAux
variable = Seff2gasVGshifted_Aux
seff_UO = Seff2gasVGshifted
pressure_vars = 'pwater pgas'
[../]
[./dSeff2gasVGshifted_AuxK]
type = RichardsSeffPrimeAux
variable = dSeff2gasVGshifted_Aux
seff_UO = Seff2gasVGshifted
pressure_vars = 'pwater pgas'
wrtnum = 0
[../]
[./d2Seff2gasVGshifted_AuxK]
type = RichardsSeffPrimePrimeAux
variable = d2Seff2gasVGshifted_Aux
seff_UO = Seff2gasVGshifted
pressure_vars = 'pwater pgas'
wrtnum1 = 0
wrtnum2 = 0
[../]
[./check_AuxK]
type = FunctionAux
variable = check_Aux
function = answer_d2Seff2waterVGshifted
[../]
[]
[Postprocessors]
[./cf_Seff2waterVG]
type = NodalL2Error
function = answer_Seff2waterVG
variable = Seff2waterVG_Aux
[../]
[./cf_dSeff2waterVG]
type = NodalL2Error
function = answer_dSeff2waterVG
variable = dSeff2waterVG_Aux
[../]
[./cf_d2Seff2waterVG]
type = NodalL2Error
function = answer_d2Seff2waterVG
variable = d2Seff2waterVG_Aux
[../]
[./cf_Seff2gasVG]
type = NodalL2Error
function = answer_Seff2gasVG
variable = Seff2gasVG_Aux
[../]
[./cf_dSeff2gasVG]
type = NodalL2Error
function = answer_dSeff2gasVG
variable = dSeff2gasVG_Aux
[../]
[./cf_d2Seff2gasVG]
type = NodalL2Error
function = answer_d2Seff2gasVG
variable = d2Seff2gasVG_Aux
[../]
[./cf_Seff2waterVGshifted]
type = NodalL2Error
function = answer_Seff2waterVGshifted
variable = Seff2waterVGshifted_Aux
[../]
[./cf_dSeff2waterVGshifted]
type = NodalL2Error
function = answer_dSeff2waterVGshifted
variable = dSeff2waterVGshifted_Aux
[../]
[./cf_d2Seff2waterVGshifted]
type = NodalL2Error
function = answer_d2Seff2waterVGshifted
variable = d2Seff2waterVGshifted_Aux
[../]
[./cf_Seff2gasVGshifted]
type = NodalL2Error
function = answer_Seff2gasVGshifted
variable = Seff2gasVGshifted_Aux
[../]
[./cf_dSeff2gasVGshifted]
type = NodalL2Error
function = answer_dSeff2gasVGshifted
variable = dSeff2gasVGshifted_Aux
[../]
[./cf_d2Seff2gasVGshifted]
type = NodalL2Error
function = answer_d2Seff2gasVGshifted
variable = d2Seff2gasVGshifted_Aux
[../]
[]
#############################################################################
#
# Following is largely unimportant as we are not running an actual similation
#
#############################################################################
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = -5
xmax = 5
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pwater
[../]
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pgas
[../]
[../]
[]
[Kernels]
active = 'watert gast'
[./watert]
type = RichardsMassChange
richardsVarNames_UO = PPNames
variable = pwater
[../]
[./gast]
type = RichardsMassChange
richardsVarNames_UO = PPNames
variable = pgas
[../]
[]
[Materials]
[./unimportant_material]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-20 0 0 0 1E-20 0 0 0 1E-20'
richardsVarNames_UO = PPNames
density_UO = 'DensityConstBulk DensityConstBulk'
relperm_UO = 'RelPermPower RelPermPower'
sat_UO = 'Saturation Saturation'
seff_UO = 'Seff2waterVG Seff2gasVG'
SUPG_UO = 'SUPGstandard SUPGstandard'
viscosity = '1E-3 1E-5'
gravity = '0 0 -10'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./does_nothing]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E50 1E50 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
num_steps = 1
dt = 1E-100
[]
[Outputs]
execute_on = 'timestep_end'
active = 'csv'
file_base = uo4
[./csv]
type = CSV
[../]
[./exodus]
type = Exodus
[../]
[]
(test/tests/functions/function_ic/function_ic_test.i)
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_cond_func
[../]
[../]
[]
[AuxVariables]
active = 'u_aux'
[./u_aux]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_cond_func
[../]
[../]
[]
[Functions]
[./initial_cond_func]
type = ParsedFunction
value = x+2
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
nl_rel_tol = 1e-10
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/combined/test/tests/multiphase_mechanics/nonsplit_gradderiv_action.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 5
xmax = 10
ymax = 10
[]
[GlobalParams]
displacements = 'disp_x disp_y'
displacement_gradients = 'gxx gxy gyx gyy'
[]
[Modules]
[./PhaseField]
[./DisplacementGradients]
[../]
[../]
[]
[AuxVariables]
[./disp_x]
[./InitialCondition]
type = FunctionIC
function = '0.1*sin(2*x/10*3.14159265359)'
[../]
[../]
[./disp_y]
[./InitialCondition]
type = FunctionIC
function = '0.1*sin(1*y/10*3.14159265359)'
[../]
[../]
[]
[Variables]
[./c]
order = THIRD
family = HERMITE
initial_condition = 0
[../]
[]
[Kernels]
[./dt]
type = TimeDerivative
variable = c
[../]
[./bulk]
type = CahnHilliard
variable = c
mob_name = M
f_name = F
[../]
[./int]
type = CHInterface
variable = c
mob_name = M
kappa_name = kappa_c
[../]
[]
[BCs]
[./Periodic]
[./All]
auto_direction = 'x y'
[../]
[../]
[]
[Materials]
[./consts]
type = GenericConstantMaterial
prop_names = 'M kappa_c'
prop_values = '1 0.1'
[../]
[./elasticity_tensor]
type = ComputeConcentrationDependentElasticityTensor
c = c
C0_ijkl = '1.0 1.0'
C1_ijkl = '3.0 3.0'
fill_method0 = symmetric_isotropic
fill_method1 = symmetric_isotropic
[../]
[./smallstrain]
type = ComputeSmallStrain
[../]
[./linearelastic_a]
type = ComputeLinearElasticStress
[../]
[./elastic_free_energy]
type = ElasticEnergyMaterial
f_name = F
args = 'c'
derivative_order = 3
[../]
[]
[Executioner]
type = Transient
scheme = 'bdf2'
solve_type = NEWTON
l_max_its = 30
l_tol = 1.0e-6
nl_max_its = 15
nl_rel_tol = 1.0e-7
nl_abs_tol = 1.0e-10
num_steps = 2
dt = 1
[]
[Outputs]
perf_graph = true
file_base = nonsplit_gradderiv_out
exodus = true
[]
(modules/porous_flow/test/tests/energy_conservation/except02.i)
# checking that the heat-energy postprocessor throws the correct error if the kernel_variable_number is illegal
[Mesh]
type = GeneratedMesh
dim = 1
nx = 3
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[temp]
[]
[]
[ICs]
[tinit]
type = FunctionIC
function = '100*x'
variable = temp
[]
[pinit]
type = FunctionIC
function = x
variable = pp
[]
[]
[Kernels]
[dummyt]
type = TimeDerivative
variable = temp
[]
[dummyp]
type = TimeDerivative
variable = pp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
viscosity = 0.001
thermal_expansion = 0
cv = 1.3
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 2.2
density = 0.5
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[]
[Postprocessors]
[total_heat]
type = PorousFlowHeatEnergy
kernel_variable_number = 2
[]
[rock_heat]
type = PorousFlowHeatEnergy
[]
[fluid_heat]
type = PorousFlowHeatEnergy
include_porous_skeleton = false
phase = 0
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1 1 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = except01
csv = true
[]
(modules/combined/examples/publications/rapid_dev/fig6.i)
#
# Fig. 6 input for 10.1016/j.commatsci.2017.02.017
# D. Schwen et al./Computational Materials Science 132 (2017) 36-45
# Three phase interface simulation demonstrating the interfacial stability
# w.r.t. formation of a tspurious third phase
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 120
ny = 120
nz = 0
xmin = 0
xmax = 40
ymin = 0
ymax = 40
zmin = 0
zmax = 0
elem_type = QUAD4
[]
[Variables]
# concentration
[./c]
[../]
# order parameter 1
[./eta1]
[../]
# order parameter 2
[./eta2]
[../]
# order parameter 3
[./eta3]
[../]
# phase concentration 1
[./c1]
initial_condition = 0.4
[../]
# phase concentration 2
[./c2]
initial_condition = 0.5
[../]
# phase concentration 3
[./c3]
initial_condition = 0.8
[../]
# Lagrange multiplier
[./lambda]
initial_condition = 0.0
[../]
[]
[AuxVariables]
[./T]
[./InitialCondition]
type = FunctionIC
function = 'x-10'
[../]
[../]
[]
[Functions]
[./ic_func_eta1]
type = ParsedFunction
value = '0.5*(1.0+tanh((x-10)/sqrt(2.0))) * 0.5*(1.0+tanh((y-10)/sqrt(2.0)))'
[../]
[./ic_func_eta2]
type = ParsedFunction
value = '0.5*(1.0-tanh((x-10)/sqrt(2.0)))'
[../]
[./ic_func_eta3]
type = ParsedFunction
value = '1 - 0.5*(1.0-tanh((x-10)/sqrt(2.0)))
- 0.5*(1.0+tanh((x-10)/sqrt(2.0))) * 0.5*(1.0+tanh((y-10)/sqrt(2.0)))'
[../]
[./ic_func_c]
type = ParsedFunction
value = '0.5 * 0.5*(1.0-tanh((x-10)/sqrt(2.0)))
+ 0.4 * 0.5*(1.0+tanh((x-10)/sqrt(2.0))) * 0.5*(1.0+tanh((y-10)/sqrt(2.0)))
+ 0.8 * (1 - 0.5*(1.0-tanh((x-10)/sqrt(2.0)))
- 0.5*(1.0+tanh((x-10)/sqrt(2.0))) * 0.5*(1.0+tanh((y-10)/sqrt(2.0))))'
[../]
[]
[ICs]
[./eta1]
variable = eta1
type = FunctionIC
function = ic_func_eta1
[../]
[./eta2]
variable = eta2
type = FunctionIC
function = ic_func_eta2
[../]
[./eta3]
variable = eta3
type = FunctionIC
function = ic_func_eta3
[../]
[./c]
variable = c
type = FunctionIC
function = ic_func_c
[../]
[]
[Materials]
# simple toy free energies
[./f1]
type = DerivativeParsedMaterial
f_name = F1
args = 'c1'
function = '20*(c1-0.4)^2'
[../]
[./f2]
type = DerivativeParsedMaterial
f_name = F2
args = 'c2 T'
function = '20*(c2-0.5)^2 + 0.01*T'
[../]
[./f3]
type = DerivativeParsedMaterial
f_name = F3
args = 'c3'
function = '20*(c3-0.8)^2'
[../]
# Switching functions for each phase
# h1(eta1, eta2, eta3)
[./h1]
type = SwitchingFunction3PhaseMaterial
eta_i = eta1
eta_j = eta2
eta_k = eta3
f_name = h1
[../]
# h2(eta1, eta2, eta3)
[./h2]
type = SwitchingFunction3PhaseMaterial
eta_i = eta2
eta_j = eta3
eta_k = eta1
f_name = h2
[../]
# h3(eta1, eta2, eta3)
[./h3]
type = SwitchingFunction3PhaseMaterial
eta_i = eta3
eta_j = eta1
eta_k = eta2
f_name = h3
[../]
# Coefficients for diffusion equation
[./Dh1]
type = DerivativeParsedMaterial
material_property_names = 'D h1'
function = D*h1
f_name = Dh1
[../]
[./Dh2]
type = DerivativeParsedMaterial
material_property_names = 'D h2'
function = D*h2
f_name = Dh2
[../]
[./Dh3]
type = DerivativeParsedMaterial
material_property_names = 'D h3'
function = D*h3
f_name = Dh3
[../]
# Barrier functions for each phase
[./g1]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta1
function_name = g1
[../]
[./g2]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta2
function_name = g2
[../]
[./g3]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta3
function_name = g3
[../]
# constant properties
[./constants]
type = GenericConstantMaterial
prop_names = 'L kappa D'
prop_values = '1.0 1.0 1'
[../]
[]
[Kernels]
#Kernels for diffusion equation
[./diff_time]
type = TimeDerivative
variable = c
[../]
[./diff_c1]
type = MatDiffusion
variable = c
diffusivity = Dh1
v = c1
[../]
[./diff_c2]
type = MatDiffusion
variable = c
diffusivity = Dh2
v = c2
[../]
[./diff_c3]
type = MatDiffusion
variable = c
diffusivity = Dh3
v = c3
[../]
# Kernels for Allen-Cahn equation for eta1
[./deta1dt]
type = TimeDerivative
variable = eta1
[../]
[./ACBulkF1]
type = KKSMultiACBulkF
variable = eta1
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
gi_name = g1
eta_i = eta1
wi = 1.0
args = 'c1 c2 c3 eta2 eta3'
[../]
[./ACBulkC1]
type = KKSMultiACBulkC
variable = eta1
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
cj_names = 'c1 c2 c3'
eta_i = eta1
args = 'eta2 eta3'
[../]
[./ACInterface1]
type = ACInterface
variable = eta1
kappa_name = kappa
[../]
[./multipler1]
type = MatReaction
variable = eta1
v = lambda
mob_name = L
[../]
# Kernels for Allen-Cahn equation for eta2
[./deta2dt]
type = TimeDerivative
variable = eta2
[../]
[./ACBulkF2]
type = KKSMultiACBulkF
variable = eta2
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
gi_name = g2
eta_i = eta2
wi = 1.0
args = 'c1 c2 c3 eta1 eta3'
[../]
[./ACBulkC2]
type = KKSMultiACBulkC
variable = eta2
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
cj_names = 'c1 c2 c3'
eta_i = eta2
args = 'eta1 eta3'
[../]
[./ACInterface2]
type = ACInterface
variable = eta2
kappa_name = kappa
[../]
[./multipler2]
type = MatReaction
variable = eta2
v = lambda
mob_name = L
[../]
# Kernels for the Lagrange multiplier equation
[./mult_lambda]
type = MatReaction
variable = lambda
mob_name = 3
[../]
[./mult_ACBulkF_1]
type = KKSMultiACBulkF
variable = lambda
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
gi_name = g1
eta_i = eta1
wi = 1.0
mob_name = 1
args = 'c1 c2 c3 eta2 eta3'
[../]
[./mult_ACBulkC_1]
type = KKSMultiACBulkC
variable = lambda
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
cj_names = 'c1 c2 c3'
eta_i = eta1
args = 'eta2 eta3'
mob_name = 1
[../]
[./mult_CoupledACint_1]
type = SimpleCoupledACInterface
variable = lambda
v = eta1
kappa_name = kappa
mob_name = 1
[../]
[./mult_ACBulkF_2]
type = KKSMultiACBulkF
variable = lambda
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
gi_name = g2
eta_i = eta2
wi = 1.0
mob_name = 1
args = 'c1 c2 c3 eta1 eta3'
[../]
[./mult_ACBulkC_2]
type = KKSMultiACBulkC
variable = lambda
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
cj_names = 'c1 c2 c3'
eta_i = eta2
args = 'eta1 eta3'
mob_name = 1
[../]
[./mult_CoupledACint_2]
type = SimpleCoupledACInterface
variable = lambda
v = eta2
kappa_name = kappa
mob_name = 1
[../]
[./mult_ACBulkF_3]
type = KKSMultiACBulkF
variable = lambda
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
gi_name = g3
eta_i = eta3
wi = 1.0
mob_name = 1
args = 'c1 c2 c3 eta1 eta2'
[../]
[./mult_ACBulkC_3]
type = KKSMultiACBulkC
variable = lambda
Fj_names = 'F1 F2 F3'
hj_names = 'h1 h2 h3'
cj_names = 'c1 c2 c3'
eta_i = eta3
args = 'eta1 eta2'
mob_name = 1
[../]
[./mult_CoupledACint_3]
type = SimpleCoupledACInterface
variable = lambda
v = eta3
kappa_name = kappa
mob_name = 1
[../]
# Kernels for constraint equation eta1 + eta2 + eta3 = 1
# eta3 is the nonlinear variable for the constraint equation
[./eta3reaction]
type = MatReaction
variable = eta3
mob_name = 1
[../]
[./eta1reaction]
type = MatReaction
variable = eta3
v = eta1
mob_name = 1
[../]
[./eta2reaction]
type = MatReaction
variable = eta3
v = eta2
mob_name = 1
[../]
[./one]
type = BodyForce
variable = eta3
value = -1.0
[../]
# Phase concentration constraints
[./chempot12]
type = KKSPhaseChemicalPotential
variable = c1
cb = c2
fa_name = F1
fb_name = F2
[../]
[./chempot23]
type = KKSPhaseChemicalPotential
variable = c2
cb = c3
fa_name = F2
fb_name = F3
[../]
[./phaseconcentration]
type = KKSMultiPhaseConcentration
variable = c3
cj = 'c1 c2 c3'
hj_names = 'h1 h2 h3'
etas = 'eta1 eta2 eta3'
c = c
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm ilu nonzero'
l_max_its = 30
nl_max_its = 10
l_tol = 1.0e-4
nl_rel_tol = 1.0e-10
nl_abs_tol = 1.0e-11
num_steps = 1000
[./TimeStepper]
type = IterationAdaptiveDT
dt = 0.2
optimal_iterations = 10
iteration_window = 2
[../]
[]
[Preconditioning]
active = 'full'
[./full]
type = SMP
full = true
[../]
[./mydebug]
type = FDP
full = true
[../]
[]
[Outputs]
exodus = true
checkpoint = true
print_linear_residuals = false
[./csv]
type = CSV
execute_on = 'final'
[../]
[]
#[VectorPostprocessors]
# [./c]
# type = LineValueSampler
# start_point = '-25 0 0'
# end_point = '25 0 0'
# variable = c
# num_points = 151
# sort_by = id
# execute_on = timestep_end
# [../]
# [./eta1]
# type = LineValueSampler
# start_point = '-25 0 0'
# end_point = '25 0 0'
# variable = eta1
# num_points = 151
# sort_by = id
# execute_on = timestep_end
# [../]
# [./eta2]
# type = LineValueSampler
# start_point = '-25 0 0'
# end_point = '25 0 0'
# variable = eta2
# num_points = 151
# sort_by = id
# execute_on = timestep_end
# [../]
# [./eta3]
# type = LineValueSampler
# start_point = '-25 0 0'
# end_point = '25 0 0'
# variable = eta3
# num_points = 151
# sort_by = id
# execute_on = timestep_end
# [../]
#[]
(modules/porous_flow/test/tests/relperm/corey1.i)
# Test Corey relative permeability curve by varying saturation over the mesh
# Corey exponent n = 1 for both phases (linear residual saturation)
# No residual saturation in either phase
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityCorey
phase = 0
n = 1
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 1
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-8
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(test/tests/nodalkernels/constraint_enforcement/lower-bound.i)
l=10
nx=100
num_steps=10
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[lm]
[]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = '${l} - x'
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = u
[]
[diff]
type = Diffusion
variable = u
[]
[ffn]
type = BodyForce
variable = u
function = '-1'
[]
[]
[NodalKernels]
[positive_constraint]
type = LowerBoundNodalKernel
variable = lm
v = u
exclude_boundaries = 'left right'
[]
[forces]
type = CoupledForceNodalKernel
variable = u
v = lm
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = ${l}
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = 0
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type'
petsc_options_value = '0 30 asm 16 basic'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[active_lm]
type = GreaterThanLessThanPostprocessor
variable = lm
execute_on = 'nonlinear timestep_end'
value = 1e-8
[]
[violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = -1e-8
comparator = 'less'
[]
[]
(modules/richards/test/tests/theis/th01.i)
# fully-saturated
# production
[Mesh]
type = FileMesh
file = th01_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '0.5 1 2 10'
x = '0 1 10 100'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsPolyLineSink
pressures = '-1E9 1E9'
fluxes = '200 200'
point_file = th01.points
SumQuantityUO = total_outflow_mass
variable = pressure
[../]
[]
[Postprocessors]
[./flow_report]
type = RichardsPlotQuantity
uo = total_outflow_mass
[../]
[./p50]
type = PointValue
variable = pressure
point = '50 0 0'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E5
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-6 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 100
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
execute_on = 'timestep_end'
file_base = th01
csv = true
[]
(modules/richards/test/tests/buckley_leverett/bl20_lumped.i)
# two-phase version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 30
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '0.1 0.5 0.5 1 2 4'
x = '0 0.1 1 5 40 42'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-5
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./w_aux_seff]
[../]
[]
[Kernels]
[./richardstwater]
type = RichardsLumpedMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsLumpedMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[]
[AuxKernels]
[./w_aux_seff_auxk]
type = RichardsSeffAux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
variable = w_aux_seff
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_water
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_gas
[../]
[]
[BCs]
[./left_w]
type = DirichletBC
variable = pwater
boundary = left
value = 1E6
[../]
[./left_g]
type = DirichletBC
variable = pgas
boundary = left
value = 1000
[../]
[./right_w]
type = DirichletBC
variable = pwater
boundary = right
value = -300000
[../]
[./right_g]
type = DirichletBC
variable = pgas
boundary = right
value = 0
[../]
[]
[Functions]
[./initial_water]
type = ParsedFunction
value = 1000000*(1-min(x/5,1))-if(x<5,0,300000)
[../]
[./initial_gas]
type = ParsedFunction
value = 1000
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
viscosity = '1E-3 1E-6'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'standard'
[./bounded]
# must use --use-petsc-dm command line argument
type = SMP
full = true
petsc_options_iname = '-snes_type -pc_factor_shift_type'
petsc_options_value = 'vinewtonssls nonzero'
[../]
[./standard]
type = SMP
full = true
petsc_options_iname = '-pc_factor_shift_type'
petsc_options_value = 'nonzero'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 50
nl_rel_tol = 1.e-9
nl_max_its = 10
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bl20_lumped
execute_on = 'initial timestep_end final'
interval = 100000
exodus = true
hide = pgas
[./console_out]
type = Console
interval = 1
[../]
[]
(modules/phase_field/test/tests/free_energy_material/IdealGasFreeEnergy.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
elem_type = QUAD4
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = x*0.4+0.001
[../]
[../]
[./T]
[./InitialCondition]
type = FunctionIC
function = y*1999+1
[../]
[../]
[]
[Materials]
[./free_energy]
type = IdealGasFreeEnergy
f_name = Fgas
m = 134 # Xenon
omega = 41
c = c
T = T
outputs = exodus
[../]
[]
[Problem]
solve = false
kernel_coverage_check = false
[]
[Executioner]
type = Transient
num_steps = 1
[]
[Outputs]
exodus = true
[]
(test/tests/misc/check_error/missing_function_test.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = missing_function #should generate error
[../]
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/porous_flow/test/tests/sinks/s13.i)
# Apply a PorousFlowOutflowBC to the right-hand side and watch fluid flow to it
#
# This test has a single phase with two components. The test initialises with
# the porous material fully filled with component=1. The left-hand side is fixed
# at porepressure=1 and mass-fraction of the zeroth component being unity.
# The right-hand side has
# - porepressure fixed at zero via a DirichletBC: physically this removes component=1
# to ensure that porepressure remains fixed
# - a PorousFlowOutflowBC for the component=0 to allow that component to exit the boundary freely
#
# Therefore, the zeroth fluid component will flow from left to right (down the
# pressure gradient).
#
# The important DE is
# porosity * dc/dt = (perm / visc) * grad(P) * grad(c)
# which is true for c = mass-fraction, and very large bulk modulus of the fluid.
# For grad(P) constant in time and space (as in this example) this is just the
# advection equation for c, with velocity = perm / visc / porosity. The parameters
# are chosen to velocity = 1 m/s.
# In the numerical world, and especially with full upwinding, the advection equation
# suffers from diffusion. In this example, the diffusion is obvious when plotting
# the mass-fraction along the line, but the average velocity of the front is still
# correct at 1 m/s.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[pp]
[]
[frac]
[]
[]
[PorousFlowFullySaturated]
fp = simple_fluid
porepressure = pp
mass_fraction_vars = frac
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = 1-x
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1e10 # need large in order for constant-velocity advection
density0 = 1 # irrelevant
thermal_expansion = 0
viscosity = 11
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 1.1 0 0 0 1.1'
[]
[]
[BCs]
[lhs_fixed_b]
type = DirichletBC
boundary = left
variable = pp
value = 1
[]
[rhs_fixed_b]
type = DirichletBC
boundary = right
variable = pp
value = 0
[]
[lhs_fixed_a]
type = DirichletBC
boundary = left
variable = frac
value = 1
[]
[outflow_a]
type = PorousFlowOutflowBC
boundary = right
include_relperm = false # no need for relperm in this fully-saturated simulation
mass_fraction_component = 0
variable = frac
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'asm lu NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-2
end_time = 1
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[VectorPostprocessors]
[mf]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 100
sort_by = x
variable = frac
[]
[]
[Outputs]
[console]
type = Console
execute_on = 'nonlinear linear'
[]
[csv]
type = CSV
sync_times = '0.1 0.5 1'
sync_only = true
[]
interval = 10
[]
(modules/fluid_properties/test/tests/water/water.i)
# Example of using Water97FluidProperties module in Region 1 by recovering the values
# in Table 5 of Revised Release on the IAPWS Industrial Formulation 1997 for the
# Thermodynamic Properties of Water and Steam
[Mesh]
type = GeneratedMesh
dim = 2
nx = 3
xmax = 3
# This test uses ElementalVariableValue postprocessors on specific
# elements, so element numbering needs to stay unchanged
allow_renumbering = false
[]
[Variables]
[./dummy]
[../]
[]
[AuxVariables]
[./pressure]
order = CONSTANT
family = MONOMIAL
[../]
[./temperature]
order = CONSTANT
family = MONOMIAL
[../]
[./rho]
family = MONOMIAL
order = CONSTANT
[../]
[./v]
family = MONOMIAL
order = CONSTANT
[../]
[./e]
family = MONOMIAL
order = CONSTANT
[../]
[./h]
family = MONOMIAL
order = CONSTANT
[../]
[./s]
family = MONOMIAL
order = CONSTANT
[../]
[./cp]
family = MONOMIAL
order = CONSTANT
[../]
[./cv]
family = MONOMIAL
order = CONSTANT
[../]
[./c]
family = MONOMIAL
order = CONSTANT
[../]
[./mu]
family = MONOMIAL
order = CONSTANT
[../]
[./k]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Functions]
[./tic]
type = ParsedFunction
value = 'if(x<2, 300, 500)'
[../]
[./pic]
type = ParsedFunction
value = 'if(x<1,3e6, if(x<2, 80e6, 3e6))'
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
function = pic
variable = pressure
[../]
[./t_ic]
type = FunctionIC
function = tic
variable = temperature
[../]
[]
[AuxKernels]
[./rho]
type = MaterialRealAux
variable = rho
property = density
[../]
[./v]
type = ParsedAux
args = rho
function = 1/rho
variable = v
[../]
[./e]
type = MaterialRealAux
variable = e
property = e
[../]
[./h]
type = MaterialRealAux
variable = h
property = h
[../]
[./s]
type = MaterialRealAux
variable = s
property = s
[../]
[./cp]
type = MaterialRealAux
variable = cp
property = cp
[../]
[./cv]
type = MaterialRealAux
variable = cv
property = cv
[../]
[./c]
type = MaterialRealAux
variable = c
property = c
[../]
[./mu]
type = MaterialRealAux
variable = mu
property = viscosity
[../]
[./k]
type = MaterialRealAux
variable = k
property = k
[../]
[]
[Modules]
[./FluidProperties]
[./water]
type = Water97FluidProperties
[../]
[../]
[]
[Materials]
[./fp_mat]
type = FluidPropertiesMaterialPT
pressure = pressure
temperature = temperature
fp = water
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = dummy
[../]
[]
[Postprocessors]
[./density0]
type = ElementalVariableValue
variable = rho
elementid = 0
[../]
[./density1]
type = ElementalVariableValue
variable = rho
elementid = 1
[../]
[./density2]
type = ElementalVariableValue
variable = rho
elementid = 2
[../]
[./v0]
type = ElementalVariableValue
variable = v
elementid = 0
[../]
[./v1]
type = ElementalVariableValue
variable = v
elementid = 1
[../]
[./v2]
type = ElementalVariableValue
variable = v
elementid = 2
[../]
[./e0]
type = ElementalVariableValue
variable = e
elementid = 0
[../]
[./e1]
type = ElementalVariableValue
variable = e
elementid = 1
[../]
[./e2]
type = ElementalVariableValue
variable = e
elementid = 2
[../]
[./h0]
type = ElementalVariableValue
variable = h
elementid = 0
[../]
[./h1]
type = ElementalVariableValue
variable = h
elementid = 1
[../]
[./h2]
type = ElementalVariableValue
variable = h
elementid = 2
[../]
[./s0]
type = ElementalVariableValue
variable = s
elementid = 0
[../]
[./s1]
type = ElementalVariableValue
variable = s
elementid = 1
[../]
[./s2]
type = ElementalVariableValue
variable = s
elementid = 2
[../]
[./cp0]
type = ElementalVariableValue
variable = cp
elementid = 0
[../]
[./cp1]
type = ElementalVariableValue
variable = cp
elementid = 1
[../]
[./cp2]
type = ElementalVariableValue
variable = cp
elementid = 2
[../]
[./cv0]
type = ElementalVariableValue
variable = cv
elementid = 0
[../]
[./cv1]
type = ElementalVariableValue
variable = cv
elementid = 1
[../]
[./cv2]
type = ElementalVariableValue
variable = cv
elementid = 2
[../]
[./c0]
type = ElementalVariableValue
variable = c
elementid = 0
[../]
[./c1]
type = ElementalVariableValue
variable = c
elementid = 1
[../]
[./c2]
type = ElementalVariableValue
variable = c
elementid = 2
[../]
[./mu0]
type = ElementalVariableValue
variable = mu
elementid = 0
[../]
[./mu1]
type = ElementalVariableValue
variable = mu
elementid = 1
[../]
[./mu2]
type = ElementalVariableValue
variable = mu
elementid = 2
[../]
[./k0]
type = ElementalVariableValue
variable = k
elementid = 0
[../]
[./k1]
type = ElementalVariableValue
variable = k
elementid = 1
[../]
[./k2]
type = ElementalVariableValue
variable = k
elementid = 2
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
[]
[Outputs]
csv = true
[]
(test/tests/userobjects/toggle_mesh_adaptivity/toggle_mesh_adaptivity_gaussian_ic.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./gaussian_ic]
type = FunctionIC
variable = u
function = gaussian_2d
[../]
[]
[Functions]
[./gaussian_2d]
type = ParsedFunction
value = exp(-((x-x0)*(x-x0)+(y-y0)*(y-y0))/2.0/sigma/sigma)
vars = 'sigma x0 y0'
vals = '0.05 0.35 0.25'
[../]
[]
[Kernels]
[./diff]
type = CoefDiffusion
variable = u
coef = 0.02
[../]
[./time]
type = TimeDerivative
variable = u
[../]
[]
[BCs]
[./Periodic]
[./all]
variable = u
auto_direction = 'x y'
[../]
[../]
[]
[Executioner]
type = Transient
num_steps = 4
dt = 0.1
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Adaptivity]
initial_steps = 1
initial_marker = marker
cycles_per_step = 1
marker = marker
max_h_level = 2
[./Markers]
[./marker]
type = CircleMarker
point = '0.35 0.25 0'
radius = 0.2
inside = refine
outside = coarsen
[../]
[../]
[]
[UserObjects]
[./mesh_adaptivity_off]
type = ToggleMeshAdaptivity
mesh_adaptivity = 'off'
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
print_mesh_changed_info = true
[../]
[]
(modules/porous_flow/test/tests/poroperm/poro_thm.i)
# Test that porosity is correctly calculated.
# Porosity = biot + (phi0 - biot) * exp(-vol_strain + (biot - 1) / solid_bulk * (porepressure - ref_pressure) + thermal_exp_coeff * (temperature - ref_temperature))
# The parameters used are:
# biot = 0.7
# phi0 = 0.5
# vol_strain = 0.5
# solid_bulk = 0.3
# porepressure = 2
# ref_pressure = 3
# thermal_exp_coeff = 0.5
# temperature = 4
# ref_temperature = 3.5
# which yield porosity = 0.276599996677
[Mesh]
type = GeneratedMesh
dim = 3
[]
[GlobalParams]
PorousFlowDictator = dictator
displacements = 'disp_x disp_y disp_z'
biot_coefficient = 0.7
[]
[Variables]
[porepressure]
initial_condition = 2
[]
[temperature]
initial_condition = 4
[]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[]
[ICs]
[disp_x]
type = FunctionIC
function = '0.5 * x'
variable = disp_x
[]
[]
[Kernels]
[dummy_p]
type = TimeDerivative
variable = porepressure
[]
[dummy_t]
type = TimeDerivative
variable = temperature
[]
[dummy_x]
type = TimeDerivative
variable = disp_x
[]
[dummy_y]
type = TimeDerivative
variable = disp_y
[]
[dummy_z]
type = TimeDerivative
variable = disp_z
[]
[]
[AuxVariables]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[porosity]
type = PorousFlowPropertyAux
property = porosity
variable = porosity
[]
[]
[Postprocessors]
[porosity]
type = PointValue
variable = porosity
point = '0 0 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure temperature'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temperature
[]
[eff_fluid_pressure]
type = PorousFlowEffectiveFluidPressure
[]
[total_strain]
type = ComputeSmallStrain
[]
[vol_strain]
type = PorousFlowVolumetricStrain
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[porosity]
type = PorousFlowPorosity
mechanical = true
fluid = true
thermal = true
ensure_positive = false
porosity_zero = 0.5
solid_bulk = 0.3
thermal_expansion_coeff = 0.5
reference_porepressure = 3
reference_temperature = 3.5
[]
[]
[Executioner]
solve_type = Newton
type = Transient
num_steps = 1
[]
[Outputs]
csv = true
[]
(modules/richards/test/tests/dirac/bh07.i)
[Mesh]
type = FileMesh
file = bh07_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1000 10000'
x = '100 1000'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[BCs]
[./fix_outer]
type = DirichletBC
boundary = perimeter
variable = pressure
value = 1E7
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh07.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
re_constant = 0.1594
character = 2
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
execute_on = 'initial timestep_end'
[../]
[./fluid_mass]
type = RichardsMass
variable = pressure
execute_on = 'initial timestep_end'
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-11 0 0 0 1E-11 0 0 0 1E-11'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 1000
solve_type = NEWTON
[./TimeStepper]
# get only marginally better results for smaller time steps
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh07
execute_on = 'initial timestep_end final'
interval = 10000
exodus = true
[]
(test/tests/nodalkernels/constraint_enforcement/upper-bound.i)
l=10
nx=100
num_steps=10
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[lm]
[]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = '${l} - x'
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = u
[]
[diff]
type = Diffusion
variable = u
[]
[ffn]
type = BodyForce
variable = u
function = '1'
[]
[]
[NodalKernels]
[positive_constraint]
type = UpperBoundNodalKernel
variable = lm
v = u
exclude_boundaries = 'left right'
upper_bound = 10
[]
[forces]
type = CoupledForceNodalKernel
variable = u
v = lm
coef = -1
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = ${l}
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = 0
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type'
petsc_options_value = '0 30 asm 16 basic'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[active_lm]
type = GreaterThanLessThanPostprocessor
variable = lm
execute_on = 'nonlinear timestep_end'
value = 1e-8
[]
[violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = ${fparse 10+1e-8}
comparator = 'greater'
[]
[]
(test/tests/time_steppers/timesequence_stepper/timesequence.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
end_time = 4.0
[./TimeStepper]
type = TimeSequenceStepper
time_sequence = '0 0.85 1.3 2 4'
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/energy_conservation/heat01.i)
# checking that the heat-energy postprocessor correctly calculates the energy
# 0phase, constant porosity
[Mesh]
type = GeneratedMesh
dim = 1
nx = 3
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[temp]
[]
[]
[ICs]
[tinit]
type = FunctionIC
function = '100*x'
variable = temp
[]
[]
[Kernels]
[dummy]
type = TimeDerivative
variable = temp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp'
number_fluid_phases = 0
number_fluid_components = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 2.2
density = 0.5
[]
[]
[Postprocessors]
[total_heat]
type = PorousFlowHeatEnergy
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1 1 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = heat01
csv = true
[]
(modules/phase_field/examples/interfacekernels/interface_gradient.i)
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 50
ny = 50
[]
[./box1]
input = gen
type = SubdomainBoundingBoxGenerator
block_id = 1
bottom_left = '0 0 0'
top_right = '0.51 1 0'
[../]
[./box2]
input = box1
type = SubdomainBoundingBoxGenerator
block_id = 2
bottom_left = '0.49 0 0'
top_right = '1 1 0'
[../]
[./iface]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 1
paired_block = 2
new_boundary = 10
input = box2
[../]
[./rotate]
type = TransformGenerator
transform = ROTATE
vector_value = '5 0 0'
input = iface
[../]
[]
[GlobalParams]
order = FIRST
family = LAGRANGE
[]
[Variables]
[./u]
block = 1
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.4)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[./v]
block = 2
initial_condition = 0.8
[../]
[]
[Kernels]
[./u_diff]
type = Diffusion
variable = u
block = 1
[../]
[./u_dt]
type = TimeDerivative
variable = u
block = 1
[../]
[./v_diff]
type = Diffusion
variable = v
block = 2
[../]
[./v_dt]
type = TimeDerivative
variable = v
block = 2
[../]
[]
[InterfaceKernels]
[./flux_continuity]
type = InterfaceDiffusionFluxMatch
variable = u
boundary = 10
neighbor_var = v
[../]
[./diffusion_surface_term]
type = InterfaceDiffusionBoundaryTerm
boundary = 10
variable = u
neighbor_var = v
[../]
[]
[Executioner]
type = Transient
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = 'lu superlu_dist'
dt = 0.001
num_steps = 20
[]
[Outputs]
[./out]
type = Exodus
use_problem_dimension = false
[../]
print_linear_residuals = false
[]
(test/tests/misc/check_error/function_file_test14.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_rows_more_data.csv # will generate an error because of more data lines than 2
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(test/tests/ics/function_ic/spline_function.i)
#
# Test the gradient calculation in spline function and the gradient pass-through in FunctionIC
#
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 3
ymin = 0
ymax = 1
nx = 10
ny = 2
[]
[Variables]
[./u]
order = THIRD
family = HERMITE
[../]
[]
[Functions]
[./spline_function]
type = SplineFunction
x = '0 1 2 3'
y = '0 1 0 1'
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = 'u'
function = spline_function
[../]
[]
[Executioner]
type = Steady
[]
[Problem]
solve = false
[]
[Outputs]
file_base = spline
[./OverSampling]
type = Exodus
refinements = 3
[../]
[]
(test/tests/time_integrators/rk-2/2d-quadratic.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 20
ny = 20
elem_type = QUAD9
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*((x*x)+(y*y))-(4*t*t)
[../]
[./exact_fn]
type = ParsedFunction
value = t*t*((x*x)+(y*y))
[../]
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[BCs]
active = 'all'
[./all]
type = FunctionDirichletBC
variable = u
boundary = '0 1 2 3'
function = exact_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
[./TimeIntegrator]
type = ExplicitMidpoint
[../]
solve_type = 'LINEAR'
start_time = 0.0
num_steps = 10
dt = 0.0001
l_tol = 1e-8
[]
[Outputs]
exodus = true
perf_graph = true
[]
(test/tests/functions/image_function/image.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 10
ny = 10
nz = 10
[]
[Adaptivity]
max_h_level = 5
initial_steps = 5
initial_marker = marker
[Indicators]
[indicator]
type = GradientJumpIndicator
variable = u
[]
[]
[Markers]
[marker]
type = ErrorFractionMarker
indicator = indicator
refine = 0.9
[]
[]
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file = stack/test_00.png
[]
[]
[BCs]
[left]
type = DirichletBC
variable = u
boundary = left
value = 0
[]
[right]
type = DirichletBC
variable = u
boundary = right
value = 1
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Outputs]
exodus = true
[]
(test/tests/multiapps/centroid_multiapp/centroid_multiapp.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 3
ny = 3
[]
[Variables]
[./u]
[../]
[]
[AuxVariables]
[./x]
family = MONOMIAL
order = CONSTANT
[../]
[./y]
family = MONOMIAL
order = CONSTANT
[../]
[]
[ICs]
[./x]
type = FunctionIC
function = x
variable = x
[../]
[./y]
type = FunctionIC
function = y
variable = y
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = 'left'
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 'right'
value = 1
[../]
[]
[Executioner]
type = Transient
num_steps = 1
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
solve_type = PJFNK
[]
[Outputs]
exodus = true
[]
[MultiApps]
[sub]
type = CentroidMultiApp
input_files = 'sub_app.i'
output_in_position = true
[]
[]
[Transfers]
[./incoming_x]
type = MultiAppVariableValueSamplePostprocessorTransfer
source_variable = x
direction = to_multiapp
multi_app = sub
postprocessor = incoming_x
[../]
[./incoming_y]
type = MultiAppVariableValueSamplePostprocessorTransfer
source_variable = y
direction = to_multiapp
multi_app = sub
postprocessor = incoming_y
[../]
[]
(modules/phase_field/test/tests/GBAnisotropy/testwidth1.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 30
ny = 2
nz = 0
xmin = -500
xmax = 1000
ymin = 0
ymax = 100
zmin = 0
zmax = 0
elem_type = QUAD4
[]
[GlobalParams]
op_num = 3
var_name_base = gr
length_scale = 1.0e-9
time_scale = 1.0e-9
[]
[Variables]
[./PolycrystalVariables]
[../]
[]
[Functions]
[./ic_func_eta1]
type = ParsedFunction
value = '0.5*(1.0-tanh((x)*sqrt(m/kappa/2.0)))'
vars = 'm kappa'
vals = '0.26514 331.414'
[../]
[./ic_func_eta2]
type = ParsedFunction
value = '0.5*(1.0+tanh((x)*sqrt(m/kappa/2.0)))*0.5*(1.0-tanh((x-500)*sqrt(m/kappa/2.0)))'
vars = 'm kappa'
vals = '0.26514 331.414'
[../]
[./ic_func_eta3]
type = ParsedFunction
value = '0.5*(1.0+tanh((x-500)*sqrt(m/kappa/2.0)))'
vars = 'm kappa'
vals = '0.26514 331.414'
[../]
[]
[ICs]
[./eta1_ic]
variable = gr0
type = FunctionIC
function = ic_func_eta1
[../]
[./eta2_ic]
variable = gr1
type = FunctionIC
function = ic_func_eta2
[../]
[./eta3_ic]
variable = gr2
type = FunctionIC
function = ic_func_eta3
[../]
[]
[AuxVariables]
[./bnds]
order = FIRST
family = LAGRANGE
[../]
[./unique_grains]
order = FIRST
family = LAGRANGE
[../]
[./var_indices]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./PolycrystalKernel]
[../]
[]
[AuxKernels]
[./bnds_aux]
type = BndsCalcAux
variable = bnds
execute_on = timestep_end
[../]
[]
[Materials]
[./CuGrGranisotropic]
type = GBWidthAnisotropy
kappa = 331.414
mu = 0.26514
T = 600 # K
# molar_volume_value = 7.11e-6 #Units:m^3/mol
Anisotropic_GB_file_name = anisotropy_energy.txt
inclination_anisotropy = false # true
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -pc_hypre_type -ksp_gmres_restart'
petsc_options_value = 'hypre boomeramg 31'
l_max_its = 30
l_tol = 1e-4
nl_max_its = 40
nl_rel_tol = 1e-10
nl_abs_tol = 1e-11
num_steps = 2
dt = 10
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(test/tests/bcs/mat_neumann_bc/mat_neumann.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmax = 10
ymax = 10
nx = 10
ny = 10
[]
[Variables]
[./u]
[../]
[]
[AuxVariables]
[./phi]
[../]
[]
[ICs]
[./phi_IC]
type = FunctionIC
variable = phi
function = ic_func_phi
[../]
[]
[Functions]
[./ic_func_phi]
type = ParsedFunction
value = '0.5 * (1 - tanh((x - 5) / 0.8))'
[../]
[]
[BCs]
[./top]
type = MatNeumannBC
variable = u
boundary = top
value = 2
boundary_material = hm
[../]
[]
[Kernels]
[./dudt]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[]
[Materials]
[./hm]
type = ParsedMaterial
f_name = hm
args = 'phi'
function = '3*phi^2 - 2*phi^3'
outputs = exodus
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
end_time = 10
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/sinks/s03.i)
# apply a sink flux with use_relperm=true and observe the correct behavior
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1.1
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = -y
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.3
density0 = 1.1
thermal_expansion = 0
viscosity = 1.1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '0.2 0 0 0 0.1 0 0 0 0.1'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[AuxVariables]
[flux_out]
[]
[xval]
[]
[yval]
[]
[]
[ICs]
[xval]
type = FunctionIC
variable = xval
function = x
[]
[yval]
type = FunctionIC
variable = yval
function = y
[]
[]
[Functions]
[mass00]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)*pow(1+pow(-al*pp,1.0/(1-m)),-m)'
vars = 'vol por dens0 pp bulk al m'
vals = '0.25 0.1 1.1 p00 1.3 1.1 0.5'
[]
[sat00]
type = ParsedFunction
value = 'pow(1+pow(-al*pp,1.0/(1-m)),-m)'
vars = 'pp al m'
vals = 'p00 1.1 0.5'
[]
[mass01]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)*pow(1+pow(-al*pp,1.0/(1-m)),-m)'
vars = 'vol por dens0 pp bulk al m'
vals = '0.25 0.1 1.1 p01 1.3 1.1 0.5'
[]
[expected_mass_change00]
type = ParsedFunction
value = 'fcn*pow(pow(1+pow(-al*pp,1.0/(1-m)),-m),2)*area*dt'
vars = 'fcn perm dens0 pp bulk visc area dt al m'
vals = '6 0.2 1.1 p00 1.3 1.1 0.5 1E-3 1.1 0.5'
[]
[expected_mass_change01]
type = ParsedFunction
value = 'fcn*pow(pow(1+pow(-al*pp,1.0/(1-m)),-m),2)*area*dt'
vars = 'fcn perm dens0 pp bulk visc area dt al m'
vals = '6 0.2 1.1 p01 1.3 1.1 0.5 1E-3 1.1 0.5'
[]
[mass00_expect]
type = ParsedFunction
value = 'mass_prev-mass_change'
vars = 'mass_prev mass_change'
vals = 'm00_prev del_m00'
[]
[mass01_expect]
type = ParsedFunction
value = 'mass_prev-mass_change'
vars = 'mass_prev mass_change'
vals = 'm01_prev del_m01'
[]
[sat01]
type = ParsedFunction
value = 'pow(1+pow(-al*pp,1.0/(1-m)),-m)'
vars = 'pp al m'
vals = 'p01 1.1 0.5'
[]
[expected_mass_change_rate]
type = ParsedFunction
value = 'fcn*pow(pow(1+pow(-al*pp,1.0/(1-m)),-m),2)*area'
vars = 'fcn perm dens0 pp bulk visc area dt al m'
vals = '6 0.2 1.1 p00 1.3 1.1 0.5 1E-3 1.1 0.5'
[]
[]
[Postprocessors]
[p00]
type = PointValue
point = '0 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m00]
type = FunctionValuePostprocessor
function = mass00
execute_on = 'initial timestep_end'
[]
[m00_prev]
type = FunctionValuePostprocessor
function = mass00
execute_on = 'timestep_begin'
outputs = 'console'
[]
[del_m00]
type = FunctionValuePostprocessor
function = expected_mass_change00
execute_on = 'timestep_end'
outputs = 'console'
[]
[m00_expect]
type = FunctionValuePostprocessor
function = mass00_expect
execute_on = 'timestep_end'
[]
[p10]
type = PointValue
point = '1 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p01]
type = PointValue
point = '0 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m01]
type = FunctionValuePostprocessor
function = mass01
execute_on = 'initial timestep_end'
[]
[m01_prev]
type = FunctionValuePostprocessor
function = mass01
execute_on = 'timestep_begin'
outputs = 'console'
[]
[del_m01]
type = FunctionValuePostprocessor
function = expected_mass_change01
execute_on = 'timestep_end'
outputs = 'console'
[]
[m01_expect]
type = FunctionValuePostprocessor
function = mass01_expect
execute_on = 'timestep_end'
[]
[p11]
type = PointValue
point = '1 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[s00]
type = FunctionValuePostprocessor
function = sat00
execute_on = 'initial timestep_end'
[]
[mass00_rate]
type = FunctionValuePostprocessor
function = expected_mass_change_rate
execute_on = 'initial timestep_end'
[]
[]
[BCs]
[flux]
type = PorousFlowSink
boundary = 'left'
variable = pp
use_mobility = false
use_relperm = true
fluid_phase = 0
flux_function = 6
save_in = flux_out
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-3
end_time = 0.018
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s03
[console]
type = Console
execute_on = 'nonlinear linear'
interval = 5
[]
[csv]
type = CSV
execute_on = 'timestep_end'
interval = 2
[]
[]
(test/tests/userobjects/element_subdomain_modifier/reversible.i)
[Problem]
solve = false
[]
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 16
ny = 16
[]
[left]
type = SubdomainBoundingBoxGenerator
input = 'gen'
block_id = 1
bottom_left = '0 0 0'
top_right = '0.25 1 1'
[]
[right]
type = SubdomainBoundingBoxGenerator
input = 'left'
block_id = 2
bottom_left = '0.25 0 0'
top_right = '1 1 1'
[]
[]
[UserObjects]
[moving_circle]
type = CoupledVarThresholdElementSubdomainModifier
coupled_var = 'phi'
criterion_type = BELOW
threshold = 0
subdomain_id = 1
complement_subdomain_id = 2
moving_boundary_name = moving_boundary
execute_on = 'INITIAL TIMESTEP_BEGIN'
[]
[]
[Functions]
[moving_circle]
type = ParsedFunction
value = '(x-t)^2+(y)^2-0.5^2'
[]
[]
[AuxVariables]
[phi]
[InitialCondition]
type = FunctionIC
function = moving_circle
[]
[]
[]
[AuxKernels]
[phi]
type = FunctionAux
variable = phi
function = moving_circle
execute_on = 'INITIAL TIMESTEP_BEGIN TIMESTEP_END'
[]
[]
[Executioner]
type = Transient
dt = 0.3
num_steps = 3
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/sinks/s_fu_01.i)
# with fully_upwind sink
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
fully_upwind = true
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.5
al = 1 # same deal with PETSc constant state
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.2
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 2
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-lfout-rfout-mf)/2/(mi+mf))
vars = 'mi mf lfout rfout'
vals = 'mass_init mass_fin left_flux_out right_flux_out'
[../]
[]
[Postprocessors]
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./mass_fin]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./left_flux_out]
type = RichardsPiecewiseLinearSinkFlux
boundary = left
variable = pressure
pressures = '0 1'
bare_fluxes = '1 2'
use_mobility = false
use_relperm = false
[../]
[./right_flux_out]
type = RichardsPiecewiseLinearSinkFlux
boundary = right
variable = pressure
pressures = '0 1'
bare_fluxes = '1 2'
use_mobility = false
use_relperm = false
[../]
[./p0]
type = PointValue
point = '0 0 0'
variable = pressure
[../]
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
[BCs]
[./left_flux]
type = RichardsPiecewiseLinearSink
boundary = left
pressures = '0 1'
bare_fluxes = '1 2'
variable = pressure
use_mobility = false
use_relperm = false
[../]
[./right_flux]
type = RichardsPiecewiseLinearSink
boundary = right
pressures = '0 1'
bare_fluxes = '1 2'
variable = pressure
use_mobility = false
use_relperm = false
[../]
[]
[Kernels]
active = 'richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'andy'
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-10 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 2E-3
end_time = 0.2
nl_abs_tol = 1E-12
nl_rel_tol = 1E-10
[]
[Outputs]
file_base = s_fu_01
csv = true
execute_on = timestep_end
[]
(modules/combined/doc/richards/user/excav/ex01.i)
###########################################
# #
# THIS EXAMPLE CONTAINS AN EXCAVATION #
# #
###########################################
# Easiest way of figuring out what's happening:
# Run this example, load into paraview, take
# a slice through (0,0,0) with normal (0,0,1),
# colour by pressure and play the animation.
# This mesh has an interior sideset called excav_bdy
[Mesh]
type = FileMesh
file = ex01_input.e
[]
# This is a boundary condition acting on excav_bdy
# All it does is to set the pressure to p_excav=0
# at places on excav_bdy wherever excav_fcn tells it to.
[BCs]
[./excav_bdy]
type = RichardsExcav
boundary = excav_bdy
p_excav = 0.0
variable = pressure
excav_geom_function = excav_fcn
[../]
[]
[Functions]
# excav_fcn controls where to set pressure=p_excav
# You supply start and end positions and times and
# by a linear interpolation these define the position
# of the coal face at all times
[./excav_fcn]
type = RichardsExcavGeom
start_posn = '0 -500 0'
start_time = 0
end_posn = '0 500 0'
end_time = 3E7
[../]
# mass_bal_fcn calculates the mass balance
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-fout-mf)/2/(mi+mf))
vars = 'mi mf fout'
vals = 'mass_init mass_final flux_out'
[../]
# initial pressure - unimportant in this example
[./initial_pressure]
type = ParsedFunction
value = -10000*(z-100)
[../]
[]
# following is needed by postprocessors, kernels, etc
# unimportant in this example
[GlobalParams]
porepressureNames_UO = PPNames
[]
# following does the calculation of relevant
# masses and mass-flux to the excavation
[Postprocessors]
# note that this is calculated at beginning of timestep
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
# note this is calculated at end of timestep
[./mass_final]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
# this is what calculates the mass flux to the excavation
# it is calculating it for boundary=excav_bdy, and the
# excavation time-dependence is set through the excav_fcn
[./flux_out]
type = RichardsExcavFlow
boundary = excav_bdy
variable = pressure
excav_geom_function = excav_fcn
[../]
# mass_bal just outputs the result to screen
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
######################################
# #
# THE FOLLOWING STUFF IS STANDARD #
# #
######################################
[UserObjects]
[./PPNames]
type = RichardsPorepressureNames
porepressure_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E+2
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = '1 2 3 4'
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-15 0 0 0 1E-15 0 0 0 1E-15'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 -10'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 6E6
dt = 3E6
solve_type = NEWTON
[]
[Outputs]
execute_on = 'timestep_end'
file_base = ex01
exodus = true
csv = true
[]
(modules/porous_flow/test/tests/jacobian/fflux01_fully_saturated.i)
# 1phase, 3components, constant viscosity, constant insitu permeability
# density with constant bulk, nonzero gravity
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
xmin = 0
xmax = 1
ny = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[massfrac0]
[]
[massfrac1]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = -0.7+x+y
[]
[massfrac0]
type = RandomIC
variable = massfrac0
min = 0
max = 0.3
[]
[massfrac1]
type = RandomIC
variable = massfrac1
min = 0
max = 0.4
[]
[]
[Kernels]
[flux0]
type = PorousFlowFullySaturatedDarcyFlow
fluid_component = 0
variable = pp
gravity = '-1 -0.1 0'
[]
[flux1]
type = PorousFlowFullySaturatedDarcyFlow
fluid_component = 1
variable = massfrac0
gravity = '-1 -0.1 0'
[]
[flux2]
type = PorousFlowFullySaturatedDarcyFlow
fluid_component = 2
variable = massfrac1
gravity = '-1 -0.1 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp massfrac0 massfrac1'
number_fluid_phases = 1
number_fluid_components = 3
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.5
density0 = 1
thermal_expansion = 0
viscosity = 1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseFullySaturated
porepressure = pp
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac0 massfrac1'
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1 0 0 0 2 0 0 0 3'
[]
[]
[Preconditioning]
active = check
[check]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000 test'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
exodus = false
[]
(test/tests/functions/image_function/threshold_adapt_parallel.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
ny = 2
parallel_type = distributed
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
threshold = 2.7e4
upper_value = 1
lower_value = -1
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Adaptivity]
max_h_level = 5
initial_steps = 5
initial_marker = marker
[Indicators]
[indicator]
type = GradientJumpIndicator
variable = u
[]
[]
[Markers]
[marker]
type = ErrorFractionMarker
indicator = indicator
refine = 0.9
[]
[]
[]
[Outputs]
[]
(modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/varying-eps-hllc.i)
[GlobalParams]
fp = fp
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = .1
xmax = .6
nx = 2
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
[]
[]
[]
[Problem]
fv_bcs_integrity_check = false
[]
[Variables]
[pressure]
type = MooseVariableFVReal
[]
[sup_mom_x]
type = MooseVariableFVReal
[]
[T_fluid]
type = MooseVariableFVReal
[]
[]
[ICs]
[pressure]
type = FunctionIC
variable = pressure
function = 'exact_p'
[]
[sup_mom_x]
type = FunctionIC
variable = sup_mom_x
function = 'exact_rho_ud'
[]
[T_fluid]
type = FunctionIC
variable = T_fluid
function = 'exact_T'
[]
[]
[FVKernels]
[mass_advection]
type = PCNSFVMassHLLC
variable = pressure
[]
[mass_fn]
type = FVBodyForce
variable = pressure
function = 'forcing_rho'
[]
[momentum_x_advection]
type = PCNSFVMomentumHLLC
variable = sup_mom_x
momentum_component = x
[]
[eps_grad]
type = PNSFVPGradEpsilon
variable = sup_mom_x
momentum_component = 'x'
epsilon_function = 'eps'
[]
[momentum_fn]
type = FVBodyForce
variable = sup_mom_x
function = 'forcing_rho_ud'
[]
[fluid_energy_advection]
type = PCNSFVFluidEnergyHLLC
variable = T_fluid
[]
[energy_fn]
type = FVBodyForce
variable = T_fluid
function = 'forcing_rho_et'
[]
[]
[FVBCs]
[mass_left]
variable = pressure
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'mass'
[]
[momentum_left]
variable = sup_mom_x
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'momentum'
momentum_component = 'x'
[]
[energy_left]
variable = T_fluid
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'energy'
[]
[mass_right]
variable = pressure
type = PCNSFVStrongBC
boundary = right
eqn = 'mass'
pressure = 'exact_p'
[]
[momentum_right]
variable = sup_mom_x
type = PCNSFVStrongBC
boundary = right
eqn = 'momentum'
momentum_component = 'x'
pressure = 'exact_p'
[]
[energy_right]
variable = T_fluid
type = PCNSFVStrongBC
boundary = right
eqn = 'energy'
pressure = 'exact_p'
[]
[]
[Materials]
[var_mat]
type = PorousMixedVarMaterial
pressure = pressure
superficial_rhou = sup_mom_x
T_fluid = T_fluid
porosity = porosity
[]
[porosity]
type = GenericFunctionMaterial
prop_names = 'porosity'
prop_values = 'eps'
[]
[]
[Functions]
[exact_rho]
type = ParsedFunction
value = '3.48788261470924*cos(x)'
[]
[forcing_rho]
type = ParsedFunction
value = '-3.83667087618017*sin(1.1*x)*cos(1.3*x) - 4.53424739912202*sin(1.3*x)*cos(1.1*x)'
[]
[exact_rho_ud]
type = ParsedFunction
value = '3.48788261470924*cos(1.1*x)*cos(1.3*x)'
[]
[forcing_rho_ud]
type = ParsedFunction
value = '(-(10.6975765229419*cos(1.5*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.5*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 16.0463647844128*sin(1.5*x)/cos(x))*cos(x))*cos(1.3*x) + 3.48788261470924*sin(x)*cos(1.1*x)^2*cos(1.3*x)/cos(x)^2 - 7.67334175236034*sin(1.1*x)*cos(1.1*x)*cos(1.3*x)/cos(x) - 4.53424739912202*sin(1.3*x)*cos(1.1*x)^2/cos(x)'
[]
[exact_rho_et]
type = ParsedFunction
value = '26.7439413073546*cos(1.5*x)'
[]
[forcing_rho_et]
type = ParsedFunction
value = '1.0*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(x)*cos(1.1*x)*cos(1.3*x)/cos(x)^2 - 1.1*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(1.1*x)*cos(1.3*x)/cos(x) - 1.3*(3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.5*x))*sin(1.3*x)*cos(1.1*x)/cos(x) + 1.0*(-(10.6975765229419*cos(1.5*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.5*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 16.0463647844128*sin(1.5*x)/cos(x))*cos(x) - 40.1159119610319*sin(1.5*x))*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[exact_T]
type = ParsedFunction
value = '0.0106975765229418*cos(1.5*x)/cos(x) - 0.000697576522941848*cos(1.1*x)^2/cos(x)^2'
[]
[exact_eps_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)*cos(1.3*x)'
[]
[exact_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.5*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
[]
[exact_sup_vel_x]
type = ParsedFunction
value = '1.0*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[eps]
type = ParsedFunction
value = 'cos(1.3*x)'
[]
[exact_superficial_velocity]
type = ParsedVectorFunction
value_x = '1.0*cos(1.1*x)*cos(1.3*x)/cos(x)'
[]
[]
[Executioner]
solve_type = NEWTON
type = Steady
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
nl_max_its = 50
line_search = bt
nl_rel_tol = 1e-12
nl_abs_tol = 1e-12
[]
[Outputs]
exodus = true
csv = true
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2pressure]
type = ElementL2Error
variable = pressure
function = exact_p
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2sup_mom_x]
variable = sup_mom_x
function = exact_rho_ud
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2T_fluid]
variable = T_fluid
function = exact_T
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(modules/richards/test/tests/buckley_leverett/bl22_lumped_fu.i)
# two-phase version
# super-sharp front version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1E-4 1E-3 1E-2 2E-2 5E-2 6E-2 0.1 0.2'
x = '0 1E-2 1E-1 1 5 20 40 41'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-4
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-4
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[./bounds_dummy]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsLumpedMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFullyUpwindFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsLumpedMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFullyUpwindFlux
variable = pgas
[../]
[./richardsppenalty]
type = RichardsPPenalty
variable = pgas
a = 1E-18
lower_var = pwater
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_water
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_gas
[../]
[]
[BCs]
[./left_w]
type = DirichletBC
variable = pwater
boundary = left
value = 1E6
[../]
[./left_g]
type = DirichletBC
variable = pgas
boundary = left
value = 1000
[../]
[./right_w]
type = DirichletBC
variable = pwater
boundary = right
value = -100000
[../]
[./right_g]
type = DirichletBC
variable = pgas
boundary = right
value = 0
[../]
[]
[Functions]
[./initial_water]
type = ParsedFunction
value = 1000000*(1-min(x/5,1))-if(x<5,0,100000)
[../]
[./initial_gas]
type = ParsedFunction
value = 1000
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
viscosity = '1E-3 1E-6'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./standard]
type = SMP
full = true
petsc_options = '-snes_converged_reason -ksp_diagonal_scale -ksp_diagonal_scale_fix -ksp_gmres_modifiedgramschmidt'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap -snes_atol -snes_rtol -snes_max_it -ksp_rtol -ksp_atol'
petsc_options_value = 'gmres asm lu NONZERO 2 1E-10 1E-10 20 1E-10 1E-100'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 50
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
execute_on = 'timestep_end'
file_base = bl22_lumped_fu
[./exodus]
type = Exodus
interval = 100000
hide = 'pgas bounds_dummy'
execute_on = 'initial final timestep_end'
[../]
[]
(modules/ray_tracing/test/tests/outputs/ray_tracing_mesh_output/ray_mesh_output_data.i)
[Mesh]
[gmg]
type = GeneratedMeshGenerator
dim = 2
nx = 5
ny = 5
xmax = 5
ymax = 5
[]
[]
[Variables/u]
[InitialCondition]
type = FunctionIC
variable = u
function = '(x < 2) * (x + 2 * y) + (x >= 2) * (2 * x + 2 * y - 2)'
[]
[]
[UserObjects]
[study]
type = RepeatableRayStudy
names = 'diag
top_across
bottom_across
partial'
start_points = '0 0 0
0 5 0
0 0 0
0.5 0.5 0'
end_points = '5 5 0
5 5 0
5 0 0
4.5 0.5 0'
always_cache_traces = true
data_on_cache_traces = true
aux_data_on_cache_traces = true
ray_aux_data_names = 'test_aux'
initial_ray_aux_data = '1; 2; 3; 4'
[]
[]
[RayKernels]
[variable_integral]
type = VariableIntegralRayKernel
study = study
variable = u
[]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[rays]
type = RayTracingExodus
study = study
output_data = true
output_aux_data = true
execute_on = final
[]
[rays_nodal]
type = RayTracingExodus
study = study
output_data_nodal = true
execute_on = final
[]
[]
(modules/navier_stokes/test/tests/finite_volume/pins/channel-flow/porosity_jump/2d-rc-epsjump.i)
mu=1.1
rho=1.1
advected_interp_method='upwind'
velocity_interp_method='rc'
[Mesh]
[mesh]
type = CartesianMeshGenerator
dim = 2
dx = '1 1'
dy = '0.5'
ix = '30 30'
iy = '20'
subdomain_id = '1 2'
[]
[]
[GlobalParams]
two_term_boundary_expansion = true
[]
[Variables]
[u]
type = PINSFVSuperficialVelocityVariable
initial_condition = 1
[]
[v]
type = PINSFVSuperficialVelocityVariable
initial_condition = 1e-6
[]
[pressure]
type = INSFVPressureVariable
[]
[]
[AuxVariables]
[porosity]
family = MONOMIAL
order = CONSTANT
fv = true
[]
[]
[ICs]
inactive = 'porosity_continuous'
[porosity_1]
type = ConstantIC
variable = porosity
block = 1
value = 1
[]
[porosity_2]
type = ConstantIC
variable = porosity
block = 2
value = 0.5
[]
[porosity_continuous]
type = FunctionIC
variable = porosity
block = '1 2'
function = smooth_jump
[]
[]
[Functions]
[smooth_jump]
type = ParsedFunction
value = '1 - 0.5 * 1 / (1 + exp(-30*(x-1)))'
[]
[]
[FVKernels]
inactive = 'u_advection_porosity_gradient v_advection_porosity_gradient'
[mass]
type = PINSFVMassAdvection
variable = pressure
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
vel = 'velocity'
pressure = pressure
u = u
v = v
mu = ${mu}
rho = ${rho}
porosity = porosity
[]
[u_advection]
type = PINSFVMomentumAdvection
variable = u
advected_quantity = 'rhou'
vel = 'velocity'
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
pressure = pressure
u = u
v = v
mu = ${mu}
rho = ${rho}
porosity = porosity
[]
[u_viscosity]
type = PINSFVMomentumDiffusion
variable = u
mu = ${mu}
porosity = porosity
momentum_component = 'x'
vel = 'velocity'
[]
[u_pressure]
type = PINSFVMomentumPressure
variable = u
pressure = pressure
porosity = porosity
momentum_component = 'x'
[]
[u_advection_porosity_gradient]
type = PINSFVMomentumAdvectionPorosityGradient
variable = u
u = u
v = v
rho = ${rho}
porosity = porosity
momentum_component = 'x'
[]
[v_advection]
type = PINSFVMomentumAdvection
variable = v
advected_quantity = 'rhov'
vel = 'velocity'
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
pressure = pressure
u = u
v = v
mu = ${mu}
rho = ${rho}
porosity = porosity
[]
[v_viscosity]
type = PINSFVMomentumDiffusion
variable = v
mu = ${mu}
porosity = porosity
momentum_component = 'y'
vel = 'velocity'
[]
[v_pressure]
type = PINSFVMomentumPressure
variable = v
pressure = pressure
porosity = porosity
momentum_component = 'y'
[]
[v_advection_porosity_gradient]
type = PINSFVMomentumAdvectionPorosityGradient
variable = v
u = u
v = v
rho = ${rho}
porosity = porosity
momentum_component = 'y'
[]
[]
[FVBCs]
[inlet-u]
type = INSFVInletVelocityBC
boundary = 'left'
variable = u
function = '1'
[]
[inlet-v]
type = INSFVInletVelocityBC
boundary = 'left'
variable = v
function = 0
[]
[walls-u]
type = INSFVNaturalFreeSlipBC
boundary = 'top bottom'
variable = u
[]
[walls-v]
type = INSFVNaturalFreeSlipBC
boundary = 'top bottom'
variable = v
[]
[outlet_p]
type = INSFVOutletPressureBC
boundary = 'right'
variable = pressure
function = 0.4
[]
[]
[Materials]
[ins_fv]
type = INSFVMaterial
u = 'u'
v = 'v'
pressure = 'pressure'
rho = ${rho}
[]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
petsc_options_iname = '-pc_type -ksp_gmres_restart -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm 100 lu NONZERO'
line_search = 'none'
[]
[Postprocessors]
[inlet_p]
type = SideAverageValue
variable = 'pressure'
boundary = 'left'
[]
[outlet-u]
type = SideIntegralVariablePostprocessor
variable = u
boundary = 'right'
[]
[]
[Outputs]
exodus = true
csv = false
[]
(modules/xfem/test/tests/switching_material/two_cuts_stationary.i)
[Problem]
solve = false
[]
[XFEM]
qrule = volfrac
output_cut_plane = true
[]
[UserObjects]
[cut1]
type = LevelSetCutUserObject
level_set_var = phi1
negative_id = 1
positive_id = 33
execute_on = NONE
[]
[cut2]
type = LevelSetCutUserObject
level_set_var = phi2
negative_id = 5
positive_id = 16
execute_on = NONE
[]
[combo]
type = ComboCutUserObject
geometric_cut_userobjects = 'cut1 cut2'
cut_subdomain_combinations = '1 5;
1 16;
33 5;
33 16'
cut_subdomains = '1 3 5 7'
[]
[]
[Mesh]
[square]
type = GeneratedMeshGenerator
dim = 2
nx = 5
ny = 5
[]
[]
[AuxVariables]
[phi1]
[InitialCondition]
type = FunctionIC
function = 'x-0.213'
[]
[]
[phi2]
[InitialCondition]
type = FunctionIC
function = 'x-0.728'
[]
[]
[cut1_id]
order = CONSTANT
family = MONOMIAL
[]
[cut2_id]
order = CONSTANT
family = MONOMIAL
[]
[combo_id]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[cut1_id]
type = CutSubdomainIDAux
variable = cut1_id
cut = cut1
[]
[cut2_id]
type = CutSubdomainIDAux
variable = cut2_id
cut = cut2
[]
[combo_id]
type = CutSubdomainIDAux
variable = combo_id
cut = combo
[]
[]
[Materials]
[diffusivity_A]
type = GenericConstantMaterial
prop_names = 'A_D'
prop_values = '5'
[]
[diffusivity_B]
type = GenericConstantMaterial
prop_names = 'B_D'
prop_values = '0.5'
[]
[diffusivity_C]
type = GenericConstantMaterial
prop_names = 'C_D'
prop_values = '12'
[]
[diffusivity_D]
type = GenericConstantMaterial
prop_names = 'D_D'
prop_values = '9'
[]
[diff_combined]
type = XFEMCutSwitchingMaterialReal
cut_subdomain_ids = '1 3 5 7'
base_names = 'A B C D'
prop_name = D
geometric_cut_userobject = combo
outputs = 'exodus'
output_properties = 'D'
[]
[]
[Executioner]
type = Transient
num_steps = 1
max_xfem_update = 1
[]
[Outputs]
exodus = true
[]
(modules/phase_field/test/tests/free_energy_material/RegularSolutionFreeEnergy.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
xmax = 1
ymax = 500
elem_type = QUAD4
[]
[Variables]
[./c]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[./myT]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = y
[../]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = c
[../]
[./diff2]
type = Diffusion
variable = myT
[../]
[]
[BCs]
[./left]
type = FunctionDirichletBC
variable = c
boundary = left
function = x
[../]
[./bottom]
type = FunctionDirichletBC
variable = myT
boundary = bottom
function = y
[../]
[./right]
type = FunctionDirichletBC
variable = c
boundary = right
function = x
[../]
[./top]
type = FunctionDirichletBC
variable = myT
boundary = top
function = y
[../]
[]
[Materials]
[./free_energy]
type = RegularSolutionFreeEnergy
f_name = F
c = c
T = myT
outputs = out
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
l_max_its = 1
nl_max_its = 1
nl_abs_tol = 1
[]
[Outputs]
execute_on = 'timestep_end'
[./out]
type = Exodus
execute_on = timestep_end
[../]
[]
(modules/combined/test/tests/multiphase_mechanics/multiphasestress.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
xmin = 0
xmax = 2
ymin = 0
ymax = 2
elem_type = QUAD4
[]
[GlobalParams]
displacements = 'disp_x disp_y'
[]
[Variables]
[./disp_x]
order = FIRST
family = LAGRANGE
[../]
[./disp_y]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./eta1]
[./InitialCondition]
type = FunctionIC
function = 'x/2'
[../]
[../]
[./eta2]
[./InitialCondition]
type = FunctionIC
function = 'y/2'
[../]
[../]
[./eta3]
[./InitialCondition]
type = FunctionIC
function = '(2^0.5-(y-1)^2=(y-1)^2)/2'
[../]
[../]
[./e11_aux]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./matl_e11]
type = RankTwoAux
rank_two_tensor = stress
index_i = 0
index_j = 0
variable = e11_aux
[../]
[]
[Kernels]
[./TensorMechanics]
[../]
[]
[Materials]
[./elasticity_tensor_A]
type = ComputeElasticityTensor
base_name = A
fill_method = symmetric9
C_ijkl = '1e6 1e5 1e5 1e6 0 1e6 .4e6 .2e6 .5e6'
[../]
[./strain_A]
type = ComputeSmallStrain
base_name = A
eigenstrain_names = eigenstrain
[../]
[./stress_A]
type = ComputeLinearElasticStress
base_name = A
[../]
[./eigenstrain_A]
type = ComputeEigenstrain
base_name = A
eigen_base = '0.1 0.05 0 0 0 0.01'
prefactor = -1
eigenstrain_name = eigenstrain
[../]
[./elasticity_tensor_B]
type = ComputeElasticityTensor
base_name = B
fill_method = symmetric9
C_ijkl = '1e6 0 0 1e6 0 1e6 .5e6 .5e6 .5e6'
[../]
[./strain_B]
type = ComputeSmallStrain
base_name = B
eigenstrain_names = 'B_eigenstrain'
[../]
[./stress_B]
type = ComputeLinearElasticStress
base_name = B
[../]
[./eigenstrain_B]
type = ComputeEigenstrain
base_name = B
eigen_base = '0.1 0.05 0 0 0 0.01'
prefactor = -1
eigenstrain_name = 'B_eigenstrain'
[../]
[./elasticity_tensor_C]
type = ComputeElasticityTensor
base_name = C
fill_method = symmetric9
C_ijkl = '1.1e6 1e5 0 1e6 0 1e6 .5e6 .2e6 .5e6'
[../]
[./strain_C]
type = ComputeSmallStrain
base_name = C
eigenstrain_names = 'C_eigenstrain'
[../]
[./stress_C]
type = ComputeLinearElasticStress
base_name = C
[../]
[./eigenstrain_C]
type = ComputeEigenstrain
base_name = C
eigen_base = '0.1 0.05 0 0 0 0.01'
prefactor = -1
eigenstrain_name = 'C_eigenstrain'
[../]
[./switching_A]
type = SwitchingFunctionMaterial
function_name = h1
eta = eta1
[../]
[./switching_B]
type = SwitchingFunctionMaterial
function_name = h2
eta = eta2
[../]
[./switching_C]
type = SwitchingFunctionMaterial
function_name = h3
eta = eta3
[../]
[./combined]
type = MultiPhaseStressMaterial
phase_base = 'A B C'
h = 'h1 h2 h3'
[../]
[]
[BCs]
[./bottom_y]
type = DirichletBC
variable = disp_y
boundary = 'bottom'
value = 0
[../]
[./left_x]
type = DirichletBC
variable = disp_x
boundary = 'left'
value = 0
[../]
[]
[Preconditioning]
[./SMP]
type = SMP
full = true
[../]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(modules/porous_flow/test/tests/heat_advection/heat_advection_1d_fullsat.i)
# 1phase, heat advecting with a moving fluid
# Full upwinding is used, as implemented by the PorousFlowFullySaturatedUpwindHeatAdvection added
# In this case, the results should be identical to the case when the PorousFlowHeatAdvection Kernel is used.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 50
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[temp]
initial_condition = 200
[]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = '1-x'
[]
[]
[BCs]
[pp0]
type = DirichletBC
variable = pp
boundary = left
value = 1
[]
[pp1]
type = DirichletBC
variable = pp
boundary = right
value = 0
[]
[spit_heat]
type = DirichletBC
variable = temp
boundary = left
value = 300
[]
[suck_heat]
type = DirichletBC
variable = temp
boundary = right
value = 200
[]
[]
[Kernels]
[mass_dot]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[advection]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pp
[]
[energy_dot]
type = PorousFlowEnergyTimeDerivative
variable = temp
[]
[heat_advection]
type = PorousFlowFullySaturatedUpwindHeatAdvection
variable = temp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.6
alpha = 1.3
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 100
density0 = 1000
viscosity = 4.4
thermal_expansion = 0
cv = 2
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.2
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 1.0
density = 125
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 2 0 0 0 3'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[massfrac]
type = PorousFlowMassFraction
[]
[PS]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'gmres bjacobi 1E-15 1E-10 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 0.01
end_time = 0.6
[]
[VectorPostprocessors]
[T]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 51
sort_by = x
variable = temp
[]
[]
[Outputs]
[csv]
type = CSV
sync_times = '0.1 0.6'
sync_only = true
[]
[]
(test/tests/userobjects/shape_element_user_object/shape_element_user_object.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 5
ny = 5
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = (x-0.5)^2
[../]
[../]
[./v]
order = THIRD
family = HERMITE
[./InitialCondition]
type = FunctionIC
function = (y-0.5)^2
[../]
[../]
[]
[Kernels]
[./diff_u]
type = Diffusion
variable = u
[../]
[./diff_v]
type = Diffusion
variable = v
[../]
[./time_u]
type = TimeDerivative
variable = u
[../]
[./time_v]
type = TimeDerivative
variable = v
[../]
[]
[UserObjects]
[./test]
type = TestShapeElementUserObject
u = u
# first order lagrange variables have 4 DOFs per element
u_dofs = 4
v = v
# third order hermite variables have 16 DOFs per element
v_dofs = 16
# as this userobject computes quantities for both the residual AND the jacobian
# it needs to have these execute_on flags set.
execute_on = 'linear nonlinear'
[../]
[]
[Executioner]
type = Transient
dt = 0.1
num_steps = 2
[]
(modules/richards/test/tests/dirac/bh02.i)
# fully-saturated
# production
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh02.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = 1
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E7
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 0.5
dt = 1E-2
solve_type = NEWTON
[]
[Outputs]
file_base = bh02
exodus = false
csv = true
execute_on = timestep_end
[]
(modules/porous_flow/examples/multiapp_fracture_flow/diffusion_multiapp/fracture_app.i)
# Temperature is transferred between the fracture and matrix apps
[Mesh]
[generate]
type = GeneratedMeshGenerator
dim = 1
nx = 100
xmin = 0
xmax = 50.0
[]
[]
[Variables]
[frac_T]
[]
[]
[ICs]
[frac_T]
type = FunctionIC
variable = frac_T
function = 'if(x<1E-6, 2, 0)' # delta function
[]
[]
[AuxVariables]
[transferred_matrix_T]
[]
[]
[Kernels]
[dot]
type = TimeDerivative
variable = frac_T
[]
[fracture_diffusion]
type = Diffusion
variable = frac_T
[]
[toMatrix]
type = PorousFlowHeatMassTransfer
variable = frac_T
v = transferred_matrix_T
transfer_coefficient = 0.004
[]
[]
[Preconditioning]
[entire_jacobian]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
dt = 100
end_time = 100
[]
[VectorPostprocessors]
[final_results]
type = LineValueSampler
start_point = '0 0 0'
end_point = '50 0 0'
num_points = 11
sort_by = x
variable = frac_T
outputs = final_csv
[]
[]
[Outputs]
print_linear_residuals = false
[final_csv]
type = CSV
sync_times = 100
sync_only = true
[]
[]
[MultiApps]
[matrix_app]
type = TransientMultiApp
input_files = matrix_app.i
execute_on = TIMESTEP_END
[]
[]
[Transfers]
[T_to_matrix]
type = MultiAppCopyTransfer
direction = to_multiapp
multi_app = matrix_app
source_variable = frac_T
variable = transferred_frac_T
[]
[T_from_matrix]
type = MultiAppCopyTransfer
direction = from_multiapp
multi_app = matrix_app
source_variable = matrix_T
variable = transferred_matrix_T
[]
[]
(modules/porous_flow/test/tests/numerical_diffusion/pffltvd.i)
# Using flux-limited TVD advection ala Kuzmin and Turek, employing PorousFlow Kernels and UserObjects, with superbee flux-limiter
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowFluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = advective_flux_calculator_0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowFluxLimitedTVDAdvection
variable = porepressure
advective_flux_calculator = advective_flux_calculator_1
[]
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[advective_flux_calculator_0]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 0
[]
[advective_flux_calculator_1]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(test/tests/vectorpostprocessors/element_value_sampler/element_value_sampler.i)
# Tests the ElementValueSampler vector post-processor. In this test, 2 constant
# monomial variables are given distributions by a function and are output to a CSV file.
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
ny = 2
[]
[Functions]
[./u_fn]
type = ParsedFunction
value = '2 * x + 3 * y'
[../]
[./v_fn]
type = ParsedFunction
value = 'x + y'
[../]
[]
[AuxVariables]
[./u]
family = MONOMIAL
order = CONSTANT
[../]
[./v]
family = MONOMIAL
order = CONSTANT
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = u
function = u_fn
[../]
[./v_ic]
type = FunctionIC
variable = v
function = v_fn
[../]
[]
[VectorPostprocessors]
[./element_value_sampler]
type = ElementValueSampler
variable = 'u v'
sort_by = id
execute_on = 'initial'
[../]
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
file_base = 'element_value_sampler'
csv = true
execute_on = 'initial'
[]
(modules/porous_flow/test/tests/hysteresis/hys_sat_01.i)
# 1-phase hysteresis. Saturation calculation. Primary drying curve with low_extension_type = none
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 10
nx = 100
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = pp
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = '1 - x'
[]
[]
[BCs]
[pp]
type = FunctionDirichletBC
variable = pp
function = '1 - x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = pp
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
[]
[saturation_calculator]
type = PorousFlow1PhaseHysP
alpha_d = 10.0
alpha_w = 10.0
n_d = 1.1
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 7.0
low_extension_type = none
porepressure = pp
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[saturation]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[saturation]
type = PorousFlowPropertyAux
variable = saturation
property = saturation
phase = 0
[]
[]
[VectorPostprocessors]
[sat]
type = LineValueSampler
start_point = '0.5 0 0'
end_point = '9.5 0 0'
num_points = 10
sort_by = x
variable = 'saturation pp'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(test/tests/functions/solution_function/solution_function_rot4.i)
# checking rotation of points by 45 deg about z axis in a SolutionUserObject for a 2D situation
[Mesh]
# this is chosen so when i rotate through 45deg i get a length of "1" along the x or y direction
type = GeneratedMesh
dim = 2
xmin = -0.70710678
xmax = 0.70710678
nx = 3
ymin = -0.70710678
ymax = 0.70710678
ny = 3
[]
[UserObjects]
[./solution_uo]
type = SolutionUserObject
mesh = square_with_u_equals_x.e
timestep = 1
system_variables = u
rotation0_vector = '0 0 1'
rotation0_angle = 45
transformation_order = rotation0
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = solution_fcn
[../]
[]
[Functions]
[./solution_fcn]
type = SolutionFunction
from_variable = u
solution = solution_uo
[../]
[]
[Kernels]
[./diff]
type = TimeDerivative
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
l_max_its = 800
nl_rel_tol = 1e-10
num_steps = 1
end_time = 1
dt = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = solution_function_rot4
exodus = true
[]
(modules/porous_flow/examples/tutorial/13.i)
# Example of reactive transport model with dissolution of dolomite
#
# The equilibrium system has 5 primary species (Variables) and
# 5 secondary species (PorousFlowMassFractionAqueousEquilibrium).
# Some of the equilibrium constants have been chosen rather arbitrarily.
#
# Equilibrium reactions
# H+ + HCO3- = CO2(aq)
# -H+ + HCO3- = CO32-
# HCO3- + Ca2+ = CaHCO3+
# HCO3- + Mg2+ = MgHCO3+
# HCO3- + Fe2+ = FeHCO3+
#
# The kinetic reaction that dissolves dolomite involves all 5 primary species.
#
# -2H+ + 2HCO3- + Ca2+ + 0.8Mg2+ + 0.2Fe2+ = CaMg0.8Fe0.2(CO3)2
#
# The initial concentration of precipitated dolomite is high, so it starts
# to dissolve immediately, increasing the concentrations of the primary species.
#
# Only single-phase, fully saturated physics is used.
# The pressure gradient is fixed, so that the Darcy velocity is 0.1m/s.
#
# Primary species are injected from the left side, and they flow to the right.
# Less dolomite dissolution therefore occurs on the left side (where
# the primary species have higher concentration).
#
# This test is more fully documented in tutorial_13
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmax = 1
[]
[Variables]
[h+]
[]
[hco3-]
[]
[ca2+]
[]
[mg2+]
[]
[fe2+]
[]
[]
[AuxVariables]
[eqm_k0]
initial_condition = 2.19E6
[]
[eqm_k1]
initial_condition = 4.73E-11
[]
[eqm_k2]
initial_condition = 0.222
[]
[eqm_k3]
initial_condition = 1E-2
[]
[eqm_k4]
initial_condition = 1E-3
[]
[kinetic_k]
initial_condition = 326.2
[]
[pressure]
[]
[dolomite]
family = MONOMIAL
order = CONSTANT
[]
[dolomite_initial]
initial_condition = 1E-7
[]
[]
[AuxKernels]
[dolomite]
type = PorousFlowPropertyAux
property = mineral_concentration
mineral_species = 0
variable = dolomite
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[ICs]
[pressure_ic]
type = FunctionIC
variable = pressure
function = '(1 - x) * 1E6'
[]
[h+_ic]
type = BoundingBoxIC
variable = h+
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 0.25
inside = 5.0e-2
outside = 1.0e-6
[]
[hco3_ic]
type = BoundingBoxIC
variable = hco3-
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 0.25
inside = 5.0e-2
outside = 1.0e-6
[]
[ca2_ic]
type = BoundingBoxIC
variable = ca2+
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 0.25
inside = 5.0e-2
outside = 1.0e-6
[]
[mg2_ic]
type = BoundingBoxIC
variable = mg2+
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 0.25
inside = 5.0e-2
outside = 1.0e-6
[]
[fe2_ic]
type = BoundingBoxIC
variable = fe2+
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 0.25
inside = 5.0e-2
outside = 1.0e-6
[]
[]
[Kernels]
[h+_ie]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = h+
[]
[h+_conv]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = h+
[]
[predis_h+]
type = PorousFlowPreDis
variable = h+
mineral_density = 2875.0
stoichiometry = -2
[]
[hco3-_ie]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = hco3-
[]
[hco3-_conv]
type = PorousFlowAdvectiveFlux
fluid_component = 1
variable = hco3-
[]
[predis_hco3-]
type = PorousFlowPreDis
variable = hco3-
mineral_density = 2875.0
stoichiometry = 2
[]
[ca2+_ie]
type = PorousFlowMassTimeDerivative
fluid_component = 2
variable = ca2+
[]
[ca2+_conv]
type = PorousFlowAdvectiveFlux
fluid_component = 2
variable = ca2+
[]
[predis_ca2+]
type = PorousFlowPreDis
variable = ca2+
mineral_density = 2875.0
stoichiometry = 1
[]
[mg2+_ie]
type = PorousFlowMassTimeDerivative
fluid_component = 3
variable = mg2+
[]
[mg2+_conv]
type = PorousFlowAdvectiveFlux
fluid_component = 3
variable = mg2+
[]
[predis_mg2+]
type = PorousFlowPreDis
variable = mg2+
mineral_density = 2875.0
stoichiometry = 0.8
[]
[fe2+_ie]
type = PorousFlowMassTimeDerivative
fluid_component = 4
variable = fe2+
[]
[fe2+_conv]
type = PorousFlowAdvectiveFlux
fluid_component = 4
variable = fe2+
[]
[predis_fe2+]
type = PorousFlowPreDis
variable = fe2+
mineral_density = 2875.0
stoichiometry = 0.2
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'h+ hco3- ca2+ mg2+ fe2+'
number_fluid_phases = 1
number_fluid_components = 6
number_aqueous_equilibrium = 5
number_aqueous_kinetic = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
viscosity = 1E-3
[]
[]
[]
[BCs]
[hco3-_left]
type = DirichletBC
variable = hco3-
boundary = left
value = 5E-2
[]
[h+_left]
type = DirichletBC
variable = h+
boundary = left
value = 5E-2
[]
[ca2+_left]
type = DirichletBC
variable = ca2+
boundary = left
value = 5E-2
[]
[mg2+_left]
type = DirichletBC
variable = mg2+
boundary = left
value = 5E-2
[]
[fe2+_left]
type = DirichletBC
variable = fe2+
boundary = left
value = 5E-2
[]
[hco3-_right]
type = DirichletBC
variable = hco3-
boundary = right
value = 1E-6
[]
[h+_right]
type = DirichletBC
variable = h+
boundary = right
value = 1e-6
[]
[ca2+_right]
type = DirichletBC
variable = ca2+
boundary = right
value = 1E-6
[]
[mg2+_right]
type = DirichletBC
variable = mg2+
boundary = right
value = 1E-6
[]
[fe2+_right]
type = DirichletBC
variable = fe2+
boundary = right
value = 1E-6
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = 298.15
[]
[ppss]
type = PorousFlow1PhaseFullySaturated
porepressure = pressure
[]
[equilibrium_massfrac]
type = PorousFlowMassFractionAqueousEquilibriumChemistry
mass_fraction_vars = 'h+ hco3- ca2+ mg2+ fe2+'
num_reactions = 5
equilibrium_constants = 'eqm_k0 eqm_k1 eqm_k2 eqm_k3 eqm_k4'
primary_activity_coefficients = '1 1 1 1 1'
secondary_activity_coefficients = '1 1 1 1 1'
reactions = '1 1 0 0 0
-1 1 0 0 0
0 1 1 0 0
0 1 0 1 0
0 1 0 0 1'
[]
[kinetic]
type = PorousFlowAqueousPreDisChemistry
primary_concentrations = 'h+ hco3- ca2+ mg2+ fe2+'
num_reactions = 1
equilibrium_constants = kinetic_k
primary_activity_coefficients = '1 1 1 1 1'
reactions = '-2 2 1 0.8 0.2'
specific_reactive_surface_area = '1.2E-8'
kinetic_rate_constant = '3E-4'
activation_energy = '1.5e4'
molar_volume = 64365.0
gas_constant = 8.314
reference_temperature = 298.15
[]
[dolomite_conc]
type = PorousFlowAqueousPreDisMineral
initial_concentrations = dolomite_initial
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.2
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
[]
[relp]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 1
[TimeStepper]
type = IterationAdaptiveDT
dt = 0.1
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[Outputs]
print_linear_residuals = false
perf_graph = true
exodus = true
[]
(modules/porous_flow/test/tests/mass_conservation/mass06.i)
# Checking that the mass postprocessor correctly calculates the mass
# of each component in each phase, as well as the total mass of each
# component in all phases. Also tests that optional saturation threshold
# gives the correct mass
# 2phase, 2component, constant porosity
# saturation_threshold set to 0.6 for phase 1
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[sat]
[]
[]
[AuxVariables]
[massfrac_ph0_sp0]
initial_condition = 1
[]
[massfrac_ph1_sp0]
initial_condition = 0
[]
[]
[ICs]
[pinit]
type = ConstantIC
value = 1
variable = pp
[]
[satinit]
type = FunctionIC
function = 1-x
variable = sat
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = sat
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp sat'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 0.1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = pp
phase1_saturation = sat
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac_ph0_sp0 massfrac_ph1_sp0'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[comp0_phase0_mass]
type = PorousFlowFluidMass
fluid_component = 0
phase = 0
[]
[comp0_phase1_mass]
type = PorousFlowFluidMass
fluid_component = 0
phase = 1
[]
[comp0_total_mass]
type = PorousFlowFluidMass
fluid_component = 0
[]
[comp1_phase0_mass]
type = PorousFlowFluidMass
fluid_component = 1
phase = 0
[]
[comp1_phase1_mass]
type = PorousFlowFluidMass
fluid_component = 1
phase = 1
[]
[comp1_total_mass]
type = PorousFlowFluidMass
fluid_component = 1
[]
[comp1_phase1_threshold_mass]
type = PorousFlowFluidMass
fluid_component = 1
phase = 1
saturation_threshold = 0.6
[]
[]
[Executioner]
type = Transient
solve_type = Newton
nl_abs_tol = 1e-16
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = mass06
csv = true
[]
(test/tests/transfers/multiapp_conservative_transfer/primary_skipped_adjuster.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
[]
[Variables]
[u]
[]
[]
[Kernels]
[diff]
type = Diffusion
variable = u
[]
[]
[BCs]
[left]
type = DirichletBC
variable = u
boundary = left
value = 0
[]
[right]
type = DirichletBC
variable = u
boundary = right
value = 1
[]
[]
[AuxVariables]
[var]
family = MONOMIAL
order = THIRD
[]
[]
[ICs]
[var_ic]
type = FunctionIC
variable = var
function = '-exp(x * y)'
[]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[MultiApps]
[sub]
type = FullSolveMultiApp
input_files = secondary_negative_adjuster.i
execute_on = timestep_begin
[]
[]
[Postprocessors]
[from_postprocessor]
type = ElementIntegralVariablePostprocessor
variable = var
[]
[]
[Transfers]
[to_sub]
type = MultiAppMeshFunctionTransfer
direction = to_multiapp
source_variable = var
variable = var
multi_app = sub
from_postprocessors_to_be_preserved = 'from_postprocessor'
to_postprocessors_to_be_preserved = 'to_postprocessor'
allow_skipped_adjustment = true
[]
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/dirac/bh_fu_03.i)
# fully-saturated
# injection
# fullyupwind
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 1E7
point_file = bh03.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = -1
fully_upwind = true
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 0
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 0.5
dt = 1E-2
solve_type = NEWTON
[]
[Outputs]
file_base = bh_fu_03
exodus = false
csv = true
execute_on = timestep_end
[]
(test/tests/misc/check_error/function_file_test13.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_columns_more_data.csv
format = columns
xy_in_file_only = false
x_index_in_file = 3 #Will generate error because data does not contain 4 columns
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(test/tests/meshgenerators/mesh_side_set_generator/mesh_side_set_generator.i)
[Mesh]
[./gmg]
type = GeneratedMeshGenerator
dim = 3
nx = 4
ny = 4
nz = 4
elem_type = TET4
[]
[./left_block]
type = SubdomainBoundingBoxGenerator
input = gmg
block_id = 1
block_name = left_block
bottom_left = '0 0 0'
top_right = '0.5 1 1'
[]
[./right_block]
type = SubdomainBoundingBoxGenerator
input = left_block
block_id = 2
block_name = right_block
bottom_left = '0.5 0 0'
top_right = '1 1 1'
[]
[./center_side_set]
type = SideSetsBetweenSubdomainsGenerator
input = right_block
primary_block = left_block
paired_block = right_block
new_boundary = center_side_set
[]
[./center_mesh]
type = MeshSideSetGenerator
input = center_side_set
boundaries = center_side_set
block_id = 10
block_name = center_mesh
[]
[]
[Variables]
[./c_volume]
[./InitialCondition]
type = FunctionIC
function = '1-(x-0.5)^2+(y-0.5)^2+(z-0.5)^2'
[../]
[../]
[./c_plane]
block = 'center_mesh'
[../]
[]
[Kernels]
[./volume_diff]
type = Diffusion
variable = c_volume
block = 'left_block right_block'
[../]
[./volume_dt]
type = TimeDerivative
variable = c_volume
block = 'left_block right_block'
[../]
# couple the lower dimensional variable to the volume variable
[./plane_reaction]
type = Reaction
variable = c_plane
block = 'center_mesh'
[../]
[./plane_coupled]
type = CoupledForce
variable = c_plane
v = c_volume
block = 'center_mesh'
[../]
[]
[Executioner]
type = Transient
dt = 0.01
num_steps = 2
[]
[Outputs]
exodus = true
[]
(modules/combined/test/tests/multiphase_mechanics/nonsplit_gradderiv.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 5
xmax = 10
ymax = 10
[]
[GlobalParams]
displacements = 'disp_x disp_y'
displacement_gradients = 'gxx gxy gyx gyy'
[]
[AuxVariables]
[./disp_x]
[./InitialCondition]
type = FunctionIC
function = '0.1*sin(2*x/10*3.14159265359)'
[../]
[../]
[./disp_y]
[./InitialCondition]
type = FunctionIC
function = '0.1*sin(1*y/10*3.14159265359)'
[../]
[../]
[]
[Variables]
[./c]
order = THIRD
family = HERMITE
initial_condition = 0
[../]
[./gxx]
[../]
[./gxy]
[../]
[./gyx]
[../]
[./gyy]
[../]
[]
[Kernels]
[./dt]
type = TimeDerivative
variable = c
[../]
[./bulk]
type = CahnHilliard
variable = c
mob_name = M
f_name = F
[../]
[./int]
type = CHInterface
variable = c
mob_name = M
kappa_name = kappa_c
[../]
[./gxx]
type = GradientComponent
variable = gxx
v = disp_x
component = 0
[../]
[./gxy]
type = GradientComponent
variable = gxy
v = disp_x
component = 1
[../]
[./gyx]
type = GradientComponent
variable = gyx
v = disp_y
component = 0
[../]
[./gyy]
type = GradientComponent
variable = gyy
v = disp_y
component = 1
[../]
[]
[BCs]
[./Periodic]
[./All]
auto_direction = 'x y'
[../]
[../]
[]
[Materials]
[./consts]
type = GenericConstantMaterial
prop_names = 'M kappa_c'
prop_values = '1 0.1'
[../]
[./straingradderiv]
type = StrainGradDispDerivatives
[../]
[./elasticity_tensor]
type = ComputeConcentrationDependentElasticityTensor
c = c
C0_ijkl = '1.0 1.0'
C1_ijkl = '3.0 3.0'
fill_method0 = symmetric_isotropic
fill_method1 = symmetric_isotropic
[../]
[./smallstrain]
type = ComputeSmallStrain
[../]
[./linearelastic_a]
type = ComputeLinearElasticStress
[../]
[./elastic_free_energy]
type = ElasticEnergyMaterial
f_name = F
args = 'c'
derivative_order = 3
[../]
[]
[Executioner]
type = Transient
scheme = 'bdf2'
solve_type = NEWTON
l_max_its = 30
l_tol = 1.0e-6
nl_max_its = 15
nl_rel_tol = 1.0e-7
nl_abs_tol = 1.0e-10
num_steps = 2
dt = 1
[]
[Outputs]
perf_graph = true
exodus = true
[]
(modules/porous_flow/test/tests/numerical_diffusion/fltvd.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek, with antidiffusion from superbee flux limiting
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '0.1 0 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
nl_max_its = 500
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/richards/test/tests/sinks/s03.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.5
al = 1
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.2
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[AuxVariables]
[./seff]
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 2
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-lfout-rfout-mf)/2/(mi+mf))
vars = 'mi mf lfout rfout'
vals = 'mass_init mass_fin left_flux_out right_flux_out'
[../]
[]
[Postprocessors]
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./mass_fin]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./left_flux_out]
type = RichardsPiecewiseLinearSinkFlux
boundary = left
variable = pressure
pressures = '-1 1'
bare_fluxes = '1E2 2E2'
use_mobility = true
use_relperm = true
[../]
[./right_flux_out]
type = RichardsPiecewiseLinearSinkFlux
boundary = right
variable = pressure
pressures = '-1 1'
bare_fluxes = '1E2 2E2'
use_mobility = true
use_relperm = true
[../]
[./p0]
type = PointValue
point = '0 0 0'
variable = pressure
[../]
[./s0]
type = PointValue
point = '0 0 0'
variable = seff
[../]
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
[BCs]
[./left_flux]
type = RichardsPiecewiseLinearSink
boundary = left
pressures = '-1 1'
bare_fluxes = '1E2 2E2'
variable = pressure
use_mobility = true
use_relperm = true
[../]
[./right_flux]
type = RichardsPiecewiseLinearSink
boundary = right
pressures = '-1 1'
bare_fluxes = '1E2 2E2'
variable = pressure
use_mobility = true
use_relperm = true
[../]
[]
[Kernels]
active = 'richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[]
[AuxKernels]
[./seff_auxk]
type = RichardsSeffAux
variable = seff
seff_UO = SeffVG
pressure_vars = 'pressure'
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 2.1E-5 2.2E-5 2.1E-5 0.1E-5 3.3E-5 2.2E-5 3.3E-5 2E-5'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-10 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 2E-3
end_time = 0.2
[]
[Outputs]
file_base = s03
csv = true
execute_on = timestep_end
[]
(test/tests/functions/solution_function/solution_function_rot3.i)
# checking rotation of points by 90 deg about z axis, then 45 deg about x axis in a SolutionUserObject
[Mesh]
# this is chosen so when i rotate through 45deg i get a length of "1" along the x or y or z direction
type = GeneratedMesh
dim = 3
xmin = -0.70710678
xmax = 0.70710678
nx = 3
ymin = -0.70710678
ymax = 0.70710678
ny = 3
zmin = -0.70710678
zmax = 0.70710678
nz = 3
[]
[UserObjects]
[./solution_uo]
type = SolutionUserObject
mesh = cube_with_u_equals_x.e
timestep = 1
system_variables = u
# the following takes:
# (0.7, 0.7, +/-0.7) -> (-0.7, 0.7, +/-0.7)
# (-0.7, 0.7, +/-0.7) -> (-0.7, -0.7, +/-0.7)
# (0.7, -0.7, +/-0.7) -> (0.7, 0.7, +/-0.7)
# (-0.7, -0.7, +/-0.7) -> (0.7, -0.7, +/-0.7)
rotation0_vector = '0 0 1'
rotation0_angle = 90
# then the following takes:
# (+/-0.7, 0.7, 0.7) -> (+/-0.7, 0, 1)
# (+/-0.7, 0.7, -0.7) -> (+/-0.7, 1, 0)
# (+/-0.7, -0.7, 0.7) -> (+/-0.7, -1, 0)
# (+/-0.7, -0.7, -0.7) -> (+/-0.7, 0, -1)
rotation1_vector = '1 0 0'
rotation1_angle = 45
# so, in total: a point y = +/-0.7 takes values from x = -/+0.7, so solution_function_rot3 should have u = -y
transformation_order = 'rotation0 rotation1'
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = solution_fcn
[../]
[]
[Functions]
[./solution_fcn]
type = SolutionFunction
from_variable = u
solution = solution_uo
[../]
[]
[Kernels]
[./diff]
type = TimeDerivative
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
l_max_its = 800
nl_rel_tol = 1e-10
num_steps = 1
end_time = 1
dt = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = solution_function_rot3
exodus = true
[]
(test/tests/userobjects/shape_element_user_object/shape_side_uo_physics_test.i)
u_left = 0.5
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
parallel_type = replicated
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[./pot]
[../]
[]
[Kernels]
[./diff_u]
type = Diffusion
variable = u
[../]
[./adv_u]
type = PotentialAdvection
variable = u
potential = pot
[../]
[./diff_pot]
type = Diffusion
variable = pot
[../]
[]
[BCs]
[./left]
boundary = left
type = DirichletBC
value = ${u_left}
variable = u
[../]
[./right]
boundary = right
type = DirichletBC
variable = u
value = 0
[../]
[./left_pot]
boundary = left
type = ExampleShapeSideIntegratedBC
variable = pot
num_user_object = num_user_object
denom_user_object = denom_user_object
v = u
Vb = 1
[../]
[./right_pot]
boundary = right
type = DirichletBC
variable = pot
value = 0
[../]
[]
[UserObjects]
[./num_user_object]
type = NumShapeSideUserObject
u = u
boundary = left
execute_on = 'linear nonlinear'
[../]
[./denom_user_object]
type = DenomShapeSideUserObject
u = u
boundary = left
execute_on = 'linear nonlinear'
[../]
[]
[AuxVariables]
[./u_flux]
family = MONOMIAL
order = CONSTANT
[../]
[]
[AuxKernels]
[./u_flux]
type = DriftDiffusionFluxAux
variable = u_flux
u = u
potential = pot
component = 0
[../]
[]
[Problem]
type = FEProblem
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
petsc_options = '-snes_converged_reason -ksp_converged_reason -snes_linesearch_monitor'
petsc_options_iname = '-pc_type -sub_pc_type -sub_ksp_type'
petsc_options_value = 'asm lu preonly'
[]
[Outputs]
exodus = true
perf_graph = true
[]
[ICs]
[./u]
type = FunctionIC
variable = u
function = ic_u
[../]
[./pot]
type = FunctionIC
variable = pot
function = ic_pot
[../]
[]
[Functions]
[./ic_u]
type = ParsedFunction
value = '${u_left} * (1 - x)'
[../]
[./ic_pot]
type = ParsedFunction
value = '1 - x'
[../]
[]
(modules/porous_flow/test/tests/sinks/s08.i)
# apply a sink flux on just one component of a 3-component, 2-phase system and observe the correct behavior
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pwater frac_ph0_c0 pgas'
number_fluid_phases = 2
number_fluid_components = 3
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1.1
[]
[]
[Variables]
[pwater]
[]
[frac_ph0_c0]
initial_condition = 0.3
[]
[pgas]
[]
[]
[ICs]
[pwater]
type = FunctionIC
variable = pwater
function = y
[]
[pgas]
type = FunctionIC
variable = pgas
function = y+3
[]
[]
[Kernels]
[mass_c0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = frac_ph0_c0
[]
[mass_c1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = pwater
[]
[mass_c2]
type = PorousFlowMassTimeDerivative
fluid_component = 2
variable = pgas
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
bulk_modulus = 2.3
density0 = 1.5
thermal_expansion = 0
viscosity = 2.1
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 1.3
density0 = 1.1
thermal_expansion = 0
viscosity = 1.1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePP
phase0_porepressure = pwater
phase1_porepressure = pgas
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'frac_ph0_c0 frac_ph0_c1 frac_ph1_c0 frac_ph1_c1'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '0.2 0 0 0 0.1 0 0 0 0.1'
[]
[relperm0]
type = PorousFlowRelativePermeabilityCorey
n = 1
phase = 0
[]
[relperm1]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 1
[]
[]
[AuxVariables]
[flux_out]
[]
[frac_ph0_c1]
initial_condition = 0.35
[]
[frac_ph1_c0]
initial_condition = 0.1
[]
[frac_ph1_c1]
initial_condition = 0.8
[]
[]
[Functions]
[mass1_00]
type = ParsedFunction
value = 'fgas*vol*por*dens0gas*exp(pgas/bulkgas)*(1-pow(1+pow(al*(pgas-pwater),1.0/(1-m)),-m))+fwater*vol*por*dens0water*exp(pwater/bulkwater)*(pow(1+pow(al*(pgas-pwater),1.0/(1-m)),-m))'
vars = 'vol por dens0gas pgas pwater bulkgas al m dens0water bulkwater fgas fwater'
vals = '0.25 0.1 1.1 pgas_00 pwater_00 1.3 1.1 0.5 1.5 2.3 frac_ph1_c1_00 frac_ph0_c1_00'
[]
[expected_mass_change1_00]
type = ParsedFunction
value = 'frac*fcn*area*dt*pow(1-pow(1+pow(al*(pgas-pwater),1.0/(1-m)),-m), 2)'
vars = 'frac fcn area dt pgas pwater al m'
vals = 'frac_ph1_c1_00 100 0.5 1E-3 pgas_00 pwater_00 1.1 0.5'
[]
[mass1_00_expect]
type = ParsedFunction
value = 'mass_prev-mass_change'
vars = 'mass_prev mass_change'
vals = 'm1_00_prev del_m1_00'
[]
[]
[Postprocessors]
[total_mass_comp0]
type = PorousFlowFluidMass
fluid_component = 0
[]
[total_mass_comp1]
type = PorousFlowFluidMass
fluid_component = 1
[]
[total_mass_comp2]
type = PorousFlowFluidMass
fluid_component = 2
[]
[frac_ph1_c1_00]
type = PointValue
point = '0 0 0'
variable = frac_ph1_c1
execute_on = 'initial timestep_end'
[]
[frac_ph0_c1_00]
type = PointValue
point = '0 0 0'
variable = frac_ph0_c1
execute_on = 'initial timestep_end'
[]
[flux_00]
type = PointValue
point = '0 0 0'
variable = flux_out
execute_on = 'initial timestep_end'
[]
[pgas_00]
type = PointValue
point = '0 0 0'
variable = pgas
execute_on = 'initial timestep_end'
[]
[pwater_00]
type = PointValue
point = '0 0 0'
variable = pwater
execute_on = 'initial timestep_end'
[]
[m1_00]
type = FunctionValuePostprocessor
function = mass1_00
execute_on = 'initial timestep_end'
[]
[m1_00_prev]
type = FunctionValuePostprocessor
function = mass1_00
execute_on = 'timestep_begin'
outputs = 'console'
[]
[del_m1_00]
type = FunctionValuePostprocessor
function = expected_mass_change1_00
execute_on = 'timestep_end'
outputs = 'console'
[]
[m1_00_expect]
type = FunctionValuePostprocessor
function = mass1_00_expect
execute_on = 'timestep_end'
[]
[]
[BCs]
[flux_ph1_c1]
type = PorousFlowSink
boundary = 'left'
variable = pwater # sink applied to the mass_c1 Kernel
use_mobility = false
use_relperm = true
mass_fraction_component = 1
fluid_phase = 1
flux_function = 100
save_in = flux_out
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 100 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-3
end_time = 0.01
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s08
exodus = true
[console]
type = Console
execute_on = 'nonlinear linear'
[]
[csv]
type = CSV
execute_on = 'timestep_end'
[]
[]
(modules/navier_stokes/test/tests/finite_volume/pins/channel-flow/porosity_jump/1d-rc-epsjump.i)
mu=1.1
rho=1.1
advected_interp_method='upwind'
velocity_interp_method='rc'
[Mesh]
[mesh]
type = CartesianMeshGenerator
dim = 1
dx = '1 1'
ix = '30 30'
subdomain_id = '1 2'
[]
[]
[GlobalParams]
two_term_boundary_expansion = true
[]
[Variables]
[u]
type = PINSFVSuperficialVelocityVariable
initial_condition = 1
[]
[pressure]
type = INSFVPressureVariable
[]
[]
[AuxVariables]
[porosity]
family = MONOMIAL
order = CONSTANT
fv = true
[]
[]
[ICs]
inactive = 'porosity_continuous'
[porosity_1]
type = ConstantIC
variable = porosity
block = 1
value = 1
[]
[porosity_2]
type = ConstantIC
variable = porosity
block = 2
value = 0.5
[]
[porosity_continuous]
type = FunctionIC
variable = porosity
block = '1 2'
function = smooth_jump
[]
[]
[Functions]
[smooth_jump]
type = ParsedFunction
value = '1 - 0.5 * 1 / (1 + exp(-30*(x-1)))'
[]
[]
[FVKernels]
inactive = 'u_advection_porosity_gradient'
[mass]
type = PINSFVMassAdvection
variable = pressure
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
vel = 'velocity'
pressure = pressure
u = u
mu = ${mu}
rho = ${rho}
porosity = porosity
[]
[u_advection]
type = PINSFVMomentumAdvection
variable = u
advected_quantity = 'rhou'
vel = 'velocity'
advected_interp_method = ${advected_interp_method}
velocity_interp_method = ${velocity_interp_method}
pressure = pressure
u = u
mu = ${mu}
rho = ${rho}
porosity = porosity
[]
[u_viscosity]
type = PINSFVMomentumDiffusion
variable = u
mu = ${mu}
porosity = porosity
[]
[u_pressure]
type = PINSFVMomentumPressure
variable = u
pressure = pressure
porosity = porosity
momentum_component = 'x'
[]
[u_advection_porosity_gradient]
type = PINSFVMomentumAdvectionPorosityGradient
variable = u
u = u
rho = ${rho}
porosity = porosity
momentum_component = 'x'
smooth_porosity = true
[]
[]
[FVBCs]
[inlet-u]
type = INSFVInletVelocityBC
boundary = 'left'
variable = u
function = '1'
[]
[outlet_p]
type = INSFVOutletPressureBC
boundary = 'right'
variable = pressure
function = 1
[]
[]
[Materials]
[ins_fv]
type = INSFVMaterial
u = 'u'
pressure = 'pressure'
rho = ${rho}
[]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
petsc_options_iname = '-pc_type -ksp_gmres_restart -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm 100 lu NONZERO'
line_search = 'none'
[]
[Postprocessors]
[inlet_p]
type = SideAverageValue
variable = 'pressure'
boundary = 'left'
[]
[outlet-u]
type = SideIntegralVariablePostprocessor
variable = u
boundary = 'right'
[]
[]
[Outputs]
exodus = true
csv = false
[]
(modules/porous_flow/test/tests/sinks/s02.i)
# apply a sink flux with use_mobility=true and observe the correct behavior
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = y+1
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.3
density0 = 1.1
thermal_expansion = 0
viscosity = 1.1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '0.2 0 0 0 0.1 0 0 0 0.1'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[AuxVariables]
[flux_out]
[]
[xval]
[]
[yval]
[]
[]
[ICs]
[xval]
type = FunctionIC
variable = xval
function = x
[]
[yval]
type = FunctionIC
variable = yval
function = y
[]
[]
[Functions]
[mass00]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)'
vars = 'vol por dens0 pp bulk'
vals = '0.25 0.1 1.1 p00 1.3'
[]
[mass01]
type = ParsedFunction
value = 'vol*por*dens0*exp(pp/bulk)'
vars = 'vol por dens0 pp bulk'
vals = '0.25 0.1 1.1 p01 1.3'
[]
[expected_mass_change00]
type = ParsedFunction
value = 'fcn*perm*dens0*exp(pp/bulk)/visc*area*dt'
vars = 'fcn perm dens0 pp bulk visc area dt'
vals = '6 0.2 1.1 p00 1.3 1.1 0.5 1E-3'
[]
[expected_mass_change01]
type = ParsedFunction
value = 'fcn*perm*dens0*exp(pp/bulk)/visc*area*dt'
vars = 'fcn perm dens0 pp bulk visc area dt'
vals = '6 0.2 1.1 p01 1.3 1.1 0.5 1E-3'
[]
[mass00_expect]
type = ParsedFunction
value = 'mass_prev-mass_change'
vars = 'mass_prev mass_change'
vals = 'm00_prev del_m00'
[]
[mass01_expect]
type = ParsedFunction
value = 'mass_prev-mass_change'
vars = 'mass_prev mass_change'
vals = 'm01_prev del_m01'
[]
[]
[Postprocessors]
[p00]
type = PointValue
point = '0 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m00]
type = FunctionValuePostprocessor
function = mass00
execute_on = 'initial timestep_end'
[]
[m00_prev]
type = FunctionValuePostprocessor
function = mass00
execute_on = 'timestep_begin'
outputs = 'console'
[]
[del_m00]
type = FunctionValuePostprocessor
function = expected_mass_change00
execute_on = 'timestep_end'
outputs = 'console'
[]
[m00_expect]
type = FunctionValuePostprocessor
function = mass00_expect
execute_on = 'timestep_end'
[]
[p10]
type = PointValue
point = '1 0 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[p01]
type = PointValue
point = '0 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[m01]
type = FunctionValuePostprocessor
function = mass01
execute_on = 'initial timestep_end'
[]
[m01_prev]
type = FunctionValuePostprocessor
function = mass01
execute_on = 'timestep_begin'
outputs = 'console'
[]
[del_m01]
type = FunctionValuePostprocessor
function = expected_mass_change01
execute_on = 'timestep_end'
outputs = 'console'
[]
[m01_expect]
type = FunctionValuePostprocessor
function = mass01_expect
execute_on = 'timestep_end'
[]
[p11]
type = PointValue
point = '1 1 0'
variable = pp
execute_on = 'initial timestep_end'
[]
[]
[BCs]
[flux]
type = PorousFlowSink
boundary = 'left'
variable = pp
use_mobility = true
use_relperm = true
fluid_phase = 0
flux_function = 6
save_in = flux_out
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10000 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-3
end_time = 0.03
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[Outputs]
file_base = s02
[console]
type = Console
execute_on = 'nonlinear linear'
interval = 30
[]
[csv]
type = CSV
execute_on = 'timestep_end'
interval = 3
[]
[]
(modules/porous_flow/test/tests/dirackernels/pls03.i)
# Test that the upwinding works correctly.
#
# A poly-line sink sits at the centre of the element.
# It has length=4 and weight=0.5, and extracts fluid
# at a constant rate of
# (1 * relative_permeability) kg.m^-1.s^-1
# Since it sits at the centre of the element, it extracts
# equally from each node, so the rate of extraction from
# each node is
# (0.5 * relative_permeability) kg.s^-1
# including the length and weight effects.
#
# There is no fluid flow.
#
# The initial conditions are such that all nodes have
# relative_permeability=0, except for one which has
# relative_permeaility = 1. Therefore, all nodes should
# remain at their initial porepressure, except the one.
#
# The porosity is 0.1, and the elemental volume is 2,
# so the fluid mass at the node in question = 0.2 * density / 4,
# where the 4 is the number of nodes in the element.
# In this simulation density = dens0 * exp(P / bulk), with
# dens0 = 100, and bulk = 20 MPa.
# The initial porepressure P0 = 10 MPa, so the final (after
# 1 second of simulation) is
# P(t=1) = 8.748592 MPa
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 2
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
#function = if((x<1)&(y<0.5),1E7,-1E7)
function = if((x<1)&(y>0.5),1E7,-1E7)
#function = if((x>1)&(y<0.5),1E7,-1E7)
#function = if((x>1)&(y>0.5),1E7,-1E7)
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pls_total_outflow_mass]
type = PorousFlowSumQuantity
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1e-7
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e7
density0 = 100
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[relperm]
type = PorousFlowRelativePermeabilityFLAC
phase = 0
m = 2
s_res = 0.99
sum_s_res = 0.99
[]
[]
[DiracKernels]
[pls]
type = PorousFlowPolyLineSink
fluid_phase = 0
point_file = pls03.bh
use_relative_permeability = true
line_length = 4
SumQuantityUO = pls_total_outflow_mass
variable = pp
p_or_t_vals = '0 1E7'
fluxes = '1 1'
[]
[]
[Postprocessors]
[pls_report]
type = PorousFlowPlotQuantity
uo = pls_total_outflow_mass
[]
[fluid_mass0]
type = PorousFlowFluidMass
execute_on = timestep_begin
[]
[fluid_mass1]
type = PorousFlowFluidMass
execute_on = timestep_end
[]
[zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[]
[p00]
type = PointValue
variable = pp
point = '0 0 0'
execute_on = timestep_end
[]
[p01]
type = PointValue
variable = pp
point = '0 1 0'
execute_on = timestep_end
[]
[p20]
type = PointValue
variable = pp
point = '2 0 0'
execute_on = timestep_end
[]
[p21]
type = PointValue
variable = pp
point = '2 1 0'
execute_on = timestep_end
[]
[]
[Functions]
[mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 pls_report'
[]
[]
[Preconditioning]
[usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[]
[]
[Executioner]
type = Transient
end_time = 1
dt = 1
solve_type = NEWTON
[]
[Outputs]
file_base = pls03
exodus = false
csv = true
execute_on = timestep_end
[]
(test/tests/executioners/nullspace/singular.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = 0
xmax = 10
nx = 8
[]
[Problem]
null_space_dimension = 1
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[./eig]
type = MassEigenKernel
variable = u
eigen_postprocessor = 1.0002920196258376e+01
eigen = false
[../]
[./force]
type = CoupledForce
variable = u
v = aux_v
[../]
[]
[AuxVariables]
[./aux_v]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = eigen_mode
[../]
[../]
[]
[AuxKernels]
[./set_source]
type = FunctionAux
variable = aux_v
function = second_harmonic
execute_on = timestep_begin
[../]
[]
[Functions]
[./eigen_mode]
type = ParsedFunction
value = 'sqrt(2.0 / L) * sin(mode * pi * x / L)'
vars = 'L mode'
vals = '10 1'
[../]
[./second_harmonic]
type = ParsedFunction
value = 'sqrt(2.0 / L) * sin(mode * pi * x / L)'
vars = 'L mode'
vals = '10 2'
[../]
[]
[BCs]
[./homogeneous]
type = DirichletBC
variable = u
boundary = '0 1'
value = 0
[../]
[]
[VectorPostprocessors]
[./sample_solution]
type = LineValueSampler
variable = u
start_point = '0 0 0'
end_point = '10 0 0'
sort_by = x
num_points = 9
execute_on = timestep_end
[../]
[]
[Preconditioning]
[./prec]
type = SMP
full = true
[../]
[]
[Executioner]
type = SteadyWithNull
petsc_options_iname = '-pc_type -pc_hypre_type -ksp_pc_side -snes_type -ksp_norm_type'
petsc_options_value = 'hypre boomeramg left ksponly preconditioned'
nl_rel_tol = 1.0e-14
nl_abs_tol = 1.0e-14
[]
[Outputs]
execute_on = 'timestep_end'
csv = true
[]
(test/tests/interfacekernels/ik_displaced/displaced.i)
[Mesh]
displacements = 'disp_x disp_y'
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 2
xmax = 2
ny = 2
ymax = 2
[]
[./subdomain1]
input = gen
type = SubdomainBoundingBoxGenerator
bottom_left = '0 0 0'
top_right = '1 1 0'
block_id = 1
[../]
[./interface]
type = SideSetsBetweenSubdomainsGenerator
input = subdomain1
primary_block = '0'
paired_block = '1'
new_boundary = 'primary0_interface'
[../]
[./break_boundary]
input = interface
type = BreakBoundaryOnSubdomainGenerator
[../]
[]
[AuxVariables]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
block = 0
[../]
[./v]
order = FIRST
family = LAGRANGE
block = 1
[../]
[]
[Kernels]
[./diff_u]
type = CoeffParamDiffusion
variable = u
D = 4
block = 0
[../]
[./diff_v]
type = CoeffParamDiffusion
variable = v
D = 2
block = 1
[../]
[./source_u]
type = BodyForce
variable = u
value = 1
[../]
[]
[InterfaceKernels]
[./interface]
type = InterfacialSource
variable = u
neighbor_var = v
boundary = primary0_interface
use_displaced_mesh = true
[../]
[]
[BCs]
[./u]
type = VacuumBC
variable = u
boundary = 'left_to_0 bottom_to_0 right top'
[../]
[./v]
type = VacuumBC
variable = v
boundary = 'left_to_1 bottom_to_1'
[../]
[]
[Postprocessors]
[./u_int]
type = ElementIntegralVariablePostprocessor
variable = u
block = 0
[../]
[./v_int]
type = ElementIntegralVariablePostprocessor
variable = v
block = 1
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Executioner]
type = Steady
solve_type = NEWTON
[]
[Outputs]
file_base = displaced
exodus = true
[]
[Functions]
[./disp_x_func]
type = ParsedFunction
value = x
[../]
[./disp_y_func]
type = ParsedFunction
value = y
[../]
[]
[ICs]
[./disp_x_ic]
function = disp_x_func
variable = disp_x
type = FunctionIC
[../]
[./disp_y_ic]
function = disp_y_func
variable = disp_y
type = FunctionIC
[../]
[]
(modules/porous_flow/test/tests/hysteresis/hys_pc_02.i)
# Capillary-pressure calculation. Primary drying curve with low_extension_type = quadratic
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 1
nx = 100
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = ''
[]
[]
[Variables]
[sat]
[]
[]
[ICs]
[sat]
type = FunctionIC
variable = sat
function = 'x'
[]
[]
[BCs]
[sat]
type = FunctionDirichletBC
variable = sat
function = 'x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = sat
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
[]
[pc_calculator]
type = PorousFlowHystereticInfo
alpha_d = 10.0
alpha_w = 10.0
n_d = 1.5
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 12.0
low_extension_type = quadratic
sat_var = sat
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[pc]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[pc]
type = PorousFlowPropertyAux
variable = pc
property = hysteretic_info
[]
[]
[VectorPostprocessors]
[pc]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 10
sort_by = x
variable = 'sat pc'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(test/tests/time_steppers/timesequence_stepper/exodustimesequence.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
end_time = 4.0
[./TimeStepper]
type = ExodusTimeSequenceStepper
mesh = timesequence_no_start_time.e
[../]
[]
[Outputs]
exodus = true
[]
(test/tests/postprocessors/find_value_on_line/findvalueonline.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
xmin = 0
xmax = 10
[]
[Variables]
[./phi]
[./InitialCondition]
type = FunctionIC
function = if(x<1,1-x,0)
[../]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = phi
[../]
[./dt]
type = TimeDerivative
variable = phi
[../]
[]
[BCs]
[./influx]
type = NeumannBC
boundary = left
variable = phi
value = 1
[../]
[./fix]
type = DirichletBC
boundary = right
variable = phi
value = 0
[../]
[]
[Postprocessors]
[./pos]
type = FindValueOnLine
target = 0.5
v = phi
start_point = '0 0 0'
end_point = '10 0 0'
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
num_steps = 5
dt = 2.5
[]
[Outputs]
csv = true
[]
(test/tests/functions/image_function/image_3d.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 20
ny = 20
nz = 20
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/navier_stokes/test/tests/finite_volume/cns/mms/1d-with-bcs/basic-primitive-pcnsfv-kt.i)
[GlobalParams]
fp = fp
limiter = 'central_difference'
two_term_boundary_expansion = true
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 1
xmin = .1
xmax = .6
nx = 2
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
[]
[]
[]
[Problem]
fv_bcs_integrity_check = false
[]
[Variables]
[pressure]
type = MooseVariableFVReal
[]
[sup_vel_x]
type = MooseVariableFVReal
[]
[T_fluid]
type = MooseVariableFVReal
[]
[]
[ICs]
[pressure]
type = FunctionIC
variable = pressure
function = 'exact_p'
[]
[sup_vel_x]
type = FunctionIC
variable = sup_vel_x
function = 'exact_sup_vel_x'
[]
[T_fluid]
type = FunctionIC
variable = T_fluid
function = 'exact_T'
[]
[]
[FVKernels]
[mass_advection]
type = PCNSFVKT
variable = pressure
eqn = "mass"
[]
[mass_fn]
type = FVBodyForce
variable = pressure
function = 'forcing_rho'
[]
[momentum_x_advection]
type = PCNSFVKT
variable = sup_vel_x
momentum_component = x
eqn = "momentum"
[]
[momentum_fn]
type = FVBodyForce
variable = sup_vel_x
function = 'forcing_rho_ud'
[]
[fluid_energy_advection]
type = PCNSFVKT
variable = T_fluid
eqn = "energy"
[]
[energy_fn]
type = FVBodyForce
variable = T_fluid
function = 'forcing_rho_et'
[]
[]
[FVBCs]
[mass_left]
variable = pressure
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'mass'
[]
[momentum_left]
variable = sup_vel_x
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'momentum'
momentum_component = 'x'
[]
[energy_left]
variable = T_fluid
type = PCNSFVStrongBC
boundary = left
T_fluid = 'exact_T'
superficial_velocity = 'exact_superficial_velocity'
eqn = 'energy'
[]
[mass_right]
variable = pressure
type = PCNSFVStrongBC
boundary = right
eqn = 'mass'
pressure = 'exact_p'
[]
[momentum_right]
variable = sup_vel_x
type = PCNSFVStrongBC
boundary = right
eqn = 'momentum'
momentum_component = 'x'
pressure = 'exact_p'
[]
[energy_right]
variable = T_fluid
type = PCNSFVStrongBC
boundary = right
eqn = 'energy'
pressure = 'exact_p'
[]
# help gradient reconstruction
[pressure_right]
type = FVFunctionDirichletBC
variable = pressure
function = exact_p
boundary = 'right'
[]
[sup_vel_x_left]
type = FVFunctionDirichletBC
variable = sup_vel_x
function = exact_sup_vel_x
boundary = 'left'
[]
[T_fluid_left]
type = FVFunctionDirichletBC
variable = T_fluid
function = exact_T
boundary = 'left'
[]
[]
[Materials]
[var_mat]
type = PorousPrimitiveVarMaterial
pressure = pressure
superficial_vel_x = sup_vel_x
T_fluid = T_fluid
porosity = porosity
[]
[porosity]
type = GenericFunctionMaterial
prop_names = 'porosity'
prop_values = 'eps'
[]
[]
[Functions]
[exact_rho]
type = ParsedFunction
value = '3.48788261470924*cos(x)'
[]
[forcing_rho]
type = ParsedFunction
value = '-3.45300378856215*sin(1.1*x)'
[]
[exact_rho_ud]
type = ParsedFunction
value = '3.13909435323832*cos(1.1*x)'
[]
[forcing_rho_ud]
type = ParsedFunction
value = '-0.9*(10.6975765229419*cos(1.2*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + 0.9*(10.6975765229419*sin(x)*cos(1.2*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 12.8370918275302*sin(1.2*x)/cos(x))*cos(x) + 3.13909435323832*sin(x)*cos(1.1*x)^2/cos(x)^2 - 6.9060075771243*sin(1.1*x)*cos(1.1*x)/cos(x)'
[]
[exact_rho_et]
type = ParsedFunction
value = '26.7439413073546*cos(1.2*x)'
[]
[forcing_rho_et]
type = ParsedFunction
value = '0.9*(3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.2*x))*sin(x)*cos(1.1*x)/cos(x)^2 - 0.99*(3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x) + 26.7439413073546*cos(1.2*x))*sin(1.1*x)/cos(x) + 0.9*(-(10.6975765229419*cos(1.2*x)/cos(x) - 0.697576522941849*cos(1.1*x)^2/cos(x)^2)*sin(x) + (10.6975765229419*sin(x)*cos(1.2*x)/cos(x)^2 - 1.3951530458837*sin(x)*cos(1.1*x)^2/cos(x)^3 + 1.53466835047207*sin(1.1*x)*cos(1.1*x)/cos(x)^2 - 12.8370918275302*sin(1.2*x)/cos(x))*cos(x) - 32.0927295688256*sin(1.2*x))*cos(1.1*x)/cos(x)'
[]
[exact_T]
type = ParsedFunction
value = '0.0106975765229418*cos(1.2*x)/cos(x) - 0.000697576522941848*cos(1.1*x)^2/cos(x)^2'
[]
[exact_eps_p]
type = ParsedFunction
value = '3.13909435323832*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
[]
[exact_p]
type = ParsedFunction
value = '3.48788261470924*(3.06706896551724*cos(1.2*x)/cos(x) - 0.2*cos(1.1*x)^2/cos(x)^2)*cos(x)'
[]
[exact_sup_vel_x]
type = ParsedFunction
value = '0.9*cos(1.1*x)/cos(x)'
[]
[exact_superficial_velocity]
type = ParsedVectorFunction
value_x = '0.9*cos(1.1*x)/cos(x)'
[]
[eps]
type = ParsedFunction
value = '0.9'
[]
[]
[Executioner]
solve_type = NEWTON
type = Transient
num_steps = 1
dtmin = 1
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
nl_max_its = 50
line_search = bt
nl_rel_tol = 1e-12
nl_abs_tol = 1e-12
[]
[Outputs]
exodus = true
csv = true
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
[h]
type = AverageElementSize
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2pressure]
type = ElementL2Error
variable = pressure
function = exact_p
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2sup_vel_x]
variable = sup_vel_x
function = exact_sup_vel_x
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[L2T_fluid]
variable = T_fluid
function = exact_T
type = ElementL2Error
outputs = 'console csv'
execute_on = 'timestep_end'
[]
[]
(modules/richards/test/tests/buckley_leverett/bl20_lumped_fu.i)
# two-phase version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 30
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '0.1 0.5 0.5 1 2 4'
x = '0 0.1 1 5 40 42'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-5
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./w_aux_seff]
[../]
[]
[Kernels]
[./richardstwater]
type = RichardsLumpedMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFullyUpwindFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsLumpedMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFullyUpwindFlux
variable = pgas
[../]
[]
[AuxKernels]
[./w_aux_seff_auxk]
type = RichardsSeffAux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
variable = w_aux_seff
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_water
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_gas
[../]
[]
[BCs]
[./left_w]
type = DirichletBC
variable = pwater
boundary = left
value = 1E6
[../]
[./left_g]
type = DirichletBC
variable = pgas
boundary = left
value = 1000
[../]
[./right_w]
type = DirichletBC
variable = pwater
boundary = right
value = -300000
[../]
[./right_g]
type = DirichletBC
variable = pgas
boundary = right
value = 0
[../]
[]
[Functions]
[./initial_water]
type = ParsedFunction
value = 1000000*(1-min(x/5,1))-if(x<5,0,300000)
[../]
[./initial_gas]
type = ParsedFunction
value = 1000
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
viscosity = '1E-3 1E-6'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
active = 'standard'
[./bounded]
# must use --use-petsc-dm command line argument
type = SMP
full = true
petsc_options_iname = '-snes_type -pc_factor_shift_type'
petsc_options_value = 'vinewtonssls nonzero'
[../]
[./standard]
type = SMP
full = true
petsc_options_iname = '-pc_factor_shift_type'
petsc_options_value = 'nonzero'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 50
nl_rel_tol = 1.e-9
nl_max_its = 10
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bl20_lumped_fu
execute_on = 'initial timestep_end final'
interval = 100000
exodus = true
hide = pgas
[./console_out]
type = Console
interval = 1
[../]
[]
(modules/porous_flow/test/tests/poroperm/poro_tm.i)
# Test that porosity is correctly calculated.
# Porosity = 1 + (phi0 - 1) * exp(-vol_strain + thermal_exp_coeff * (temperature - ref_temperature))
# The parameters used are:
# phi0 = 0.5
# vol_strain = 0.5
# thermal_exp_coeff = 0.5
# temperature = 4
# ref_temperature = 3.5
# which yield porosity = 0.610599608464
[Mesh]
type = GeneratedMesh
dim = 3
[]
[GlobalParams]
PorousFlowDictator = dictator
displacements = 'disp_x disp_y disp_z'
[]
[Variables]
[porepressure]
initial_condition = 2
[]
[temperature]
initial_condition = 4
[]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[]
[ICs]
[disp_x]
type = FunctionIC
function = '0.5 * x'
variable = disp_x
[]
[]
[Kernels]
[dummy_p]
type = TimeDerivative
variable = porepressure
[]
[dummy_t]
type = TimeDerivative
variable = temperature
[]
[dummy_x]
type = TimeDerivative
variable = disp_x
[]
[dummy_y]
type = TimeDerivative
variable = disp_y
[]
[dummy_z]
type = TimeDerivative
variable = disp_z
[]
[]
[AuxVariables]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[porosity]
type = PorousFlowPropertyAux
property = porosity
variable = porosity
[]
[]
[Postprocessors]
[porosity]
type = PointValue
variable = porosity
point = '0 0 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure temperature'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temperature
[]
[eff_fluid_pressure]
type = PorousFlowEffectiveFluidPressure
[]
[total_strain]
type = ComputeSmallStrain
[]
[vol_strain]
type = PorousFlowVolumetricStrain
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[porosity]
type = PorousFlowPorosity
mechanical = true
thermal = true
ensure_positive = false
porosity_zero = 0.5
thermal_expansion_coeff = 0.5
reference_temperature = 3.5
[]
[]
[Executioner]
solve_type = Newton
type = Transient
num_steps = 1
[]
[Outputs]
csv = true
[]
(modules/richards/test/tests/dirac/bh_fu_04.i)
# unsaturated
# production
# fullyupwind
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1E-2 1E-1 1 1E1 1E2 1E3'
x = '0 1E-1 1 1E1 1E2 1E3'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = -1E6
point_file = bh02.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = 1
fully_upwind = true
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 0
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 1E3
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh_fu_04
exodus = false
execute_on = timestep_end
csv = true
[]
(modules/porous_flow/test/tests/jacobian/linear_por.i)
# Testing Jacobian resulting from PorousFlowPorosityLinear in a THM situation
[GlobalParams]
PorousFlowDictator = dictator
strain_at_nearest_qp = true
[]
[Mesh]
[gmg]
type = GeneratedMeshGenerator
dim = 3
[]
[]
[Variables]
[pp]
initial_condition = 1
[]
[T]
initial_condition = 2
[]
[disp]
[]
[]
[ICs]
[disp]
type = FunctionIC
variable = disp
function = '3 * x'
[]
[]
[BCs]
[disp]
type = FunctionDirichletBC
boundary = 'left right top bottom front back'
variable = disp
function = '3 * x'
[]
[]
[PorousFlowFullySaturated]
coupling_type = ThermoHydroMechanical
fp = simple_fluid
porepressure = pp
temperature = T
displacements = 'disp disp disp'
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosityLinear
porosity_ref = 0.5
P_ref = 0.5
P_coeff = 1.0
T_ref = -3.0
T_coeff = 1.0
epv_ref = 2.5
epv_coeff = 1.0
[]
[perm]
type = PorousFlowPermeabilityConst
permeability = '0 0 0 0 0 0 0 0 0'
[]
[matrix_energy]
type = PorousFlowMatrixInternalEnergy
density = 0.0
specific_heat_capacity = 0.0
[]
[thermal_conductivity]
type = PorousFlowThermalConductivityIdeal
dry_thermal_conductivity = '0 0 0 0 0 0 0 0 0'
[]
[density]
type = GenericConstantMaterial
prop_names = density
prop_values = 0.0
[]
[elasticity]
type = ComputeIsotropicElasticityTensor
youngs_modulus = 1E-99
poissons_ratio = 0
[]
[strain]
type = ComputeSmallStrain
displacements = 'disp disp disp'
[]
[stress]
type = ComputeLinearElasticStress
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
num_steps = 1
# petsc_options = '-snes_test_jacobian -snes_force_iteration'
# petsc_options_iname = '-snes_type --ksp_type -pc_type -snes_convergence_test'
# petsc_options_value = ' ksponly preonly none skip'
[]
(modules/porous_flow/examples/tidal/atm_tides_open_hole.i)
# A 100m x 10m "slab" of height 100m is subjected to cyclic pressure at its top
# Assumptions:
# the boundaries are impermeable, except the top boundary
# only vertical displacement is allowed
# the atmospheric pressure sets the total stress at the top of the model
# at the slab left-hand side there is a borehole that taps into the base of the slab.
[Mesh]
[the_mesh]
type = GeneratedMeshGenerator
dim = 3
nx = 10
ny = 1
nz = 10
xmin = 0
xmax = 100
ymin = -5
ymax = 5
zmin = -100
zmax = 0
[]
[bh_back]
type = ExtraNodesetGenerator
coord = '0 -5 -100'
input = the_mesh
new_boundary = 11
[]
[]
[GlobalParams]
displacements = 'disp_x disp_y disp_z'
PorousFlowDictator = dictator
block = 0
biot_coefficient = 0.6
multiply_by_density = false
[]
[Variables]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[porepressure]
scaling = 1E11
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '-10000*z' # this is only approximately correct
[]
[]
[Functions]
[ini_stress_zz]
type = ParsedFunction
value = '(25000 - 0.6*10000)*z' # remember this is effective stress
[]
[cyclic_porepressure]
type = ParsedFunction
value = 'if(t>0,5000 * sin(2 * pi * t / 3600.0 / 24.0),0)'
[]
[cyclic_porepressure_at_depth]
type = ParsedFunction
value = '-10000*z + if(t>0,5000 * sin(2 * pi * t / 3600.0 / 24.0),0)'
[]
[neg_cyclic_porepressure]
type = ParsedFunction
value = '-if(t>0,5000 * sin(2 * pi * t / 3600.0 / 24.0),0)'
[]
[]
[BCs]
# zmin is called 'back'
# zmax is called 'front'
# ymin is called 'bottom'
# ymax is called 'top'
# xmin is called 'left'
# xmax is called 'right'
[no_x_disp]
type = DirichletBC
variable = disp_x
value = 0
boundary = 'bottom top' # because of 1-element meshing, this fixes u_x=0 everywhere
[]
[no_y_disp]
type = DirichletBC
variable = disp_y
value = 0
boundary = 'bottom top' # because of 1-element meshing, this fixes u_y=0 everywhere
[]
[no_z_disp_at_bottom]
type = DirichletBC
variable = disp_z
value = 0
boundary = back
[]
[pp]
type = FunctionDirichletBC
variable = porepressure
function = cyclic_porepressure
boundary = front
[]
[pp_downhole]
type = FunctionDirichletBC
variable = porepressure
function = cyclic_porepressure_at_depth
boundary = 11
[]
[total_stress_at_top]
type = FunctionNeumannBC
variable = disp_z
function = neg_cyclic_porepressure
boundary = front
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
thermal_expansion = 0.0
bulk_modulus = 2E9
viscosity = 1E-3
density0 = 1000.0
[]
[]
[]
[PorousFlowBasicTHM]
coupling_type = HydroMechanical
displacements = 'disp_x disp_y disp_z'
porepressure = porepressure
gravity = '0 0 -10'
fp = the_simple_fluid
[]
[Materials]
[elasticity_tensor]
type = ComputeIsotropicElasticityTensor
bulk_modulus = 10.0E9 # drained bulk modulus
poissons_ratio = 0.25
[]
[strain]
type = ComputeSmallStrain
eigenstrain_names = ini_stress
[]
[stress]
type = ComputeLinearElasticStress
[]
[ini_stress]
type = ComputeEigenstrainFromInitialStress
initial_stress = '0 0 0 0 0 0 0 0 ini_stress_zz'
eigenstrain_name = ini_stress
[]
[porosity]
type = PorousFlowPorosityConst # only the initial value of this is ever used
porosity = 0.1
[]
[biot_modulus]
type = PorousFlowConstantBiotModulus
solid_bulk_compliance = 1E-10
fluid_bulk_modulus = 2E9
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-14 0 0 0 1E-14 0 0 0 1E-14'
[]
[density]
type = GenericConstantMaterial
prop_names = density
prop_values = 2500.0
[]
[]
[Postprocessors]
[p0_0]
type = PointValue
outputs = csv
point = '0 0 0'
variable = porepressure
[]
[p100_0]
type = PointValue
outputs = csv
point = '100 0 0'
variable = porepressure
[]
[p0_100]
type = PointValue
outputs = csv
point = '0 0 -100'
variable = porepressure
[]
[p100_100]
type = PointValue
outputs = csv
point = '100 0 -100'
variable = porepressure
[]
[uz0]
type = PointValue
outputs = csv
point = '0 0 0'
variable = disp_z
[]
[uz100]
type = PointValue
outputs = csv
point = '100 0 0'
variable = disp_z
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = Newton
start_time = -3600
dt = 3600
end_time = 172800
nl_rel_tol = 1E-10
nl_abs_tol = 1E-5
[]
[Outputs]
print_linear_residuals = false
csv = true
[]
(modules/porous_flow/test/tests/relperm/brooks_corey2.i)
# Test Brooks-Corey relative permeability curve by varying saturation over the mesh
# Exponent lambda = 2 for both phases
# Residual saturation of phase 0: s0r = 0.2
# Residual saturation of phase 1: s1r = 0.3
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityBC
phase = 0
lambda = 2
s_res = 0.2
sum_s_res = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityBC
phase = 1
lambda = 2
nw_phase = true
s_res = 0.3
sum_s_res = 0.5
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-8
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(modules/porous_flow/test/tests/aux_kernels/darcy_velocity_lower_2D.i)
# checking that the PorousFlowDarcyVelocityComponentLowerDimensional AuxKernel works as expected in 1D+2D situation
# for the fully-saturated case (relative-permeability = 1)
# The 1_frac_in_2D_example.e has size 0.3x0.2x0, and a fracture running through its
# centre, with normal = (0, 1, 0)
# Porepressure is initialised to grad(P) = (1, 2, 0)
# Fluid_density = 2
# viscosity = 10
# relative_permeability = 1
# permeability = (5, 5, 5) (in the bulk, measured in m^2)
# permeability = (10, 10, 10) (in the fracture, measured in m^3)
# aperture = 0.01
# gravity = (1, 0.5, 0)
# So Darcy velocity in the bulk = (0.5, -0.5, 0)
# in the fracture grad(P) = (1, 0, 0)
# In the fracture the projected gravity vector is
# tangential_gravity = (1, 0, 0)
# So the Darcy velocity in the fracture = (100, 0, 0)
[Mesh]
type = FileMesh
file = 1_frac_in_2D_example.e
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '1 0.5 0'
[]
[Variables]
[pp]
[]
[]
[ICs]
[pinit]
type = FunctionIC
function = 'x+2*y'
variable = pp
[]
[]
[Kernels]
[dummy]
type = TimeDerivative
variable = pp
[]
[]
[AuxVariables]
[bulk_vel_x]
order = CONSTANT
family = MONOMIAL
block = '2 3'
[]
[bulk_vel_y]
order = CONSTANT
family = MONOMIAL
block = '2 3'
[]
[bulk_vel_z]
order = CONSTANT
family = MONOMIAL
block = '2 3'
[]
[fracture_vel_x]
order = CONSTANT
family = MONOMIAL
block = 1
[]
[fracture_vel_y]
order = CONSTANT
family = MONOMIAL
block = 1
[]
[fracture_vel_z]
order = CONSTANT
family = MONOMIAL
block = 1
[]
[]
[AuxKernels]
[bulk_vel_x]
type = PorousFlowDarcyVelocityComponent
variable = bulk_vel_x
component = x
fluid_phase = 0
[]
[bulk_vel_y]
type = PorousFlowDarcyVelocityComponent
variable = bulk_vel_y
component = y
fluid_phase = 0
[]
[bulk_vel_z]
type = PorousFlowDarcyVelocityComponent
variable = bulk_vel_z
component = z
fluid_phase = 0
[]
[fracture_vel_x]
type = PorousFlowDarcyVelocityComponentLowerDimensional
variable = fracture_vel_x
component = x
fluid_phase = 0
aperture = 0.01
[]
[fracture_vel_y]
type = PorousFlowDarcyVelocityComponentLowerDimensional
variable = fracture_vel_y
component = y
fluid_phase = 0
aperture = 0.01
[]
[fracture_vel_z]
type = PorousFlowDarcyVelocityComponentLowerDimensional
variable = fracture_vel_z
component = z
fluid_phase = 0
aperture = 0.01
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1E16
viscosity = 10
density0 = 2
thermal_expansion = 0
[]
[]
[]
[Postprocessors]
[bulk_vel_x]
type = PointValue
variable = bulk_vel_x
point = '0 -0.05 0'
[]
[bulk_vel_y]
type = PointValue
variable = bulk_vel_y
point = '0 -0.05 0'
[]
[bulk_vel_z]
type = PointValue
variable = bulk_vel_z
point = '0 -0.05 0'
[]
[fracture_vel_x]
type = PointValue
point = '0 0 0'
variable = fracture_vel_x
[]
[fracture_vel_y]
type = PointValue
point = '0 0 0'
variable = fracture_vel_y
[]
[fracture_vel_z]
type = PointValue
point = '0 0 0'
variable = fracture_vel_z
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '5 0 0 0 5 0 0 0 5'
block = '2 3'
[]
[permeability_fracture]
type = PorousFlowPermeabilityConst
permeability = '10 0 0 0 10 0 0 0 10'
block = 1
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[Executioner]
type = Transient
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(modules/combined/test/tests/DiffuseCreep/stress_flux_n_gb_relax.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 50
ny = 2
xmin = 0
xmax = 10
ymin = 0
ymax = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);0.1+0.1*v'
[../]
[../]
[./mu]
[../]
[./jx]
[../]
[./jy]
[../]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[AuxVariables]
[./gb]
family = LAGRANGE
order = FIRST
[../]
[./creep_strain_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./creep_strain_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./creep_strain_xy]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./stress_xy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Kernels]
[./conc]
type = CHSplitConcentration
variable = c
mobility = mobility_prop
chemical_potential_var = mu
[../]
[./chempot]
type = CHSplitChemicalPotential
variable = mu
chemical_potential_prop = mu_prop
c = c
[../]
[./flux_x]
type = CHSplitFlux
variable = jx
component = 0
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./flux_y]
type = CHSplitFlux
variable = jy
component = 1
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[./TensorMechanics]
displacements = 'disp_x disp_y'
[../]
[]
[AuxKernels]
[./gb]
type = FunctionAux
variable = gb
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);v'
[../]
[./creep_strain_xx]
type = RankTwoAux
variable = creep_strain_xx
rank_two_tensor = creep_strain
index_i = 0
index_j = 0
[../]
[./creep_strain_yy]
type = RankTwoAux
variable = creep_strain_yy
rank_two_tensor = creep_strain
index_i = 1
index_j = 1
[../]
[./creep_strain_xy]
type = RankTwoAux
variable = creep_strain_xy
rank_two_tensor = creep_strain
index_i = 0
index_j = 1
[../]
[./stress_xx]
type = RankTwoAux
variable = stress_xx
rank_two_tensor = stress
index_i = 0
index_j = 0
[../]
[./stress_yy]
type = RankTwoAux
variable = stress_yy
rank_two_tensor = stress
index_i = 1
index_j = 1
[../]
[./stress_xy]
type = RankTwoAux
variable = stress_xy
rank_two_tensor = stress
index_i = 0
index_j = 1
[../]
[]
[Materials]
[./chemical_potential]
type = DerivativeParsedMaterial
block = 0
f_name = mu_prop
args = c
function = 'c'
derivative_order = 1
[../]
[./var_dependence]
type = DerivativeParsedMaterial
block = 0
function = 'c*(1.0-c)'
args = c
f_name = var_dep
derivative_order = 1
[../]
[./mobility]
type = CompositeMobilityTensor
block = 0
M_name = mobility_prop
tensors = diffusivity
weights = var_dep
args = c
[../]
[./phase_normal]
type = PhaseNormalTensor
phase = gb
normal_tensor_name = gb_normal
[../]
[./aniso_tensor]
type = GBDependentAnisotropicTensor
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = aniso_tensor
[../]
[./diffusivity]
type = GBDependentDiffusivity
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = diffusivity
[../]
[./diffuse_strain_increment]
type = FluxBasedStrainIncrement
xflux = jx
yflux = jy
gb = gb
property_name = diffuse
[../]
[./gb_relax_prefactor]
type = DerivativeParsedMaterial
block = 0
function = '0.01*(c-0.15)*gb'
args = 'c gb'
f_name = gb_relax_prefactor
derivative_order = 1
[../]
[./gb_relax]
type = GBRelaxationStrainIncrement
property_name = gb_relax
prefactor_name = gb_relax_prefactor
gb_normal_name = gb_normal
[../]
[./creep_strain]
type = SumTensorIncrements
tensor_name = creep_strain
coupled_tensor_increment_names = 'diffuse gb_relax'
[../]
[./strain]
type = ComputeIncrementalSmallStrain
displacements = 'disp_x disp_y'
[../]
[./stress]
type = ComputeStrainIncrementBasedStress
inelastic_strain_names = creep_strain
[../]
[./elasticity_tensor]
type = ComputeElasticityTensor
C_ijkl = '120.0 80.0'
fill_method = symmetric_isotropic
[../]
[]
[BCs]
[./Periodic]
[./cbc]
auto_direction = 'x y'
variable = c
[../]
[../]
[./fix_x]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[./fix_y]
type = DirichletBC
variable = disp_y
boundary = bottom
value = 0
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -ksp_grmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
nl_rel_tol = 1e-10
nl_max_its = 5
l_tol = 1e-4
l_max_its = 20
dt = 1
num_steps = 5
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/hysteresis/hys_pc_03.i)
# Capillary-pressure calculation. Primary drying curve with low_extension_type = exponential
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 1
nx = 100
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = ''
[]
[]
[Variables]
[sat]
[]
[]
[ICs]
[sat]
type = FunctionIC
variable = sat
function = 'x'
[]
[]
[BCs]
[sat]
type = FunctionDirichletBC
variable = sat
function = 'x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = sat
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
[]
[pc_calculator]
type = PorousFlowHystereticInfo
alpha_d = 10.0
alpha_w = 10.0
n_d = 1.5
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 12.0
low_extension_type = exponential
sat_var = sat
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[pc]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[pc]
type = PorousFlowPropertyAux
variable = pc
property = hysteretic_info
[]
[]
[VectorPostprocessors]
[pc]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 10
sort_by = x
variable = 'sat pc'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(test/tests/time_integrators/explicit-euler/ee-2d-linear.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 10
ny = 10
elem_type = QUAD4
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = (x+y)
[../]
[./exact_fn]
type = ParsedFunction
value = t*(x+y)
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./ie]
type = TimeDerivative
variable = u
lumping = true
implicit = true
[../]
[./diff]
type = Diffusion
variable = u
implicit = false
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
implicit = false
[../]
[]
[BCs]
active = 'all'
[./all]
type = FunctionDirichletBC
variable = u
preset = false
boundary = '0 1 2 3'
function = exact_fn
implicit = true
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
scheme = 'explicit-euler'
solve_type = 'LINEAR'
start_time = 0.0
num_steps = 20
dt = 0.00005
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/richards/test/tests/jacobian_2/jn17.i)
# two phase
# water saturated
# gravity = true
# supg = true
# transient = true
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1.0 # notice small quantity, so the PETSc constant state works
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 0.5
bulk_mod = 0.5 # notice small quantity, so the PETSc constant state works
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1 # notice small quantity, so the PETSc constant state works
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1 # notice small quantity, so the PETSc constant state works
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.2
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.1
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.15
[../]
[./SatGas]
type = RichardsSat
s_res = 0.05
sum_s_res = 0.15
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 0.01
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
block = 0
function = init_p
[../]
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
block = 0
function = init_p
[../]
[../]
[]
[Functions]
[./init_p]
type = ParsedFunction
value = x+0.6*y+0.3*z
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 0.5E-3'
gravity = '1 2 3'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000 test'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-5
[]
[Outputs]
execute_on = 'timestep_end'
file_base = jn17
exodus = false
[]
(modules/richards/test/tests/jacobian_2/jn_lumped_17.i)
# two phase
# water saturated
# gravity = true
# supg = true
# transient = true
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 0.5E-3'
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1.0 # notice small quantity, so the PETSc constant state works
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 0.5
bulk_mod = 0.5 # notice small quantity, so the PETSc constant state works
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1 # notice small quantity, so the PETSc constant state works
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1 # notice small quantity, so the PETSc constant state works
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.2
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.1
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.15
[../]
[./SatGas]
type = RichardsSat
s_res = 0.05
sum_s_res = 0.15
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 0.01
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
block = 0
function = init_p
[../]
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
block = 0
function = init_p
[../]
[../]
[]
[Functions]
[./init_p]
type = ParsedFunction
value = x+0.6*y+0.3*z
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsLumpedMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsLumpedMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
gravity = '1 2 3'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000 test'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-10
[]
[Outputs]
execute_on = 'timestep_end'
file_base = jn17
exodus = false
[]
(modules/phase_field/test/tests/misc/interface_flux.i)
#
# This test demonstrates an InterfaceKernel (InterfaceDiffusionFlux) that can
# replace a pair of integrated DiffusionFluxBC boundary conditions.
#
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 20
ny = 10
ymax = 0.5
[]
[./box1]
type = SubdomainBoundingBoxGenerator
block_id = 1
bottom_left = '0 0 0'
top_right = '0.51 1 0'
input = gen
[../]
[./box2]
type = SubdomainBoundingBoxGenerator
block_id = 2
bottom_left = '0.49 0 0'
top_right = '1 1 0'
input = box1
[../]
[./iface_u]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 1
paired_block = 2
new_boundary = 10
input = box2
[../]
[]
[Variables]
[./u2]
block = 1
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.4)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[./v2]
block = 2
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.7)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[]
[Kernels]
[./u2_diff]
type = Diffusion
variable = u2
block = 1
[../]
[./u2_dt]
type = TimeDerivative
variable = u2
block = 1
[../]
[./v2_diff]
type = Diffusion
variable = v2
block = 2
[../]
[./v2_dt]
type = TimeDerivative
variable = v2
block = 2
[../]
[]
[InterfaceKernels]
[./iface]
type = InterfaceDiffusionBoundaryTerm
boundary = 10
variable = u2
neighbor_var = v2
[../]
[]
[Executioner]
type = Transient
dt = 0.002
num_steps = 6
[]
[Outputs]
exodus = true
print_linear_residuals = false
[]
(modules/phase_field/test/tests/GrandPotentialPFM/SinteringDilute.i)
#input file to test the GrandPotentialSinteringMaterial using the dilute energy profile
[Mesh]
type = GeneratedMesh
dim = 2
nx = 17
ny = 10
xmin = 0
xmax = 660
ymin = 0
ymax = 380
[]
[GlobalParams]
op_num = 2
var_name_base = gr
int_width = 40
[]
[Variables]
[./w]
[./InitialCondition]
type = FunctionIC
variable = w
function = f_w
[../]
[../]
[./phi]
[../]
[./PolycrystalVariables]
[../]
[]
[AuxVariables]
[./T]
order = CONSTANT
family = MONOMIAL
[./InitialCondition]
type = FunctionIC
variable = T
function = f_T
[../]
[../]
[]
[ICs]
[./phi_IC]
type = SpecifiedSmoothCircleIC
variable = phi
x_positions = '190 470'
y_positions = '190 190'
z_positions = ' 0 0'
radii = '150 150'
invalue = 0
outvalue = 1
[../]
[./gr0_IC]
type = SmoothCircleIC
variable = gr0
x1 = 190
y1 = 190
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[./gr1_IC]
type = SmoothCircleIC
variable = gr1
x1 = 470
y1 = 190
z1 = 0
radius = 150
invalue = 1
outvalue = 0
[../]
[]
[Functions]
[./f_T]
type = ConstantFunction
value = 1600
[../]
[./f_w]
type = ParsedFunction
value = '1.515e-7 * x'
[../]
[]
[Materials]
# Free energy coefficients for parabolic curve
[./kv]
type = ParsedMaterial
f_name = kv
args = 'T'
constant_names = 'a b'
constant_expressions = '-0.025 1571.6'
function = 'a*T + b'
[../]
# Diffusivity and mobilities
[./chiD]
type = GrandPotentialTensorMaterial
f_name = chiD
solid_mobility = L
void_mobility = Lv
chi = chi
surface_energy = 19.7
c = phi
T = T
D0 = 2.0e11
GBmob0 = 1.4759e9
Q = 2.77
Em = 2.40
bulkindex = 1
gbindex = 20
surfindex = 100
[../]
# Equilibrium vacancy concentration
[./cs_eq]
type = DerivativeParsedMaterial
f_name = cs_eq
args = 'gr0 gr1 T'
constant_names = 'Ef Egb kB'
constant_expressions = '2.69 2.1 8.617343e-5'
function = 'bnds:=gr0^2 + gr1^2; cb:=exp(-Ef/kB/T); cgb:=exp(-(Ef-Egb)/kB/T);
cb + 4.0*(cgb-cb)*(1.0 - bnds)^2'
[../]
# Everything else
[./sintering]
type = GrandPotentialSinteringMaterial
chemical_potential = w
void_op = phi
Temperature = T
surface_energy = 19.7
grainboundary_energy = 9.86
void_energy_coefficient = kv
equilibrium_vacancy_concentration = cs_eq
solid_energy_model = DILUTE
outputs = exodus
[../]
# Concentration is only meant for output
[./c]
type = ParsedMaterial
f_name = c
material_property_names = 'hs rhos hv rhov'
constant_names = 'Va'
constant_expressions = '0.04092'
function = 'Va*(hs*rhos + hv*rhov)'
outputs = exodus
[../]
[]
[Kernels]
[./dt_gr0]
type = TimeDerivative
variable = gr0
[../]
[./dt_gr1]
type = TimeDerivative
variable = gr1
[../]
[./dt_phi]
type = TimeDerivative
variable = phi
[../]
[./dt_w]
type = TimeDerivative
variable = w
[../]
[]
[AuxKernels]
[./T_aux]
type = FunctionAux
variable = T
function = f_T
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = JFNK
dt = 1
num_steps = 2
nl_abs_tol = 1e-10
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_1D_adaptivity.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek, with antidiffusion from superbee flux limiting
# 1D version with mesh adaptivity
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[Adaptivity]
initial_steps = 1
initial_marker = tracer_marker
marker = tracer_marker
max_h_level = 1
[Markers]
[tracer_marker]
type = ValueRangeMarker
variable = tracer
lower_bound = 0.02
upper_bound = 0.98
[]
[]
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '0.1 0 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
nl_max_its = 500
timestep_tolerance = 1E-3
[]
[Outputs]
print_linear_residuals = false
[out]
type = CSV
execute_on = final
[]
[]
(modules/porous_flow/test/tests/basic_advection/except2.i)
# PorousFlowDarcyVelocityMaterial attempts to have at_nodes = true
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[P]
[]
[]
[ICs]
[P]
type = FunctionIC
variable = P
function = '2*(1-x)'
[]
[u]
type = FunctionIC
variable = u
function = 'if(x<0.1,1,0)'
[]
[]
[Kernels]
[u_dot]
type = TimeDerivative
variable = u
[]
[u_advection]
type = PorousFlowBasicAdvection
variable = u
phase = 1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = ''
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e9
density0 = 4
thermal_expansion = 0
viscosity = 150.0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = P
capillary_pressure = pc
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '5 0 0 0 5 0 0 0 5'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 0
phase = 0
[]
[darcy_velocity]
type = PorousFlowDarcyVelocityMaterial
gravity = '0.25 0 0'
at_nodes = true
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 1
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = 0
variable = u
[]
[]
[Preconditioning]
[basic]
type = SMP
full = true
petsc_options_iname = '-pc_type -snes_rtol'
petsc_options_value = ' lu 1E-10'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 5
[]
[Outputs]
exodus = true
print_linear_residuals = false
[]
(test/tests/functions/parsed/mms_transient_coupled.i)
###########################################################
# This is a simple test of the Function System. This
# test uses forcing terms produced from analytical
# functions of space and time to verify a solution
# using MMS.
#
# @Requirement F6.20
###########################################################
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0.0
xmax = 1.0
nx = 10
ymin = 0.0
ymax = 1.0
ny = 10
uniform_refine = 2
elem_type = QUAD4
[]
[Variables]
[./u]
[../]
[./v]
[../]
[]
[Functions]
[./v_left_bc]
# Left-side boundary condition for v equation, v(0,y,t) = u(0.5,y,t). This is accomplished using a PointValue postprocessor, which is what this input file was designed to test.
type = ParsedFunction
value = a
vals = u_midpoint
vars = a
[../]
[./u_mms_func]
# MMS Forcing function for the u equation.
type = ParsedFunction
value = ' 20*exp(20*t)*x*x*x-6*exp(20*t)*x-(2-0.125*exp(20*t))*sin(5/2*x*pi)-0.125*exp(20*t)-1
'
[../]
[./v_mms_func]
# MMS forcing function for the v equation.
type = ParsedFunction
value = -2.5*exp(20*t)*sin(5/2*x*pi)+2.5*exp(20*t)+25/4*(2-0.125*exp(20*t))*sin(5/2*x*pi)*pi*pi
[../]
[./u_right_bc]
type = ParsedFunction
value = 3*exp(20*t) # \nabla{u}|_{x=1} = 3\exp(20*t)
[../]
[./u_exact]
# Exact solution for the MMS function for the u variable.
type = ParsedFunction
value = exp(20*t)*pow(x,3)+1
[../]
[./v_exact]
# Exact MMS solution for v.
type = ParsedFunction
value = (2-0.125*exp(20*t))*sin(5/2*pi*x)+0.125*exp(20*t)+1
[../]
[]
[Kernels]
# Strong Form:
# \frac{\partial u}{\partial t} - \nabla \cdot 0.5 \nabla u - v = 0
# \frac{\partial u}{\partial t} - \nabla \cdot \nabla v = 0
#
# BCs:
# u(0,y,t) = 1
# \nabla u |_{x=1} = 3\exp(20*t)
# v(0,y,t) = u(0.5,y,t)
# v(1,y,t) = 3
# \nabla u |_{y=0,1} = 0
# \nabla v |_{y=0,1} = 0
#
[./u_time]
type = TimeDerivative
variable = u
[../]
[./u_diff]
type = Diffusion
variable = u
[../]
[./u_source]
type = CoupledForce
variable = u
v = v
[../]
[./v_diff]
type = Diffusion
variable = v
[../]
[./u_mms]
type = BodyForce
variable = u
function = u_mms_func
[../]
[./v_mms]
type = BodyForce
variable = v
function = v_mms_func
[../]
[./v_time]
type = TimeDerivative
variable = v
[../]
[]
[BCs]
[./u_left]
type = DirichletBC
variable = u
boundary = left # x=0
value = 1 # u(0,y,t)=1
[../]
[./u_right]
type = FunctionNeumannBC
variable = u
boundary = right # x=1
function = u_right_bc # \nabla{u}|_{x=1}=3\exp(20t)
[../]
[./v_left]
type = FunctionDirichletBC
variable = v
boundary = left # x=0
function = v_left_bc # v(0,y,t) = u(0.5,y,t)
[../]
[./v_right]
type = DirichletBC
variable = v
boundary = right # x=1
value = 3 # v(1,y,t) = 3
[../]
[]
[Postprocessors]
[./u_midpoint]
type = PointValue
variable = u
point = '0.5 0.5 0'
execute_on = 'initial timestep_end'
[../]
[./u_midpoint_exact]
type = FunctionValuePostprocessor
function = u_exact
point = '0.5 0.5 0.0'
execute_on = 'initial timestep_end'
[../]
[./u_error]
type = ElementL2Error
variable = u
function = u_exact
execute_on = 'initial timestep_end'
[../]
[./v_error]
type = ElementL2Error
variable = v
function = v_exact
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
dt = 0.01
solve_type = NEWTON
end_time = 0.1
scheme = crank-nicolson
[]
[Outputs]
exodus = true
[]
[ICs]
[./u_initial]
# Use the MMS exact solution to compute the initial conditions.
function = u_exact
variable = u
type = FunctionIC
[../]
[./v_exact]
# Use the MMS exact solution to compute the initial condition.
function = v_exact
variable = v
type = FunctionIC
[../]
[]
(test/tests/misc/check_error/function_file_test9.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/porous_flow/examples/ates/ates.i)
# Simulation designed to assess the recovery efficiency of a single-well ATES system
# Using KT stabilisation
# Boundary conditions: fixed porepressure and temperature at top, bottom and far end of model.
#####################################
flux_limiter = minmod # minmod, vanleer, mc, superbee, none
# depth of top of aquifer (m)
depth = 400
inject_fluid_mass = 1E8 # kg
produce_fluid_mass = ${inject_fluid_mass} # kg
inject_temp = 90 # degC
inject_time = 91 # days
store_time = 91 # days
produce_time = 91 # days
rest_time = 91 # days
num_cycles = 5 # Currently needs to be <= 10
cycle_length = ${fparse inject_time + store_time + produce_time + rest_time}
end_simulation = ${fparse cycle_length * num_cycles}
# Note: I have setup 10 cycles but you can set num_cycles less than 10.
start_injection1 = 0
start_injection2 = ${cycle_length}
start_injection3 = ${fparse cycle_length * 2}
start_injection4 = ${fparse cycle_length * 3}
start_injection5 = ${fparse cycle_length * 4}
start_injection6 = ${fparse cycle_length * 5}
start_injection7 = ${fparse cycle_length * 6}
start_injection8 = ${fparse cycle_length * 7}
start_injection9 = ${fparse cycle_length * 8}
start_injection10 = ${fparse cycle_length * 9}
end_injection1 = ${fparse start_injection1 + inject_time}
end_injection2 = ${fparse start_injection2 + inject_time}
end_injection3 = ${fparse start_injection3 + inject_time}
end_injection4 = ${fparse start_injection4 + inject_time}
end_injection5 = ${fparse start_injection5 + inject_time}
end_injection6 = ${fparse start_injection6 + inject_time}
end_injection7 = ${fparse start_injection7 + inject_time}
end_injection8 = ${fparse start_injection8 + inject_time}
end_injection9 = ${fparse start_injection9 + inject_time}
end_injection10 = ${fparse start_injection10 + inject_time}
start_production1 = ${fparse end_injection1 + store_time}
start_production2 = ${fparse end_injection2 + store_time}
start_production3 = ${fparse end_injection3 + store_time}
start_production4 = ${fparse end_injection4 + store_time}
start_production5 = ${fparse end_injection5 + store_time}
start_production6 = ${fparse end_injection6 + store_time}
start_production7 = ${fparse end_injection7 + store_time}
start_production8 = ${fparse end_injection8 + store_time}
start_production9 = ${fparse end_injection9 + store_time}
start_production10 = ${fparse end_injection10 + store_time}
end_production1 = ${fparse start_production1 + produce_time}
end_production2 = ${fparse start_production2 + produce_time}
end_production3 = ${fparse start_production3 + produce_time}
end_production4 = ${fparse start_production4 + produce_time}
end_production5 = ${fparse start_production5 + produce_time}
end_production6 = ${fparse start_production6 + produce_time}
end_production7 = ${fparse start_production7 + produce_time}
end_production8 = ${fparse start_production8 + produce_time}
end_production9 = ${fparse start_production9 + produce_time}
end_production10 = ${fparse start_production10 + produce_time}
synctimes = '${start_injection1} ${end_injection1} ${start_production1} ${end_production1}
${start_injection2} ${end_injection2} ${start_production2} ${end_production2}
${start_injection3} ${end_injection3} ${start_production3} ${end_production3}
${start_injection4} ${end_injection4} ${start_production4} ${end_production4}
${start_injection5} ${end_injection5} ${start_production5} ${end_production5}
${start_injection6} ${end_injection6} ${start_production6} ${end_production6}
${start_injection7} ${end_injection7} ${start_production7} ${end_production7}
${start_injection8} ${end_injection8} ${start_production8} ${end_production8}
${start_injection9} ${end_injection9} ${start_production9} ${end_production9}
${start_injection10} ${end_injection10} ${start_production10} ${end_production10}'
#####################################
# Geometry in RZ coordinates
# borehole radius (m)
bh_r = 0.1
# model radius (m)
max_r = 1000
# aquifer thickness (m)
aq_thickness = 20
# cap thickness (m)
cap_thickness = 40
# injection region top and bottom (m). Note, the mesh is created with the aquifer in y = (-0.5 * aq_thickness, 0.5 * aq_thickness), irrespective of depth (depth only sets the insitu porepressure and temperature)
screen_top = ${fparse 0.5 * aq_thickness}
screen_bottom = ${fparse -0.5 * aq_thickness}
# number of elements in radial direction
num_r = 25
# number of elements across half height of aquifer
num_y_aq = 10
# number of elements across height of cap
num_y_cap = 8
# mesh bias in radial direction
bias_r = 1.22
# mesh bias in vertical direction in aquifer top
bias_y_aq_top = 0.9
# mesh bias in vertical direction in cap top
bias_y_cap_top = 1.3
# mesh bias in vertical direction in aquifer bottom
bias_y_aq_bottom = ${fparse 1.0 / bias_y_aq_top}
# mesh bias in vertical direction in cap bottom
bias_y_cap_bottom = ${fparse 1.0 / bias_y_cap_top}
depth_centre = ${fparse depth + aq_thickness/2}
#####################################
# temperature at ground surface (degC)
temp0 = 20
# Vertical geothermal gradient (K/m). A positive number means temperature increases downwards.
geothermal_gradient = 20E-3
#####################################
# Gravity
gravity = -9.81
#####################################
half_aq_thickness = ${fparse aq_thickness * 0.5}
half_height = ${fparse half_aq_thickness + cap_thickness}
approx_screen_length = ${fparse screen_top - screen_bottom}
# Thermal radius (note this is not strictly correct, it should use the bulk specific heat
# capacity as defined below, but it doesn't matter here because this is purely for
# defining the region of refined mesh)
th_r = ${fparse sqrt(inject_fluid_mass / 1000 * 4.12e6 / (approx_screen_length * 3.1416 * aq_specific_heat_cap * aq_density))}
# radius of fine mesh
fine_r = ${fparse th_r * 2}
bias_r_fine = 1
num_r_fine = ${fparse int(fine_r/1)}
######################################
# aquifer properties
aq_porosity = 0.25
aq_hor_perm = 1E-11 # m^2
aq_ver_perm = 2E-12 # m^2
aq_density = 2650 # kg/m^3
aq_specific_heat_cap = 800 # J/Kg/K
aq_hor_thermal_cond = 3 # W/m/K
aq_ver_thermal_cond = 3 # W/m/K
aq_disp_parallel = 0 # m
aq_disp_perp = 0 # m
# Bulk volumetric heat capacity of aquifer:
aq_vol_cp = ${fparse aq_specific_heat_cap * aq_density * (1 - aq_porosity) + 4180 * 1000 * aq_porosity}
# Thermal radius (correct version using bulk cp):
R_th = ${fparse sqrt(inject_fluid_mass * 4180 / (approx_screen_length * 3.1416 * aq_vol_cp))}
aq_lambda_eff_hor = ${fparse aq_hor_thermal_cond + 0.3 * aq_disp_parallel * R_th * aq_vol_cp / (inject_time * 60 * 60 * 24)}
aq_lambda_eff_ver = ${fparse aq_ver_thermal_cond + 0.3 * aq_disp_perp * R_th * aq_vol_cp / (inject_time * 60 * 60 * 24)}
aq_hor_dry_thermal_cond = ${fparse aq_lambda_eff_hor * 60 * 60 * 24} # J/day/m/K
aq_ver_dry_thermal_cond = ${fparse aq_lambda_eff_ver * 60 * 60 * 24} # J/day/m/K
aq_hor_wet_thermal_cond = ${fparse aq_lambda_eff_hor * 60 * 60 * 24} # J/day/m/K
aq_ver_wet_thermal_cond = ${fparse aq_lambda_eff_ver * 60 * 60 * 24} # J/day/m/K
# cap-rock properties
cap_porosity = 0.25
cap_hor_perm = 1E-16 # m^2
cap_ver_perm = 1E-17 # m^2
cap_density = 2650 # kg/m^3
cap_specific_heat_cap = 800 # J/kg/K
cap_hor_thermal_cond = 3 # W/m/K
cap_ver_thermal_cond = 3 # W/m/K
cap_hor_dry_thermal_cond = ${fparse cap_hor_thermal_cond * 60 * 60 * 24} # J/day/m/K
cap_ver_dry_thermal_cond = ${fparse cap_ver_thermal_cond * 60 * 60 * 24} # J/day/m/K
cap_hor_wet_thermal_cond = ${fparse cap_hor_thermal_cond * 60 * 60 * 24} # J/day/m/K
cap_ver_wet_thermal_cond = ${fparse cap_ver_thermal_cond * 60 * 60 * 24} # J/day/m/K
######################################
[Mesh]
[aq_top_fine]
type = GeneratedMeshGenerator
dim = 2
nx = ${num_r_fine}
xmin = ${bh_r}
xmax = ${fine_r}
bias_x = ${bias_r_fine}
bias_y = ${bias_y_aq_top}
ny = ${num_y_aq}
ymin = 0
ymax = ${half_aq_thickness}
[]
[cap_top_fine]
type = GeneratedMeshGenerator
dim = 2
nx = ${num_r_fine}
xmin = ${bh_r}
xmax = ${fine_r}
bias_x = ${bias_r_fine}
bias_y = ${bias_y_cap_top}
ny = ${num_y_cap}
ymax = ${half_height}
ymin = ${half_aq_thickness}
[]
[aq_and_cap_top_fine]
type = StitchedMeshGenerator
inputs = 'aq_top_fine cap_top_fine'
clear_stitched_boundary_ids = true
stitch_boundaries_pairs = 'top bottom'
[]
[aq_bottom_fine]
type = GeneratedMeshGenerator
dim = 2
nx = ${num_r_fine}
xmin = ${bh_r}
xmax = ${fine_r}
bias_x = ${bias_r_fine}
bias_y = ${bias_y_aq_bottom}
ny = ${num_y_aq}
ymax = 0
ymin = -${half_aq_thickness}
[]
[cap_bottom_fine]
type = GeneratedMeshGenerator
dim = 2
nx = ${num_r_fine}
xmin = ${bh_r}
xmax = ${fine_r}
bias_x = ${bias_r_fine}
bias_y = ${bias_y_cap_bottom}
ny = ${num_y_cap}
ymin = -${half_height}
ymax = -${half_aq_thickness}
[]
[aq_and_cap_bottom_fine]
type = StitchedMeshGenerator
inputs = 'aq_bottom_fine cap_bottom_fine'
clear_stitched_boundary_ids = true
stitch_boundaries_pairs = 'bottom top'
[]
[aq_and_cap_fine]
type = StitchedMeshGenerator
inputs = 'aq_and_cap_bottom_fine aq_and_cap_top_fine'
clear_stitched_boundary_ids = true
stitch_boundaries_pairs = 'top bottom'
[]
[aq_top]
type = GeneratedMeshGenerator
dim = 2
nx = ${num_r}
xmin = ${fine_r}
xmax = ${max_r}
bias_x = ${bias_r}
bias_y = ${bias_y_aq_top}
ny = ${num_y_aq}
ymin = 0
ymax = ${half_aq_thickness}
[]
[cap_top]
type = GeneratedMeshGenerator
dim = 2
nx = ${num_r}
xmin = ${fine_r}
xmax = ${max_r}
bias_x = ${bias_r}
bias_y = ${bias_y_cap_top}
ny = ${num_y_cap}
ymax = ${half_height}
ymin = ${half_aq_thickness}
[]
[aq_and_cap_top]
type = StitchedMeshGenerator
inputs = 'aq_top cap_top'
clear_stitched_boundary_ids = true
stitch_boundaries_pairs = 'top bottom'
[]
[aq_bottom]
type = GeneratedMeshGenerator
dim = 2
nx = ${num_r}
xmin = ${fine_r}
xmax = ${max_r}
bias_x = ${bias_r}
bias_y = ${bias_y_aq_bottom}
ny = ${num_y_aq}
ymax = 0
ymin = -${half_aq_thickness}
[]
[cap_bottom]
type = GeneratedMeshGenerator
dim = 2
nx = ${num_r}
xmin = ${fine_r}
xmax = ${max_r}
bias_x = ${bias_r}
bias_y = ${bias_y_cap_bottom}
ny = ${num_y_cap}
ymin = -${half_height}
ymax = -${half_aq_thickness}
[]
[aq_and_cap_bottom]
type = StitchedMeshGenerator
inputs = 'aq_bottom cap_bottom'
clear_stitched_boundary_ids = true
stitch_boundaries_pairs = 'bottom top'
[]
[aq_and_cap]
type = StitchedMeshGenerator
inputs = 'aq_and_cap_bottom aq_and_cap_top'
clear_stitched_boundary_ids = true
stitch_boundaries_pairs = 'top bottom'
[]
[aq_and_cap_all]
type = StitchedMeshGenerator
inputs = 'aq_and_cap_fine aq_and_cap'
clear_stitched_boundary_ids = true
stitch_boundaries_pairs = 'right left'
[]
[aquifer]
type = ParsedSubdomainMeshGenerator
input = aq_and_cap_all
combinatorial_geometry = 'y >= -${half_aq_thickness} & y <= ${half_aq_thickness}'
block_id = 1
[]
[top_cap]
type = ParsedSubdomainMeshGenerator
input = aquifer
combinatorial_geometry = 'y >= ${half_aq_thickness}'
block_id = 2
[]
[bottom_cap]
type = ParsedSubdomainMeshGenerator
input = top_cap
combinatorial_geometry = 'y <= -${half_aq_thickness}'
block_id = 3
[]
[injection_area]
type = ParsedGenerateSideset
combinatorial_geometry = 'x<=${bh_r}*1.000001 & y >= ${screen_bottom} & y <= ${screen_top}'
included_subdomain_ids = 1
new_sideset_name = 'injection_area'
input = 'bottom_cap'
[]
[rename]
type = RenameBlockGenerator
old_block_id = '1 2 3'
new_block_name = 'aquifer caps caps'
input = 'injection_area'
[]
[]
[Problem]
coord_type = RZ
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 ${gravity} 0'
[]
[Variables]
[porepressure]
[]
[temperature]
scaling = 1E-5
[]
[]
[PorousFlowFullySaturated]
coupling_type = ThermoHydro
porepressure = porepressure
temperature = temperature
fp = tabulated_water
stabilization = KT
flux_limiter_type = ${flux_limiter}
use_displaced_mesh = false
temperature_unit = Celsius
pressure_unit = Pa
time_unit = days
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = insitu_pressure
[]
[temperature]
type = FunctionIC
variable = temperature
function = insitu_temperature
[]
[]
[BCs]
[outer_boundary_porepressure]
type = FunctionDirichletBC
preset = true
variable = porepressure
function = insitu_pressure
boundary = 'bottom right top'
[]
[outer_boundary_temperature]
type = FunctionDirichletBC
preset = true
variable = temperature
function = insitu_temperature
boundary = 'bottom right top'
[]
[inject_heat]
type = FunctionDirichletBC
variable = temperature
function = ${inject_temp}
boundary = 'injection_area'
[]
[inject_fluid]
type = PorousFlowSink
variable = porepressure
boundary = injection_area
flux_function = injection_rate_value
[]
[produce_heat]
type = PorousFlowSink
variable = temperature
boundary = injection_area
flux_function = production_rate_value
fluid_phase = 0
use_enthalpy = true
save_in = heat_flux_out
[]
[produce_fluid]
type = PorousFlowSink
variable = porepressure
boundary = injection_area
flux_function = production_rate_value
[]
[]
[Controls]
[inject_on]
type = ConditionalFunctionEnableControl
enable_objects = 'BCs::inject_heat BCs::inject_fluid'
conditional_function = inject
implicit = false
execute_on = 'initial timestep_begin'
[]
[produce_on]
type = ConditionalFunctionEnableControl
enable_objects = 'BCs::produce_heat BCs::produce_fluid'
conditional_function = produce
implicit = false
execute_on = 'initial timestep_begin'
[]
[]
[Functions]
[insitu_pressure]
type = ParsedFunction
value = '(y - ${depth_centre}) * 1000 * ${gravity} + 1E5' # approx insitu pressure in Pa
[]
[insitu_temperature]
type = ParsedFunction
value = '${temp0} + (${depth_centre} - y) * ${geothermal_gradient}'
[]
[inject]
type = ParsedFunction
value = 'if(t >= ${start_injection1} & t < ${end_injection1}, 1,
if(t >= ${start_injection2} & t < ${end_injection2}, 1,
if(t >= ${start_injection3} & t < ${end_injection3}, 1,
if(t >= ${start_injection4} & t < ${end_injection4}, 1,
if(t >= ${start_injection5} & t < ${end_injection5}, 1,
if(t >= ${start_injection6} & t < ${end_injection6}, 1,
if(t >= ${start_injection7} & t < ${end_injection7}, 1,
if(t >= ${start_injection8} & t < ${end_injection8}, 1,
if(t >= ${start_injection9} & t < ${end_injection9}, 1,
if(t >= ${start_injection10} & t < ${end_injection10}, 1, 0))))))))))'
[]
[produce]
type = ParsedFunction
value = 'if(t >= ${start_production1} & t < ${end_production1}, 1,
if(t >= ${start_production2} & t < ${end_production2}, 1,
if(t >= ${start_production3} & t < ${end_production3}, 1,
if(t >= ${start_production4} & t < ${end_production4}, 1,
if(t >= ${start_production5} & t < ${end_production5}, 1,
if(t >= ${start_production6} & t < ${end_production6}, 1,
if(t >= ${start_production7} & t < ${end_production7}, 1,
if(t >= ${start_production8} & t < ${end_production8}, 1,
if(t >= ${start_production9} & t < ${end_production9}, 1,
if(t >= ${start_production10} & t < ${end_production10}, 1, 0))))))))))'
[]
[injection_rate_value]
type = ParsedFunction
vars = true_screen_area
vals = true_screen_area
value = '-${inject_fluid_mass}/(true_screen_area * ${inject_time})'
[]
[production_rate_value]
type = ParsedFunction
vars = true_screen_area
vals = true_screen_area
value = '${produce_fluid_mass}/(true_screen_area * ${produce_time})'
[]
[heat_out_in_timestep]
type = ParsedFunction
vars = 'dt heat_out'
vals = 'dt heat_out_fromBC'
value = 'dt*heat_out'
[]
[produced_T_time_integrated]
type = ParsedFunction
vars = 'dt produced_T'
vals = 'dt produced_T'
value = 'dt*produced_T / ${produce_time}'
[]
[]
[AuxVariables]
[density]
family = MONOMIAL
order = CONSTANT
[]
[porosity]
family = MONOMIAL
order = CONSTANT
[]
[heat_flux_out]
outputs = none
[]
[]
[AuxKernels]
[density]
type = PorousFlowPropertyAux
variable = density
property = density
[]
[porosity]
type = PorousFlowPropertyAux
variable = porosity
property = porosity
[]
[]
[Modules]
[FluidProperties]
[true_water]
type = Water97FluidProperties
[]
[tabulated_water]
type = TabulatedFluidProperties
fp = true_water
temperature_min = 275 # K
temperature_max = 600
interpolated_properties = 'density viscosity enthalpy internal_energy'
fluid_property_file = water97_tabulated_modified.csv
[]
[]
[]
[Materials]
[porosity_aq]
type = PorousFlowPorosityConst
porosity = ${aq_porosity}
block = aquifer
[]
[porosity_caps]
type = PorousFlowPorosityConst
porosity = ${cap_porosity}
block = caps
[]
[permeability_aquifer]
type = PorousFlowPermeabilityConst
block = aquifer
permeability = '${aq_hor_perm} 0 0 0 ${aq_ver_perm} 0 0 0 0'
[]
[permeability_caps]
type = PorousFlowPermeabilityConst
block = caps
permeability = '${cap_hor_perm} 0 0 0 ${cap_ver_perm} 0 0 0 0'
[]
[aq_internal_energy]
type = PorousFlowMatrixInternalEnergy
block = aquifer
density = ${aq_density}
specific_heat_capacity = ${aq_specific_heat_cap}
[]
[caps_internal_energy]
type = PorousFlowMatrixInternalEnergy
block = caps
density = ${cap_density}
specific_heat_capacity = ${cap_specific_heat_cap}
[]
[aq_thermal_conductivity]
type = PorousFlowThermalConductivityIdeal
block = aquifer
dry_thermal_conductivity = '${aq_hor_dry_thermal_cond} 0 0 0 ${aq_ver_dry_thermal_cond} 0 0 0 0'
wet_thermal_conductivity = '${aq_hor_wet_thermal_cond} 0 0 0 ${aq_ver_wet_thermal_cond} 0 0 0 0'
[]
[caps_thermal_conductivity]
type = PorousFlowThermalConductivityIdeal
block = caps
dry_thermal_conductivity = '${cap_hor_dry_thermal_cond} 0 0 0 ${cap_ver_dry_thermal_cond} 0 0 0 0'
wet_thermal_conductivity = '${cap_hor_wet_thermal_cond} 0 0 0 ${cap_ver_wet_thermal_cond} 0 0 0 0'
[]
[]
[Postprocessors]
[true_screen_area] # this accounts for meshes that do not match screen_top and screen_bottom exactly
type = AreaPostprocessor
boundary = injection_area
execute_on = 'initial'
outputs = 'none'
[]
[dt]
type = TimestepSize
[]
[heat_out_fromBC]
type = NodalSum
variable = heat_flux_out
boundary = injection_area
execute_on = 'initial timestep_end'
outputs = 'none'
[]
[heat_out_per_timestep]
type = FunctionValuePostprocessor
function = heat_out_in_timestep
execute_on = 'timestep_end'
outputs = 'none'
[]
[heat_out_cumulative]
type = CumulativeValuePostprocessor
postprocessor = heat_out_per_timestep
execute_on = 'timestep_end'
outputs = 'csv console'
[]
[produced_T]
type = SideAverageValue
boundary = injection_area
variable = temperature
execute_on = 'initial timestep_end'
outputs = 'csv console'
[]
[produced_T_time_integrated]
type = FunctionValuePostprocessor
function = produced_T_time_integrated
execute_on = 'timestep_end'
outputs = 'none'
[]
[produced_T_cumulative]
type = CumulativeValuePostprocessor
postprocessor = produced_T_time_integrated
execute_on = 'timestep_end'
outputs = 'csv console'
[]
[]
[Preconditioning]
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = ${end_simulation}
timestep_tolerance = 1e-5
[TimeStepper]
type = IterationAdaptiveDT
dt = 1e-3
growth_factor = 2
[]
dtmax = 1
dtmin = 1e-5
# rough calc for fluid, |R| ~ V*k*1E6 ~ V*1E-5
# rough calc for heat, |R| ~ V*(lam*1E-3 + h*1E-5) ~ V*(1E3 + 1E-2)
# so scale heat by 1E-7 and go for nl_abs_tol = 1E-4, which should give a max error of
# ~1Pa and ~0.1K in the first metre around the borehole
nl_abs_tol = 1E-4
nl_rel_tol = 1E-5
[]
[Outputs]
sync_times = ${synctimes}
[ex]
type = Exodus
interval = 20
[]
[csv]
type = CSV
execute_postprocessors_on = 'initial timestep_end'
[]
[]
(modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_1D_adaptivity.i)
# Using flux-limited TVD advection ala Kuzmin and Turek, mploying PorousFlow Kernels and UserObjects, with superbee flux-limiter
# 1D version with adaptivity
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[Adaptivity]
initial_steps = 1
initial_marker = tracer_marker
marker = tracer_marker
max_h_level = 1
[Markers]
[tracer_marker]
type = ValueRangeMarker
variable = tracer
lower_bound = 0.02
upper_bound = 0.98
[]
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowFluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = advective_flux_calculator_0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowFluxLimitedTVDAdvection
variable = porepressure
advective_flux_calculator = advective_flux_calculator_1
[]
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[advective_flux_calculator_0]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 0
[]
[advective_flux_calculator_1]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/combined/examples/phase_field-mechanics/kks_mechanics_KHS.i)
# KKS phase-field model coupled with elasticity using Khachaturyan's scheme as
# described in L.K. Aagesen et al., Computational Materials Science, 140, 10-21 (2017)
# Original run #170403a
[Mesh]
type = GeneratedMesh
dim = 3
nx = 640
ny = 1
nz = 1
xmin = -10
xmax = 10
ymin = 0
ymax = 0.03125
zmin = 0
zmax = 0.03125
elem_type = HEX8
[]
[Variables]
# order parameter
[./eta]
order = FIRST
family = LAGRANGE
[../]
# solute concentration
[./c]
order = FIRST
family = LAGRANGE
[../]
# chemical potential
[./w]
order = FIRST
family = LAGRANGE
[../]
# solute phase concentration (matrix)
[./cm]
order = FIRST
family = LAGRANGE
[../]
# solute phase concentration (precipitate)
[./cp]
order = FIRST
family = LAGRANGE
[../]
[./disp_x]
order = FIRST
family = LAGRANGE
[../]
[./disp_y]
order = FIRST
family = LAGRANGE
[../]
[./disp_z]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./eta_ic]
variable = eta
type = FunctionIC
function = ic_func_eta
block = 0
[../]
[./c_ic]
variable = c
type = FunctionIC
function = ic_func_c
block = 0
[../]
[./w_ic]
variable = w
type = ConstantIC
value = 0.00991
block = 0
[../]
[./cm_ic]
variable = cm
type = ConstantIC
value = 0.131
block = 0
[../]
[./cp_ic]
variable = cp
type = ConstantIC
value = 0.236
block = 0
[../]
[]
[Functions]
[./ic_func_eta]
type = ParsedFunction
value = '0.5*(1.0+tanh((x)/delta_eta/sqrt(2.0)))'
vars = 'delta_eta'
vals = '0.8034'
[../]
[./ic_func_c]
type = ParsedFunction
value = '0.2389*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))^3*(6*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))^2-15*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))+10)+0.1339*(1-(0.5*(1.0+tanh(x/delta/sqrt(2.0))))^3*(6*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))^2-15*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))+10))'
vars = 'delta'
vals = '0.8034'
[../]
[./psi_eq_int]
type = ParsedFunction
value = 'volume*psi_alpha'
vars = 'volume psi_alpha'
vals = 'volume psi_alpha'
[../]
[./gamma]
type = ParsedFunction
value = '(psi_int - psi_eq_int) / dy / dz'
vars = 'psi_int psi_eq_int dy dz'
vals = 'psi_int psi_eq_int 0.03125 0.03125'
[../]
[]
[AuxVariables]
[./sigma11]
order = CONSTANT
family = MONOMIAL
[../]
[./sigma22]
order = CONSTANT
family = MONOMIAL
[../]
[./sigma33]
order = CONSTANT
family = MONOMIAL
[../]
[./e11]
order = CONSTANT
family = MONOMIAL
[../]
[./e12]
order = CONSTANT
family = MONOMIAL
[../]
[./e22]
order = CONSTANT
family = MONOMIAL
[../]
[./e33]
order = CONSTANT
family = MONOMIAL
[../]
[./e_el11]
order = CONSTANT
family = MONOMIAL
[../]
[./e_el12]
order = CONSTANT
family = MONOMIAL
[../]
[./e_el22]
order = CONSTANT
family = MONOMIAL
[../]
[./f_el]
order = CONSTANT
family = MONOMIAL
[../]
[./eigen_strain00]
order = CONSTANT
family = MONOMIAL
[../]
[./Fglobal]
order = CONSTANT
family = MONOMIAL
[../]
[./psi]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./matl_sigma11]
type = RankTwoAux
rank_two_tensor = stress
index_i = 0
index_j = 0
variable = sigma11
[../]
[./matl_sigma22]
type = RankTwoAux
rank_two_tensor = stress
index_i = 1
index_j = 1
variable = sigma22
[../]
[./matl_sigma33]
type = RankTwoAux
rank_two_tensor = stress
index_i = 2
index_j = 2
variable = sigma33
[../]
[./matl_e11]
type = RankTwoAux
rank_two_tensor = total_strain
index_i = 0
index_j = 0
variable = e11
[../]
[./f_el]
type = MaterialRealAux
variable = f_el
property = f_el_mat
execute_on = timestep_end
[../]
[./GlobalFreeEnergy]
variable = Fglobal
type = KKSGlobalFreeEnergy
fa_name = fm
fb_name = fp
w = 0.0264
kappa_names = kappa
interfacial_vars = eta
[../]
[./psi_potential]
variable = psi
type = ParsedAux
args = 'Fglobal w c f_el sigma11 e11'
function = 'Fglobal - w*c + f_el - sigma11*e11'
[../]
[]
[BCs]
[./left_x]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[./right_x]
type = DirichletBC
variable = disp_x
boundary = right
value = 0
[../]
[./front_y]
type = DirichletBC
variable = disp_y
boundary = front
value = 0
[../]
[./back_y]
type = DirichletBC
variable = disp_y
boundary = back
value = 0
[../]
[./top_z]
type = DirichletBC
variable = disp_z
boundary = top
value = 0
[../]
[./bottom_z]
type = DirichletBC
variable = disp_z
boundary = bottom
value = 0
[../]
[]
[Materials]
# Chemical free energy of the matrix
[./fm]
type = DerivativeParsedMaterial
f_name = fm
args = 'cm'
function = '6.55*(cm-0.13)^2'
[../]
# Chemical Free energy of the precipitate phase
[./fp]
type = DerivativeParsedMaterial
f_name = fp
args = 'cp'
function = '6.55*(cp-0.235)^2'
[../]
# Elastic energy of the precipitate
[./elastic_free_energy_p]
type = ElasticEnergyMaterial
f_name = f_el_mat
args = 'eta'
outputs = exodus
[../]
# h(eta)
[./h_eta]
type = SwitchingFunctionMaterial
h_order = HIGH
eta = eta
[../]
# 1- h(eta), putting in function explicitly
[./one_minus_h_eta_explicit]
type = DerivativeParsedMaterial
f_name = one_minus_h_explicit
args = eta
function = 1-eta^3*(6*eta^2-15*eta+10)
outputs = exodus
[../]
# g(eta)
[./g_eta]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta
[../]
# constant properties
[./constants]
type = GenericConstantMaterial
prop_names = 'M L kappa misfit'
prop_values = '0.7 0.7 0.01704 0.00377'
[../]
#Mechanical properties
[./Stiffness_matrix]
type = ComputeElasticityTensor
base_name = C_matrix
C_ijkl = '103.3 74.25 74.25 103.3 74.25 103.3 46.75 46.75 46.75'
fill_method = symmetric9
[../]
[./Stiffness_ppt]
type = ComputeElasticityTensor
C_ijkl = '100.7 71.45 71.45 100.7 71.45 100.7 50.10 50.10 50.10'
base_name = C_ppt
fill_method = symmetric9
[../]
[./C]
type = CompositeElasticityTensor
args = eta
tensors = 'C_matrix C_ppt'
weights = 'one_minus_h_explicit h'
[../]
[./stress]
type = ComputeLinearElasticStress
[../]
[./strain]
type = ComputeSmallStrain
displacements = 'disp_x disp_y disp_z'
eigenstrain_names = 'eigenstrain_ppt'
[../]
[./eigen_strain]
type = ComputeVariableEigenstrain
eigen_base = '0.00377 0.00377 0.00377 0 0 0'
prefactor = h
args = eta
eigenstrain_name = 'eigenstrain_ppt'
[../]
[]
[Kernels]
[./TensorMechanics]
displacements = 'disp_x disp_y disp_z'
[../]
# enforce c = (1-h(eta))*cm + h(eta)*cp
[./PhaseConc]
type = KKSPhaseConcentration
ca = cm
variable = cp
c = c
eta = eta
[../]
# enforce pointwise equality of chemical potentials
[./ChemPotVacancies]
type = KKSPhaseChemicalPotential
variable = cm
cb = cp
fa_name = fm
fb_name = fp
[../]
#
# Cahn-Hilliard Equation
#
[./CHBulk]
type = KKSSplitCHCRes
variable = c
ca = cm
fa_name = fm
w = w
[../]
[./dcdt]
type = CoupledTimeDerivative
variable = w
v = c
[../]
[./ckernel]
type = SplitCHWRes
mob_name = M
variable = w
[../]
#
# Allen-Cahn Equation
#
[./ACBulkF]
type = KKSACBulkF
variable = eta
fa_name = fm
fb_name = fp
w = 0.0264
args = 'cp cm'
[../]
[./ACBulkC]
type = KKSACBulkC
variable = eta
ca = cm
cb = cp
fa_name = fm
[../]
[./ACBulk_el] #This adds df_el/deta for strain interpolation
type = AllenCahn
variable = eta
f_name = f_el_mat
[../]
[./ACInterface]
type = ACInterface
variable = eta
kappa_name = kappa
[../]
[./detadt]
type = TimeDerivative
variable = eta
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm ilu nonzero'
l_max_its = 30
nl_max_its = 10
l_tol = 1.0e-4
nl_rel_tol = 1.0e-8
nl_abs_tol = 1.0e-11
num_steps = 200
[./TimeStepper]
type = SolutionTimeAdaptiveDT
dt = 0.5
[../]
[]
[Postprocessors]
[./f_el_int]
type = ElementIntegralMaterialProperty
mat_prop = f_el_mat
[../]
[./c_alpha]
type = SideAverageValue
boundary = left
variable = c
[../]
[./c_beta]
type = SideAverageValue
boundary = right
variable = c
[../]
[./e11_alpha]
type = SideAverageValue
boundary = left
variable = e11
[../]
[./e11_beta]
type = SideAverageValue
boundary = right
variable = e11
[../]
[./s11_alpha]
type = SideAverageValue
boundary = left
variable = sigma11
[../]
[./s22_alpha]
type = SideAverageValue
boundary = left
variable = sigma22
[../]
[./s33_alpha]
type = SideAverageValue
boundary = left
variable = sigma33
[../]
[./s11_beta]
type = SideAverageValue
boundary = right
variable = sigma11
[../]
[./s22_beta]
type = SideAverageValue
boundary = right
variable = sigma22
[../]
[./s33_beta]
type = SideAverageValue
boundary = right
variable = sigma33
[../]
[./f_el_alpha]
type = SideAverageValue
boundary = left
variable = f_el
[../]
[./f_el_beta]
type = SideAverageValue
boundary = right
variable = f_el
[../]
[./f_c_alpha]
type = SideAverageValue
boundary = left
variable = Fglobal
[../]
[./f_c_beta]
type = SideAverageValue
boundary = right
variable = Fglobal
[../]
[./chem_pot_alpha]
type = SideAverageValue
boundary = left
variable = w
[../]
[./chem_pot_beta]
type = SideAverageValue
boundary = right
variable = w
[../]
[./psi_alpha]
type = SideAverageValue
boundary = left
variable = psi
[../]
[./psi_beta]
type = SideAverageValue
boundary = right
variable = psi
[../]
[./total_energy]
type = ElementIntegralVariablePostprocessor
variable = Fglobal
[../]
# Get simulation cell size from postprocessor
[./volume]
type = ElementIntegralMaterialProperty
mat_prop = 1
[../]
[./psi_eq_int]
type = FunctionValuePostprocessor
function = psi_eq_int
[../]
[./psi_int]
type = ElementIntegralVariablePostprocessor
variable = psi
[../]
[./gamma]
type = FunctionValuePostprocessor
function = gamma
[../]
[./int_position]
type = FindValueOnLine
start_point = '-10 0 0'
end_point = '10 0 0'
v = eta
target = 0.5
[../]
[]
#
# Precondition using handcoded off-diagonal terms
#
[Preconditioning]
[./full]
type = SMP
full = true
[../]
[]
[Outputs]
[./exodus]
type = Exodus
interval = 20
[../]
checkpoint = true
[./csv]
type = CSV
execute_on = 'final'
[../]
[]
(modules/porous_flow/test/tests/sinks/s09.i)
# Apply a piecewise-linear sink flux to the right-hand side and watch fluid flow to it
#
# This test has a single phase with two components. The test initialises with
# the porous material fully filled with component=1. The left-hand side is fixed
# at porepressure=1 and mass-fraction of the zeroth component being unity.
# The right-hand side has a very strong piecewise-linear flux that keeps the
# porepressure~0 at that side. Fluid mass is extracted by this flux in proportion
# to the fluid component mass fraction.
#
# Therefore, the zeroth fluid component will flow from left to right (down the
# pressure gradient).
#
# The important DE is
# porosity * dc/dt = (perm / visc) * grad(P) * grad(c)
# which is true for c = mass-fraction, and very large bulk modulus of the fluid.
# For grad(P) constant in time and space (as in this example) this is just the
# advection equation for c, with velocity = perm / visc / porosity. The parameters
# are chosen to velocity = 1 m/s.
# In the numerical world, and especially with full upwinding, the advection equation
# suffers from diffusion. In this example, the diffusion is obvious when plotting
# the mass-fraction along the line, but the average velocity of the front is still
# correct at 1 m/s.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp frac'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Variables]
[pp]
[]
[frac]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = 1-x
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = frac
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = pp
[]
[flux0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
gravity = '0 0 0'
variable = frac
[]
[flux1]
type = PorousFlowAdvectiveFlux
fluid_component = 1
gravity = '0 0 0'
variable = pp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1e10 # need large in order for constant-velocity advection
density0 = 1 # almost irrelevant, except that the ability of the right BC to keep P fixed at zero is related to density_P0
thermal_expansion = 0
viscosity = 11
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = frac
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 1.1 0 0 0 1.1'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2 # irrelevant in this fully-saturated situation
phase = 0
[]
[]
[BCs]
[lhs_fixed_a]
type = DirichletBC
boundary = 'left'
variable = frac
value = 1
[]
[lhs_fixed_b]
type = DirichletBC
boundary = 'left'
variable = pp
value = 1
[]
[flux0]
type = PorousFlowPiecewiseLinearSink
boundary = 'right'
pt_vals = '-100 100'
multipliers = '-1 1'
variable = frac # the zeroth comonent
mass_fraction_component = 0
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 1E4
[]
[flux1]
type = PorousFlowPiecewiseLinearSink
boundary = 'right'
pt_vals = '-100 100'
multipliers = '-1 1'
variable = pp # comonent 1
mass_fraction_component = 1
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 1E4
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu 10000 NONZERO 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1E-2
end_time = 1
nl_rel_tol = 1E-12
nl_abs_tol = 1E-12
[]
[VectorPostprocessors]
[mf]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 100
sort_by = x
variable = frac
[]
[]
[Outputs]
file_base = s09
[console]
type = Console
execute_on = 'nonlinear linear'
[]
[csv]
type = CSV
sync_times = '0.1 0.5 1'
sync_only = true
[]
interval = 10
[]
(test/tests/time_steppers/function_dt/function_dt_min.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[./dts]
type = PiecewiseLinear
x = '0 0.85 2'
y = '0.2 0.2 0.2'
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
start_time = 0
num_steps = 10
[./TimeStepper]
type = FunctionDT
function = dts
min_dt = 0.1
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/newton_cooling/nc06.i)
# Newton cooling from a bar. 1-phase and heat, steady
[Mesh]
type = GeneratedMesh
dim = 2
nx = 100
ny = 1
xmin = 0
xmax = 100
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pressure temp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.8
alpha = 1e-5
[]
[]
[Variables]
[pressure]
[]
[temp]
[]
[]
[ICs]
# have to start these reasonably close to their steady-state values
[pressure]
type = FunctionIC
variable = pressure
function = '(2-x/100)*1E6'
[]
[temperature]
type = FunctionIC
variable = temp
function = 100+0.1*x
[]
[]
[Kernels]
[flux]
type = PorousFlowAdvectiveFlux
fluid_component = 0
gravity = '0 0 0'
variable = pressure
[]
[heat_advection]
type = PorousFlowHeatAdvection
gravity = '0 0 0'
variable = temp
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1e6
density0 = 1000
thermal_expansion = 0
viscosity = 1e-3
cv = 1e6
porepressure_coefficient = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-15 0 0 0 1E-15 0 0 0 1E-15'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey # irrelevant in this fully-saturated situation
n = 2
phase = 0
[]
[]
[BCs]
[leftp]
type = DirichletBC
variable = pressure
boundary = left
value = 2E6
[]
[leftt]
type = DirichletBC
variable = temp
boundary = left
value = 100
[]
[newtonp]
type = PorousFlowPiecewiseLinearSink
variable = pressure
boundary = right
pt_vals = '0 100000 200000 300000 400000 500000 600000 700000 800000 900000 1000000 1100000 1200000 1300000 1400000 1500000 1600000 1700000 1800000 1900000 2000000'
multipliers = '0. 5.6677197748570516e-6 0.000011931518841831313 0.00001885408740732065 0.000026504708864284114 0.000034959953203725676 0.000044304443352900224 0.00005463170211001232 0.00006604508815181467 0.00007865883048198513 0.00009259917167338928 0.00010800563134618119 0.00012503240252705603 0.00014384989486488752 0.00016464644014777016 0.00018763017719085535 0.0002130311349595711 0.00024110353477682344 0.00027212833465544285 0.00030641604122040985 0.00034430981736352295'
use_mobility = false
use_relperm = false
fluid_phase = 0
flux_function = 1
[]
[newton]
type = PorousFlowPiecewiseLinearSink
variable = temp
boundary = right
pt_vals = '0 100000 200000 300000 400000 500000 600000 700000 800000 900000 1000000 1100000 1200000 1300000 1400000 1500000 1600000 1700000 1800000 1900000 2000000'
multipliers = '0. 5.6677197748570516e-6 0.000011931518841831313 0.00001885408740732065 0.000026504708864284114 0.000034959953203725676 0.000044304443352900224 0.00005463170211001232 0.00006604508815181467 0.00007865883048198513 0.00009259917167338928 0.00010800563134618119 0.00012503240252705603 0.00014384989486488752 0.00016464644014777016 0.00018763017719085535 0.0002130311349595711 0.00024110353477682344 0.00027212833465544285 0.00030641604122040985 0.00034430981736352295'
use_mobility = false
use_relperm = false
use_internal_energy = true
fluid_phase = 0
flux_function = 1
[]
[]
[VectorPostprocessors]
[porepressure]
type = LineValueSampler
variable = pressure
start_point = '0 0.5 0'
end_point = '100 0.5 0'
sort_by = x
num_points = 11
execute_on = timestep_end
[]
[temperature]
type = LineValueSampler
variable = temp
start_point = '0 0.5 0'
end_point = '100 0.5 0'
sort_by = x
num_points = 11
execute_on = timestep_end
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap -snes_atol -snes_rtol '
petsc_options_value = 'gmres asm lu 100 NONZERO 2 1E-8 1E-15'
[]
[]
[Executioner]
type = Steady
solve_type = Newton
[]
[Outputs]
file_base = nc06
execute_on = timestep_end
exodus = true
[along_line]
type = CSV
execute_vector_postprocessors_on = timestep_end
[]
[]
(tutorials/tutorial03_verification/app/test/tests/step04_mms/2d_mms_spatial.i)
[ICs]
active = 'mms'
[mms]
type = FunctionIC
variable = T
function = mms_exact
[]
[]
[BCs]
active = 'mms'
[mms]
type = FunctionDirichletBC
variable = T
boundary = 'left right top bottom'
function = mms_exact
[]
[]
[Kernels]
[mms]
type = HeatSource
variable = T
function = mms_force
[]
[]
[Functions]
[mms_force]
type = ParsedFunction
value = 'cp*rho*sin(x*pi)*sin(5*y*pi) + 26*pi^2*k*t*sin(x*pi)*sin(5*y*pi) - shortwave*exp(y*kappa)*sin((1/2)*x*pi)*sin((1/3600)*pi*t/hours)'
vars = 'rho cp k kappa shortwave hours'
vals = '150 2000 0.01 40 650 9'
[]
[mms_exact]
type = ParsedFunction
value = 't*sin(pi*x)*sin(5*pi*y)'
[]
[]
[Outputs]
csv = true
[]
[Postprocessors]
[error]
type = ElementL2Error
variable = T
function = mms_exact
[]
[h]
type = AverageElementSize
[]
[]
(test/tests/kernels/conservative_advection/full_upwinding_2D.i)
# 2D test of advection with full upwinding
# Note there are no overshoots or undershoots
# but there is numerical diffusion.
# The center of the blob advects with the correct velocity
[Mesh]
type = GeneratedMesh
dim = 2
nx = 40
ny = 40
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./u_blob]
type = FunctionIC
variable = u
function = 'if(x<0.2,if(y<0.2,1,0),0)'
[../]
[]
[Kernels]
[./udot]
type = MassLumpedTimeDerivative
variable = u
[../]
[./advection]
type = ConservativeAdvection
variable = u
upwinding_type = full
velocity = '2 1 0'
[../]
[]
[Executioner]
type = Transient
solve_type = LINEAR
dt = 0.01
end_time = 0.1
l_tol = 1E-14
[]
[Outputs]
exodus = true
[]
(test/tests/transfers/multiapp_userobject_transfer/two_pipe_sub.i)
[Mesh]
type = FileMesh
file = two_pipe.e
[]
[Problem]
kernel_coverage_check = false
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[./var]
order = CONSTANT
family = MONOMIAL
block = p1
[../]
[]
[ICs]
[./var]
type = FunctionIC
variable = var
function = setvar
block = p1
[../]
[]
[Functions]
[./setvar]
type = ParsedFunction
value = '1 + z * z'
[../]
[]
[UserObjects]
[./sub_app_uo]
type = LayeredAverage
direction = z
variable = var
num_layers = 10
execute_on = TIMESTEP_END
block = p1
[../]
[]
[Executioner]
type = Transient
[]
(modules/navier_stokes/test/tests/finite_volume/cns/implicit_bcs/hllc_sod_shocktube.i)
rho_left = 1
E_left = 2.501505578
u_left = 1e-15
rho_right = 0.125
E_right = 1.999770935
u_right = 1e-15
middle = 0.5
[GlobalParams]
fp = fp
[]
[Mesh]
[cartesian]
type = GeneratedMeshGenerator
dim = 2
xmin = 0
xmax = ${fparse 2 * middle}
nx = 5
ymin = 0
ymax = 1
ny = 2
[]
[]
[Modules]
[FluidProperties]
[fp]
type = IdealGasFluidProperties
allow_imperfect_jacobians = true
[]
[]
[]
[Variables]
[rho]
order = CONSTANT
family = MONOMIAL
fv = true
[]
[rho_u]
order = CONSTANT
family = MONOMIAL
fv = true
[]
[rho_v]
order = CONSTANT
family = MONOMIAL
fv = true
initial_condition = 1e-10
[]
[rho_E]
order = CONSTANT
family = MONOMIAL
fv = true
[]
[]
[FVKernels]
[mass_time]
type = FVTimeKernel
variable = rho
[]
[mass_advection]
type = CNSFVMassHLLC
variable = rho
[]
[momentum_x_time]
type = FVTimeKernel
variable = rho_u
[]
[momentum_x_advection]
type = CNSFVMomentumHLLC
variable = rho_u
momentum_component = x
[]
[momentum_y_time]
type = FVTimeKernel
variable = rho_v
[]
[momentum_y_advection]
type = CNSFVMomentumHLLC
variable = rho_v
momentum_component = y
[]
[fluid_energy_time]
type = FVTimeKernel
variable = rho_E
[]
[fluid_energy_advection]
type = CNSFVFluidEnergyHLLC
variable = rho_E
[]
[]
[FVBCs]
[mass_implicit]
type = CNSFVHLLCMassImplicitBC
variable = rho
fp = fp
boundary = 'left right'
[]
[mom_x_implicit]
type = CNSFVHLLCMomentumImplicitBC
variable = rho_u
momentum_component = x
fp = fp
boundary = 'left right'
[]
[wall]
type = CNSFVMomImplicitPressureBC
variable = rho_v
momentum_component = y
boundary = 'top bottom'
[]
[fluid_energy_implicit]
type = CNSFVHLLCFluidEnergyImplicitBC
variable = rho_E
fp = fp
boundary = 'left right'
[]
[]
[ICs]
[rho_ic]
type = FunctionIC
variable = rho
function = 'if (x < ${middle}, ${rho_left}, ${rho_right})'
[]
[rho_u_ic]
type = FunctionIC
variable = rho_u
function = 'if (x < ${middle}, ${fparse rho_left * u_left}, ${fparse rho_right * u_right})'
[]
[rho_E_ic]
type = FunctionIC
variable = rho_E
function = 'if (x < ${middle}, ${fparse E_left * rho_left}, ${fparse E_right * rho_right})'
[]
[]
[Materials]
[var_mat]
type = ConservedVarValuesMaterial
rho = rho
rhou = rho_u
rhov = rho_v
rho_et = rho_E
fp = fp
[]
[]
[Executioner]
type = Transient
[TimeIntegrator]
type = ExplicitSSPRungeKutta
order = 2
[]
l_tol = 1e-8
# run to t = 0.15
start_time = 0.0
dt = 1e-1
end_time = 10
abort_on_solve_fail = true
[]
[Outputs]
exodus = true
[]
(modules/navier_stokes/test/tests/finite_volume/cns/userobject/HLLC/hllc_uo_2D_tri.i)
rho_left = 1.162633159
E_left = 2.1502913276e+05
v_left = 40
rho_right = 1.116127833
E_right = 1.7919094397e+05
v_right = 50
[Mesh]
[./cartesian]
type = GeneratedMeshGenerator
dim = 2
xmin = 0
xmax = 1
ymin = 0
ymax = 2
nx = 1
ny = 1
elem_type = 'TRI3'
[../]
[]
[Modules]
[./FluidProperties]
[./fp]
type = IdealGasFluidProperties
allow_imperfect_jacobians = true
[../]
[../]
[]
[Problem]
kernel_coverage_check = false
[]
[Variables]
[./rho]
order = CONSTANT
family = MONOMIAL
[../]
[./rho_v]
order = CONSTANT
family = MONOMIAL
[../]
[./rho_E]
order = CONSTANT
family = MONOMIAL
[../]
[]
[ICs]
[./rho_ic]
type = FunctionIC
variable = rho
function = 'if (y / (2 * x) < 0.5, ${rho_left}, ${rho_right})'
[../]
[./rho_v_ic]
type = FunctionIC
variable = rho_v
function = 'if (y / (2 * x) < 0.5, ${fparse rho_left * v_left}, ${fparse rho_right * v_right})'
[../]
[./rho_E_ic]
type = FunctionIC
variable = rho_E
function = 'if (y / (2 * x) < 0.5, ${fparse E_left * rho_left}, ${fparse E_right * rho_right})'
[../]
[]
[Materials]
[./var_mat]
type = ConservedVarValuesMaterial
rho = rho
rhou = 0
rhov = rho_v
rho_et = rho_E
fp = fp
[../]
[]
[UserObjects]
[./hllc]
type = HLLCUserObject
fp = fp
[../]
[]
[VectorPostprocessors]
[./wave_speeds]
type = WaveSpeedVPP
hllc_uo = hllc
elem_id = 0
side_id = 2
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
csv = true
exodus = true
[]
(test/tests/misc/check_error/function_file_test5.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = dummy
xy_data = '1 2'
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(test/tests/kernels/material_derivatives/material_derivatives_test.i)
###########################################################
# This is a test of the material derivatives test kernel.
###########################################################
[Mesh]
type = GeneratedMesh
dim = 1
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[./v]
order = FIRST
family = LAGRANGE
[../]
[]
[Functions]
[./u_IC_fn]
type = ParsedFunction
value = 'x'
[../]
[./v_IC_fn]
type = ParsedFunction
value = 'sin(x)'
[../]
[]
[ICs]
[./u_IC]
type = FunctionIC
variable = u
function = u_IC_fn
[../]
[./v_IC]
type = FunctionIC
variable = v
function = v_IC_fn
[../]
[]
[Kernels]
[./test_kernel]
type = MaterialDerivativeTestKernel
variable = u
args = 'u v'
material_property = material_derivative_test_property
[../]
# add a dummy kernel for v to prevent singular Jacobian
[./dummy_kernel]
type = Diffusion
variable = v
[../]
[]
[Materials]
[./material_derivative_test_material]
type = MaterialDerivativeTestMaterial
var1 = u
var2 = v
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
solve_type = newton
petsc_options_iname = '-snes_type -snes_test_err'
petsc_options_value = 'test 1e-10'
[../]
[]
[Executioner]
type = Steady
[]
(modules/richards/test/tests/buckley_leverett/bl01_adapt.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 15
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2.0E6
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.8
al = 1E-4
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[AuxKernels]
active = 'calculate_seff'
[./calculate_seff]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffVG
pressure_vars = pressure
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[BCs]
active = 'left'
[./left]
type = DirichletBC
variable = pressure
boundary = left
value = 980000
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Functions]
active = 'initial_pressure'
[./initial_pressure]
type = ParsedFunction
value = max((1000000-x/5*1000000)-20000,-20000)
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Adaptivity]
marker = errorfrac
max_h_level = 3
[./Indicators]
[./error]
type = RichardsFluxJumpIndicator
variable = pressure
[../]
[../]
[./Markers]
[./errorfrac]
type = ErrorFractionMarker
refine = 0.5
coarsen = 0.3
indicator = error
[../]
[../]
[]
[Preconditioning]
active = 'andy'
[./andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 20'
[../]
[]
[Executioner]
type = Transient
end_time = 50
[./TimeStepper]
type = FunctionControlledDT
functions = ''
maximums = ''
minimums = ''
dt = 0.3
increment = 1.1
decrement = 1.1
maxDt = 0.3
minDt = 1E-5
adapt_log = false
percent_change = 0.1
[../]
[]
[Outputs]
file_base = bl01_adapt
interval = 10000
exodus = true
[]
(modules/phase_field/test/tests/MultiPhase/crosstermbarrierfunction.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 200
xmin = 0
xmax = 9
[]
[Functions]
[./func1]
type = ParsedFunction
value = 'il:=x-7; ir:=2-x; if(x<1, 1,
if(x<2, 0.5-0.5*cos(ir*pi),
if(x<7, 0,
if(x<8, 0.5-0.5*cos(il*pi),
1))))'
[../]
[./func2]
type = ParsedFunction
value = 'il:=x-1; ir:=5-x; if(x<1, 0,
if(x<2, 0.5-0.5*cos(il*pi),
if(x<4, 1,
if(x<5, 0.5-0.5*cos(ir*pi),
0))))'
[../]
[./func3]
type = ParsedFunction
value = 'il:=x-4; ir:=8-x; if(x<4, 0,
if(x<5, 0.5-0.5*cos(il*pi),
if(x<7, 1,
if(x<8, 0.5-0.5*cos(ir*pi),
0))))'
[../]
[]
[AuxVariables]
[./eta1]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = func1
[../]
[../]
[./eta2]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = func2
[../]
[../]
[./eta3]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = func3
[../]
[../]
[]
[Materials]
[./crosstermbarrier_simple]
type = CrossTermBarrierFunctionMaterial
etas = 'eta1 eta2 eta3'
W_ij = '0 1 2.2
1 0 3.1
2.2 3.1 0'
function_name = gsimple
g_order = SIMPLE
outputs = exodus
[../]
[./crosstermbarrier_low]
type = CrossTermBarrierFunctionMaterial
etas = 'eta1 eta2 eta3'
W_ij = '0 1 2.2
1 0 3.1
2.2 3.1 0'
function_name = glow
g_order = LOW
outputs = exodus
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
num_steps = 1
[]
[Problem]
solve = false
kernel_coverage_check = false
[]
[Outputs]
exodus = true
execute_on = final
[]
(modules/level_set/test/tests/transfers/copy_solution/master.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
function = 'x*x*y'
variable = u
[../]
[]
[Problem]
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
[]
[MultiApps]
[./sub]
type = FullSolveMultiApp
input_files = 'sub.i'
execute_on = timestep_end
[../]
[]
[Transfers]
[./to_sub]
type = MultiAppCopyTransfer
variable = u
source_variable = u
direction = to_multiapp
multi_app = sub
execute_on = timestep_end
check_multiapp_execute_on = false
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/capillary_pressure/vangenuchten3.i)
# Test van Genuchten relative permeability curve by varying saturation over the mesh
# van Genuchten exponent m = 0.5 for both phases
# No residual saturation in either phase
[Mesh]
type = GeneratedMesh
dim = 1
nx = 500
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[p0aux]
family = MONOMIAL
order = CONSTANT
[]
[p1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[p0]
type = PorousFlowPropertyAux
property = pressure
phase = 0
variable = p0aux
[]
[p1]
type = PorousFlowPropertyAux
property = pressure
phase = 1
variable = p1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
alpha = 1e-5
m = 0.5
sat_lr = 0.1
s_scale = 0.8
log_extension = false
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityVG
phase = 0
m = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux p0aux p1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 500
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-6
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(modules/porous_flow/examples/lava_lamp/2phase_convection.i)
# Two phase density-driven convection of dissolved CO2 in brine
#
# Initially, the model has a gas phase at the top with a saturation of 0.29
# (which corresponds to an initial value of zi = 0.2).
# Diffusion of the dissolved CO2
# component from the saturated liquid to the unsaturated liquid below reduces the
# amount of CO2 in the gas phase. As the density of the CO2-saturated brine is greater
# than the unsaturated brine, a gravitational instability arises and density-driven
# convection of CO2-rich fingers descend into the unsaturated brine.
#
# The instability is seeded by a random perturbation to the porosity field.
# Mesh adaptivity is used to refine the mesh as the fingers form.
#
# Note: this model is computationally expensive, so should be run with multiple cores,
# preferably on a cluster.
[GlobalParams]
PorousFlowDictator = 'dictator'
gravity = '0 -9.81 0'
[]
[Adaptivity]
max_h_level = 2
marker = marker
initial_marker = initial
initial_steps = 2
[Indicators]
[indicator]
type = GradientJumpIndicator
variable = zi
[]
[]
[Markers]
[marker]
type = ErrorFractionMarker
indicator = indicator
refine = 0.8
[]
[initial]
type = BoxMarker
bottom_left = '0 1.95 0'
top_right = '2 2 0'
inside = REFINE
outside = DO_NOTHING
[]
[]
[]
[Mesh]
type = GeneratedMesh
dim = 2
ymax = 2
xmax = 2
ny = 40
nx = 40
bias_y = 0.95
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pgas
[]
[flux0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pgas
[]
[diff0]
type = PorousFlowDispersiveFlux
fluid_component = 0
variable = pgas
disp_long = '0 0'
disp_trans = '0 0'
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = zi
[]
[flux1]
type = PorousFlowAdvectiveFlux
fluid_component = 1
variable = zi
[]
[diff1]
type = PorousFlowDispersiveFlux
fluid_component = 1
variable = zi
disp_long = '0 0'
disp_trans = '0 0'
[]
[]
[AuxVariables]
[xnacl]
initial_condition = 0.01
[]
[saturation_gas]
order = FIRST
family = MONOMIAL
[]
[xco2l]
order = FIRST
family = MONOMIAL
[]
[density_liquid]
order = FIRST
family = MONOMIAL
[]
[porosity]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[saturation_gas]
type = PorousFlowPropertyAux
variable = saturation_gas
property = saturation
phase = 1
execute_on = 'timestep_end'
[]
[xco2l]
type = PorousFlowPropertyAux
variable = xco2l
property = mass_fraction
phase = 0
fluid_component = 1
execute_on = 'timestep_end'
[]
[density_liquid]
type = PorousFlowPropertyAux
variable = density_liquid
property = density
phase = 0
execute_on = 'timestep_end'
[]
[]
[Variables]
[pgas]
[]
[zi]
scaling = 1e4
[]
[]
[ICs]
[pressure]
type = FunctionIC
function = 10e6-9.81*1000*y
variable = pgas
[]
[zi]
type = BoundingBoxIC
variable = zi
x1 = 0
x2 = 2
y1 = 1.95
y2 = 2
inside = 0.2
outside = 0
[]
[porosity]
type = RandomIC
variable = porosity
min = 0.25
max = 0.275
seed = 0
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pgas zi'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[fs]
type = PorousFlowBrineCO2
brine_fp = brine
co2_fp = co2
capillary_pressure = pc
[]
[]
[Modules]
[FluidProperties]
[co2sw]
type = CO2FluidProperties
[]
[co2]
type = TabulatedFluidProperties
fp = co2sw
[]
[brine]
type = BrineFluidProperties
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = '45'
[]
[brineco2]
type = PorousFlowFluidState
gas_porepressure = 'pgas'
z = 'zi'
temperature_unit = Celsius
xnacl = 'xnacl'
capillary_pressure = pc
fluid_state = fs
[]
[porosity]
type = PorousFlowPorosityConst
porosity = porosity
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1e-11 0 0 0 1e-11 0 0 0 1e-11'
[]
[relperm_water]
type = PorousFlowRelativePermeabilityCorey
phase = 0
n = 2
s_res = 0.1
sum_s_res = 0.2
[]
[relperm_gas]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
s_res = 0.1
sum_s_res = 0.2
[]
[diffusivity]
type = PorousFlowDiffusivityConst
diffusion_coeff = '2e-9 2e-9 2e-9 2e-9'
tortuosity = '1 1'
[]
[]
[Preconditioning]
active = basic
[mumps_is_best_for_parallel_jobs]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[basic]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = 'gmres asm lu NONZERO 2 '
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 1e6
nl_max_its = 25
l_max_its = 100
dtmax = 1e4
nl_abs_tol = 1e-6
[TimeStepper]
type = IterationAdaptiveDT
dt = 10
growth_factor = 2
cutback_factor = 0.5
[]
[]
[Functions]
[flux]
type = ParsedFunction
vals = 'delta_xco2 dt'
vars = 'dx dt'
value = 'dx/dt'
[]
[]
[Postprocessors]
[total_co2_in_gas]
type = PorousFlowFluidMass
phase = 1
fluid_component = 1
[]
[total_co2_in_liquid]
type = PorousFlowFluidMass
phase = 0
fluid_component = 1
[]
[numdofs]
type = NumDOFs
[]
[delta_xco2]
type = ChangeOverTimePostprocessor
postprocessor = total_co2_in_liquid
[]
[dt]
type = TimestepSize
[]
[flux]
type = FunctionValuePostprocessor
function = flux
[]
[]
[Outputs]
print_linear_residuals = false
perf_graph = true
exodus = true
csv = true
[]
(modules/phase_field/test/tests/phase_field_kernels/ADAllenCahnVariableL.i)
#
# Test the forward automatic differentiation Allen-Cahn Bulk kernel with a
# spatially varying mobility
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
xmax = 12
ymax = 12
elem_type = QUAD4
[]
[AuxVariables]
[./chi]
[./InitialCondition]
type = FunctionIC
function = 'x/24+0.5'
[../]
[../]
[]
[Variables]
[./eta]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = SmoothCircleIC
x1 = 0.0
y1 = 0.0
radius = 6.0
invalue = 0.9
outvalue = 0.1
int_width = 3.0
[../]
[../]
[]
[Kernels]
[./detadt]
type = ADTimeDerivative
variable = eta
[../]
[./ACBulk]
type = ADAllenCahn
variable = eta
f_name = F
[../]
[./ACInterface]
type = ADACInterface
variable = eta
kappa_name = 1
variable_L = true
args = chi
[../]
[]
[Materials]
[./L]
type = ADTestDerivativeFunction
function = F2
f_name = L
op = 'eta chi'
[../]
[./free_energy]
type = ADTestDerivativeFunction
function = F1
f_name = F
op = 'eta'
[../]
[]
[Executioner]
type = Transient
scheme = 'bdf2'
solve_type = 'NEWTON'
num_steps = 2
dt = 1
[]
[Outputs]
exodus = true
[]
(modules/geochemistry/test/tests/kernels/time_deriv_2.i)
# A point-source is added to fluid in a material with spatially-varying porosity
# porosity * d(concentration)/dt = 3.0 * delta(x - 1.0)
# where delta is the Dirac delta function (a ConstantPointSource DiracKernel)
# The solution, at x = 1.0 is
# concentration = concentration_old + 3 * dt / porosity
# while concentration is unchanged elsewhere.
# Note that since GeochemistryTimeDerivative is mass-lumped, it produces this solution.
# If mass lumping had not been used, concentration would have decreased at x != 1.0
[Mesh]
type = GeneratedMesh
dim = 1
nx = 2
xmax = 2
[]
[Variables]
[conc]
[]
[]
[Kernels]
[dot]
type = GeochemistryTimeDerivative
porosity = porosity
variable = conc
[]
[]
[DiracKernels]
[source]
type = ConstantPointSource
point = '1.0 0 0'
variable = conc
value = 12.0
[]
[]
[ICs]
[conc]
type = FunctionIC
function = 'x * x'
variable = conc
[]
[]
[AuxVariables]
[porosity]
[]
[expected]
[]
[should_be_zero]
[]
[]
[AuxKernels]
[porosity]
type = FunctionAux
function = '6.0 + x'
variable = porosity
[]
[expected]
type = FunctionAux
function = 'if(x > 0.5 & x < 1.5, x * x + 2.0 * 12.0 / (6.0 + x), x * x)'
variable = expected
[]
[should_be_zero]
type = ParsedAux
args = 'expected conc'
function = 'expected - conc'
variable = should_be_zero
[]
[]
[Postprocessors]
[error]
type = NodalL2Norm
variable = should_be_zero
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 2
end_time = 2
[]
[Outputs]
csv = true
[]
(test/tests/bcs/mat_neumann_bc/ad_mat_neumann.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmax = 10
ymax = 10
nx = 10
ny = 10
[]
[Variables]
[./u]
[../]
[]
[AuxVariables]
[./phi]
[../]
[]
[ICs]
[./phi_IC]
type = FunctionIC
variable = phi
function = ic_func_phi
[../]
[]
[Functions]
[./ic_func_phi]
type = ParsedFunction
value = '0.5 * (1 - tanh((x - 5) / 0.8))'
[../]
[]
[BCs]
[./top]
type = ADMatNeumannBC
variable = u
boundary = top
value = 2
boundary_material = hm
[../]
[]
[Kernels]
[./dudt]
type = ADTimeDerivative
variable = u
[../]
[./diff]
type = ADDiffusion
variable = u
[../]
[]
[Materials]
[./hm]
type = ADParsedMaterial
f_name = hm
args = 'phi'
function = '3*phi^2 - 2*phi^3'
outputs = exodus
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
end_time = 10
[]
[Outputs]
exodus = true
[]
(test/tests/misc/check_error/missing_function_file_test.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = nonexistent_file #should generate error
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(tutorials/darcy_thermo_mech/step04_velocity_aux/tests/auxkernels/velocity_aux/velocity_aux.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
ny = 2
[]
[Variables]
[pressure]
[]
[]
[AuxVariables]
[velocity]
order = CONSTANT
family = MONOMIAL_VEC
[]
[]
[AuxKernels]
[velocity]
type = DarcyVelocity
variable = velocity
execute_on = timestep_end
pressure = pressure
[]
[]
[Functions]
[pressure_ic_func]
type = ParsedFunction
value = 2000*x*y*x*y
[]
[]
[ICs]
[pressure_ic]
type = FunctionIC
variable = pressure
function = pressure_ic_func
[]
[]
[Problem]
type = FEProblem
coord_type = RZ
rz_coord_axis = X
solve = false
[]
[Materials]
[pressure]
type = ADGenericConstantMaterial
prop_values = '0.8451e-9 7.98e-4'
prop_names = 'permeability viscosity'
[]
[]
[Executioner]
type = Steady
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Outputs]
exodus = true
[]
(test/tests/transfers/multiapp_vector_pp_transfer/master.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
ymin = 1
ymax = 2
[]
[Problem]
kernel_coverage_check = false
[]
[Variables]
[./u]
[../]
[]
[AuxVariables]
[./v]
[./InitialCondition]
type = FunctionIC
function = set_v
[../]
[../]
[]
[Functions]
[./set_v]
type = ParsedFunction
value = 'x + 2 * y'
[../]
[]
[VectorPostprocessors]
[./sample_points]
type = PointValueSampler
variable = v
points = '0.25 1.25 0 0.5 1.5 0'
sort_by = x
execute_on = 'initial timestep_end'
[../]
[./receive_values]
type = PointValueSampler
variable = v
points = '0.25 1.25 0 0.5 1.5 0'
sort_by = x
execute_on = initial
[../]
[]
[MultiApps]
[./sub]
type = TransientMultiApp
input_files = 'sub.i'
positions = '0.25 1.25 0 0.5 1.5 0'
max_procs_per_app = 1
[../]
[]
[Transfers]
[./send]
type = MultiAppVectorPostprocessorTransfer
vector_postprocessor = sample_points
postprocessor = receive
vector_name = v
direction = to_multiapp
multi_app = sub
[../]
[./receive]
type = MultiAppVectorPostprocessorTransfer
vector_postprocessor = receive_values
postprocessor = send
vector_name = v
direction = from_multiapp
multi_app = sub
[../]
[]
[Executioner]
type = Transient
nl_abs_tol = 1e-10
num_steps = 1
[]
[Outputs]
csv = true
[]
(modules/chemical_reactions/test/tests/aqueous_equilibrium/2species_without_action.i)
# Simple equilibrium reaction example to illustrate the use of the AqueousEquilibriumReactions
# action.
# In this example, two primary species a and b are transported by diffusion and convection
# from the left of the porous medium, reacting to form two equilibrium species pa2 and pab
# according to the equilibrium reaction specified in the AqueousEquilibriumReactions block as:
#
# reactions = '2a = pa2 2
# a + b = pab -2'
#
# where the 2 is the weight of the equilibrium species, the 2 on the RHS of the first reaction
# refers to the equilibrium constant (log10(Keq) = 2), and the -2 on the RHS of the second
# reaction equates to log10(Keq) = -2.
#
# This example is identical to 2species.i, except that it explicitly includes all AuxKernels
# and Kernels that are set up by the action in 2species.i
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
[]
[Variables]
[./a]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[../]
[./b]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = BoundingBoxIC
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[../]
[]
[AuxVariables]
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[./pa2]
[../]
[./pab]
[../]
[]
[AuxKernels]
[./pa2eq]
type = AqueousEquilibriumRxnAux
variable = pa2
v = a
sto_v = 2
log_k = 2
[../]
[./pabeq]
type = AqueousEquilibriumRxnAux
variable = pab
v = 'a b'
sto_v = '1 1'
log_k = -2
[../]
[]
[ICs]
[./pressure]
type = FunctionIC
variable = pressure
function = 2-x
[../]
[]
[Kernels]
[./a_ie]
type = PrimaryTimeDerivative
variable = a
[../]
[./a_diff]
type = PrimaryDiffusion
variable = a
[../]
[./a_conv]
type = PrimaryConvection
variable = a
p = pressure
[../]
[./b_ie]
type = PrimaryTimeDerivative
variable = b
[../]
[./b_diff]
type = PrimaryDiffusion
variable = b
[../]
[./b_conv]
type = PrimaryConvection
variable = b
p = pressure
[../]
[./a1eq]
type = CoupledBEEquilibriumSub
variable = a
log_k = 2
weight = 2
sto_u = 2
[../]
[./a1diff]
type = CoupledDiffusionReactionSub
variable = a
log_k = 2
weight = 2
sto_u = 2
[../]
[./a1conv]
type = CoupledConvectionReactionSub
variable = a
log_k = 2
weight = 2
sto_u = 2
p = pressure
[../]
[./a2eq]
type = CoupledBEEquilibriumSub
variable = a
v = b
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
[../]
[./a2diff]
type = CoupledDiffusionReactionSub
variable = a
v = b
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
[../]
[./a2conv]
type = CoupledConvectionReactionSub
variable = a
v = b
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
p = pressure
[../]
[./b2eq]
type = CoupledBEEquilibriumSub
variable = b
v = a
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
[../]
[./b2diff]
type = CoupledDiffusionReactionSub
variable = b
v = a
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
[../]
[./b2conv]
type = CoupledConvectionReactionSub
variable = b
v = a
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
p = pressure
[../]
[]
[BCs]
[./a_left]
type = DirichletBC
variable = a
boundary = left
value = 1.0e-2
[../]
[./a_right]
type = ChemicalOutFlowBC
variable = a
boundary = right
[../]
[./b_left]
type = DirichletBC
variable = b
boundary = left
value = 1.0e-2
[../]
[./b_right]
type = ChemicalOutFlowBC
variable = b
boundary = right
[../]
[]
[Materials]
[./porous]
type = GenericConstantMaterial
prop_names = 'diffusivity conductivity porosity'
prop_values = '1e-4 1e-4 0.2'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
nl_abs_tol = 1e-12
start_time = 0.0
end_time = 100
dt = 10.0
[]
[Outputs]
file_base = 2species_out
exodus = true
perf_graph = true
print_linear_residuals = true
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
(test/tests/misc/check_error/function_file_test15.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_rows_more_data.csv
xy_in_file_only = false
x_index_in_file = 3 # will generate an error because no forth row of data
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(test/tests/functions/image_function/error/check_error.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[u]
[]
[]
[Functions]
[tif]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = tif
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/level_set/test/tests/functions/olsson_plane/olsson_plane.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmax = 1
ymax = 1
nx = 100
ny = 100
elem_type = QUAD9
[]
[AuxVariables/phi]
family = LAGRANGE
order = FIRST
[]
[Functions/phi_exact]
type = LevelSetOlssonPlane
epsilon = 0.04
point = '0.5 0.5 0'
normal = '0 1 0'
[]
[ICs/phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[]
[Problem]
solve = false
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/theis/th_lumped_22.i)
# two-phase, fully-saturated
# production
# lumped
[Mesh]
type = FileMesh
file = th02_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1 2 4 20'
x = '0 1 10 100'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-5
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_pressure
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsLumpedMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsLumpedMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[DiracKernels]
[./bh]
type = RichardsPolyLineSink
pressures = '-1E9 1E9'
fluxes = '200 200'
point_file = th01.points
SumQuantityUO = total_outflow_mass
variable = pwater
[../]
[]
[Postprocessors]
[./flow_report]
type = RichardsPlotQuantity
uo = total_outflow_mass
[../]
[./p50]
type = PointValue
variable = pwater
point = '50 0 0'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E5
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
mat_porosity = 0.1
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
viscosity = '1E-3 1E-5'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason -ksp_diagonal_scale -ksp_diagonal_scale_fix -ksp_gmres_modifiedgramschmidt -snes_linesearch_monitor'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap -snes_atol -snes_rtol -snes_max_it -ksp_rtol -ksp_atol'
petsc_options_value = 'gmres asm lu NONZERO 2 2E-7 1E-10 20 1E-10 1E-100'
[../]
[]
[Executioner]
type = Transient
end_time = 100
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
execute_on = 'timestep_end'
file_base = th_lumped_22
exodus = true
csv = true
[]
(test/tests/ics/lagrange_ic/3d_second_order.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 5
ny = 5
nz = 5
elem_type = HEX27
[]
[Variables]
[./u]
order = SECOND
[../]
[]
[Functions]
[./afunc]
type = ParsedFunction
value = x^2
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Outputs]
exodus = true
[]
[ICs]
[./func_ic]
function = afunc
variable = u
type = FunctionIC
[../]
[]
(modules/richards/test/tests/uo_egs/seff1.i)
# Outputs a effective saturation relationship into an exodus file
# and into a CSV file.
# In the exodus file, the Seff will be a function of "x", and
# this "x" is actually porepressure
# In the CSV file you will find the Seff at the "x" point
# specified by you below.
#
# You may specify:
# - the "type" of Seff in the UserObjects block
# - the parameters of this Seff function in the UserObjects block
# - the "x" point (which is porepressure) that you want to extract
# the Seff at, if you want a value at a particular point
# - the range of "x" values (which is porepressure values) may be
# changed in the Mesh block, below
[UserObjects]
[./seff]
type = RichardsSeff1VG
al = 1E-6
m = 0.8
[../]
[]
[Postprocessors]
[./point_val]
type = PointValue
execute_on = timestep_begin
# note this point must lie inside the mesh below
point = '-1 0 0'
variable = seff
[../]
[]
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
# the following specify the range of porepressure
xmin = -3E6
xmax = 1E5
[]
############################
# You should not need to change any of the stuff below
############################
[Variables]
[./u]
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = x
[../]
[]
[AuxVariables]
[./seff]
[../]
[]
[AuxKernels]
[./seff_AuxK]
type = RichardsSeffAux
variable = seff
seff_UO = seff
execute_on = timestep_begin
pressure_vars = u
[../]
[]
[Kernels]
[./dummy]
type = Diffusion
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
num_steps = 0
[]
[Outputs]
file_base = seff1
[./csv]
type = CSV
[../]
[./exodus]
type = Exodus
hide = u
[../]
[]
(modules/porous_flow/test/tests/poroperm/linear_test_vals.i)
# Testing PorousFlowPorosityLinear produces correct values:
# porosity = porosity_ref + P_coeff * (P - P_ref) + T_coeff * (T - T_ref) + epv_coeff * (epv - epv_coeff)
# = 0.5 + 2 * (1 - 0.5) + 0.5 * (2 - -3) + 4 * (3 - 2.5)
# = 6
[GlobalParams]
PorousFlowDictator = dictator
[]
[Mesh]
[gmg]
type = GeneratedMeshGenerator
dim = 1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = pp
[]
[]
[Variables]
[pp]
initial_condition = 1
[]
[T]
initial_condition = 2
[]
[disp]
[]
[]
[ICs]
[disp]
type = FunctionIC
variable = disp
function = '3 * x'
[]
[]
[Kernels]
[pp]
type = TimeDerivative
variable = pp
[]
[T]
type = TimeDerivative
variable = T
[]
[disp]
type = TimeDerivative
variable = disp
[]
[]
[AuxVariables]
[porosity]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[porosity]
type = PorousFlowPropertyAux
variable = porosity
property = porosity
[]
[]
[Postprocessors]
[porosity]
type = PointValue
point = '0 0 0'
variable = porosity
[]
[]
[Materials]
[ps]
type = PorousFlow1PhaseFullySaturated
porepressure = pp
[]
[temperature]
type = PorousFlowTemperature
temperature = T
[]
[pf]
type = PorousFlowEffectiveFluidPressure
[]
[total_strain]
type = ComputeSmallStrain
displacements = disp
[]
[volstrain]
type = PorousFlowVolumetricStrain
displacements = disp
[]
[porosity]
type = PorousFlowPorosityLinear
porosity_ref = 0.5
P_ref = 0.5
P_coeff = 2.0
T_ref = -3.0
T_coeff = 0.5
epv_ref = 2.5
epv_coeff = 4.0
[]
[]
[Executioner]
type = Transient
dt = 1
num_steps = 1
[]
[Outputs]
csv = true
[]
(modules/richards/test/tests/dirac/bh_fu_05.i)
# unsaturated
# injection
# fullyupwind
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '500 500 1E1'
x = '4000 5000 6500'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 0
point_file = bh03.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = -1
fully_upwind = true
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = -2E5
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 6500
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
file_base = bh_fu_05
exodus = false
csv = true
execute_on = timestep_end
[]
(modules/porous_flow/examples/multiapp_fracture_flow/3dFracture/fracture_only_aperture_changing.i)
# Cold water injection into one side of the fracture network, and production from the other side
injection_rate = 10 # kg/s
[Mesh]
uniform_refine = 0
[cluster34]
type = FileMeshGenerator
file = 'Cluster_34.exo'
[]
[injection_node]
type = BoundingBoxNodeSetGenerator
input = cluster34
bottom_left = '-1000 0 -1000'
top_right = '1000 0.504 1000'
new_boundary = injection_node
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 -9.81E-6' # Note the value, because of pressure_unit
[]
[Variables]
[frac_P]
scaling = 1E6
[]
[frac_T]
initial_condition = 473
[]
[]
[ICs]
[frac_P]
type = FunctionIC
variable = frac_P
function = insitu_pp
[]
[]
[PorousFlowFullySaturated]
coupling_type = ThermoHydro
porepressure = frac_P
temperature = frac_T
fp = water
pressure_unit = MPa
[]
[Kernels]
[toMatrix]
type = PorousFlowHeatMassTransfer
variable = frac_T
v = transferred_matrix_T
transfer_coefficient = heat_transfer_coefficient
save_in = joules_per_s
[]
[]
[AuxVariables]
[heat_transfer_coefficient]
family = MONOMIAL
order = CONSTANT
initial_condition = 0.0
[]
[transferred_matrix_T]
initial_condition = 473
[]
[joules_per_s]
[]
[normal_dirn_x]
family = MONOMIAL
order = CONSTANT
[]
[normal_dirn_y]
family = MONOMIAL
order = CONSTANT
[]
[normal_dirn_z]
family = MONOMIAL
order = CONSTANT
[]
[enclosing_element_normal_length]
family = MONOMIAL
order = CONSTANT
[]
[enclosing_element_normal_thermal_cond]
family = MONOMIAL
order = CONSTANT
[]
[aperture]
family = MONOMIAL
order = CONSTANT
[]
[perm_times_app]
family = MONOMIAL
order = CONSTANT
[]
[density]
family = MONOMIAL
order = CONSTANT
[]
[viscosity]
family = MONOMIAL
order = CONSTANT
[]
[insitu_pp]
[]
[]
[AuxKernels]
[normal_dirn_x_auxk]
type = PorousFlowElementNormal
variable = normal_dirn_x
component = x
[]
[normal_dirn_y]
type = PorousFlowElementNormal
variable = normal_dirn_y
component = y
[]
[normal_dirn_z]
type = PorousFlowElementNormal
variable = normal_dirn_z
component = z
[]
[heat_transfer_coefficient_auxk]
type = ParsedAux
variable = heat_transfer_coefficient
args = 'enclosing_element_normal_length enclosing_element_normal_thermal_cond'
constant_names = h_s
constant_expressions = 1E3 # should be much bigger than thermal_conductivity / L ~ 1
function = 'if(enclosing_element_normal_length = 0, 0, h_s * enclosing_element_normal_thermal_cond * 2 * enclosing_element_normal_length / (h_s * enclosing_element_normal_length * enclosing_element_normal_length + enclosing_element_normal_thermal_cond * 2 * enclosing_element_normal_length))'
[]
[aperture]
type = PorousFlowPropertyAux
variable = aperture
property = porosity
[]
[perm_times_app]
type = PorousFlowPropertyAux
variable = perm_times_app
property = permeability
row = 0
column = 0
[]
[density]
type = PorousFlowPropertyAux
variable = density
property = density
phase = 0
[]
[viscosity]
type = PorousFlowPropertyAux
variable = viscosity
property = viscosity
phase = 0
[]
[insitu_pp]
type = FunctionAux
execute_on = initial
variable = insitu_pp
function = insitu_pp
[]
[]
[BCs]
[inject_heat]
type = DirichletBC
boundary = injection_node
variable = frac_T
value = 373
[]
[]
[DiracKernels]
[inject_fluid]
type = PorousFlowPointSourceFromPostprocessor
mass_flux = ${injection_rate}
point = '58.8124 0.50384 74.7838'
variable = frac_P
[]
[withdraw_fluid]
type = PorousFlowPeacemanBorehole
SumQuantityUO = kg_out_uo
bottom_p_or_t = 10.6 # 1MPa + approx insitu at production point, to prevent aperture closing due to low porepressures
character = 1
line_length = 1
point_file = production.xyz
unit_weight = '0 0 0'
fluid_phase = 0
use_mobility = true
variable = frac_P
[]
[withdraw_heat]
type = PorousFlowPeacemanBorehole
SumQuantityUO = J_out_uo
bottom_p_or_t = 10.6 # 1MPa + approx insitu at production point, to prevent aperture closing due to low porepressures
character = 1
line_length = 1
point_file = production.xyz
unit_weight = '0 0 0'
fluid_phase = 0
use_mobility = true
use_enthalpy = true
variable = frac_T
[]
[]
[UserObjects]
[kg_out_uo]
type = PorousFlowSumQuantity
[]
[J_out_uo]
type = PorousFlowSumQuantity
[]
[]
[Modules]
[FluidProperties]
[true_water]
type = Water97FluidProperties
[]
[water]
type = TabulatedFluidProperties
fp = true_water
temperature_min = 275 # K
temperature_max = 600
interpolated_properties = 'density viscosity enthalpy internal_energy'
fluid_property_file = water97_tabulated.csv
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosityLinear
porosity_ref = 1E-4 # fracture porosity = 1.0, but must include fracture aperture of 1E-4 at P = insitu_pp
P_ref = insitu_pp
P_coeff = 1E-3 # this is in metres/MPa, ie for P_ref = 1/P_coeff, the aperture becomes 1 metre
porosity_min = 1E-5
[]
[permeability]
type = PorousFlowPermeabilityKozenyCarman
k0 = 1E-15 # fracture perm = 1E-11 m^2, but must include fracture aperture of 1E-4
poroperm_function = kozeny_carman_phi0
m = 0
n = 3
phi0 = 1E-4
[]
[internal_energy]
type = PorousFlowMatrixInternalEnergy
density = 2700 # kg/m^3
specific_heat_capacity = 0 # basically no rock inside the fracture
[]
[aq_thermal_conductivity]
type = PorousFlowThermalConductivityIdeal
dry_thermal_conductivity = '0.6E-4 0 0 0 0.6E-4 0 0 0 0.6E-4' # thermal conductivity of water times fracture aperture. This should increase linearly with aperture, but is set constant in this model
[]
[]
[Functions]
[kg_rate]
type = ParsedFunction
vals = 'dt kg_out'
vars = 'dt kg_out'
value = 'kg_out/dt'
[]
[insitu_pp]
type = ParsedFunction
value = '10 - 0.847E-2 * z' # Approximate hydrostatic in MPa
[]
[]
[Postprocessors]
[dt]
type = TimestepSize
outputs = 'none'
[]
[kg_out]
type = PorousFlowPlotQuantity
uo = kg_out_uo
[]
[kg_per_s]
type = FunctionValuePostprocessor
function = kg_rate
[]
[J_out]
type = PorousFlowPlotQuantity
uo = J_out_uo
[]
[TK_out]
type = PointValue
variable = frac_T
point = '101.705 160.459 39.5722'
[]
[P_out]
type = PointValue
variable = frac_P
point = '101.705 160.459 39.5722'
[]
[P_in]
type = PointValue
variable = frac_P
point = '58.8124 0.50384 74.7838'
[]
[]
[VectorPostprocessors]
[heat_transfer_rate]
type = NodalValueSampler
outputs = none
sort_by = id
variable = joules_per_s
[]
[]
[Preconditioning]
[entire_jacobian]
type = SMP
full = true
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2 '
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
[TimeStepper]
type = IterationAdaptiveDT
dt = 1
optimal_iterations = 10
growth_factor = 1.5
timestep_limiting_postprocessor = 1E8
[]
end_time = 1E8
nl_abs_tol = 1E-3
nl_max_its = 20
[]
[Outputs]
print_linear_residuals = false
csv = true
[ex]
type = Exodus
sync_times = '1 10 100 200 300 400 500 600 700 800 900 1000 1100 1200 1300 1400 1500 1600 1700 1800 1900 2000 2100 2200 2300 2400 2500 2600 2700 2800 2900 3000 3100 3200 3300 3400 3500 3600 3700 3800 3900 4000 4100 4200 4300 4400 4500 4600 4700 4800 4900 5000 5100 5200 5300 5400 5500 5600 5700 5800 5900 6000 6100 6200 6300 6400 6500 6600 6700 6800 6900 7000 7100 7200 7300 7400 7500 7600 7700 7800 7900 8000 8100 8200 8300 8400 8500 8600 8700 8800 8900 9000 10000 11000 12000 13000 14000 15000 16000 17000 18000 19000 20000 30000 50000 70000 100000 200000 300000 400000 500000 600000 700000 800000 900000 1000000 1100000 1200000 1300000 1400000 1500000 1600000 1700000 1800000 1900000 2000000 2100000 2200000 2300000 2400000 2500000 2600000 2700000 2800000 2900000'
sync_only = true
[]
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_2D_trimesh.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek, with antidiffusion from superbee flux limiting
# 2D version
[Mesh]
type = FileMesh
file = trimesh.msh
[]
[GlobalParams]
block = '50'
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.305,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '0.1 0 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0.04 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
timestep_tolerance = 1E-3
[]
[Outputs]
print_linear_residuals = false
[out]
type = CSV
execute_on = final
[]
[]
(test/tests/auxkernels/diffusion_flux/normal_diffusion_flux.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
xmax = 1.0
ymax = 1.0
[]
[Variables]
[./dummy]
[../]
[]
[AuxVariables]
[./T]
[../]
[./flux_n]
order = CONSTANT
family = MONOMIAL
[../]
[]
[Functions]
[./T]
type = ParsedFunction
value = 'x*x*y*y+1'
[../]
[]
[ICs]
[./T]
type = FunctionIC
variable = T
function = T
[../]
[]
[Kernels]
[./dummy]
type = Diffusion
variable = dummy
[../]
[]
[AuxKernels]
[./flux_n]
type = DiffusionFluxAux
diffusivity = 'thermal_conductivity'
variable = flux_n
diffusion_variable = T
component = normal
boundary = 'left right'
check_boundary_restricted = false
[../]
[]
[Materials]
[./k]
type = GenericConstantMaterial
prop_names = 'thermal_conductivity'
prop_values = '10'
[../]
[]
[Postprocessors]
[flux_right]
type = SideIntegralVariablePostprocessor
variable = flux_n
boundary = 'right'
[]
[flux_right_exact]
type = SideFluxIntegral
variable = T
diffusivity = 'thermal_conductivity'
boundary = 'right'
[]
[flux_left]
type = SideIntegralVariablePostprocessor
variable = flux_n
boundary = 'left'
[]
[flux_left_exact]
type = SideFluxIntegral
variable = T
diffusivity = 'thermal_conductivity'
boundary = 'left'
[]
[]
[Executioner]
type = Steady
solve_type = PJFNK
nl_rel_tol = 1e-12
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Outputs]
exodus = true
hide = 'dummy'
[]
(modules/porous_flow/examples/groundwater/ex02_abstraction.i)
# Abstraction groundwater model. See groundwater_models.md for a detailed description
[Mesh]
[from_steady_state]
type = FileMeshGenerator
file = gold/ex02_steady_state_ex.e
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = steady_state_pp
[]
[]
[BCs]
[rainfall_recharge]
type = PorousFlowSink
boundary = zmax
variable = pp
flux_function = -1E-6 # recharge of 0.1mm/day = 1E-4m3/m2/day = 0.1kg/m2/day ~ 1E-6kg/m2/s
[]
[evapotranspiration]
type = PorousFlowHalfCubicSink
boundary = zmax
variable = pp
center = 0.0
cutoff = -5E4 # roots of depth 5m. 5m of water = 5E4 Pa
use_mobility = true
fluid_phase = 0
# Assume pan evaporation of 4mm/day = 4E-3m3/m2/day = 4kg/m2/day ~ 4E-5kg/m2/s
# Assume that if permeability was 1E-10m^2 and water table at topography then ET acts as pan strength
# Because use_mobility = true, then 4E-5 = maximum_flux = max * perm * density / visc = max * 1E-4, so max = 40
max = 40
[]
[]
[DiracKernels]
inactive = polyline_sink_borehole
[river]
type = PorousFlowPolyLineSink
SumQuantityUO = baseflow
point_file = ex02_river.bh
# Assume a perennial river.
# Assume the river has an incision depth of 1m and a stage height of 1.5m, and these are constant in time and uniform over the whole model. Hence, if groundwater head is 0.5m (5000Pa) there will be no baseflow and leakage.
p_or_t_vals = '-999995000 5000 1000005000'
# Assume the riverbed conductance, k_zz*density*river_segment_length*river_width/riverbed_thickness/viscosity = 1E-6*river_segment_length kg/Pa/s
fluxes = '-1E3 0 1E3'
variable = pp
[]
[horizontal_borehole]
type = PorousFlowPeacemanBorehole
SumQuantityUO = abstraction
bottom_p_or_t = -1E5
unit_weight = '0 0 -1E4'
character = 1.0
point_file = ex02.bh
variable = pp
[]
[polyline_sink_borehole]
type = PorousFlowPolyLineSink
SumQuantityUO = abstraction
fluxes = '-0.4 0 0.4'
p_or_t_vals = '-1E8 0 1E8'
point_file = ex02.bh
variable = pp
[]
[]
[Functions]
[steady_state_pp]
type = SolutionFunction
from_variable = pp
solution = steady_state_solution
[]
[baseflow_rate]
type = ParsedFunction
vars = 'baseflow_kg dt'
vals = 'baseflow_kg dt'
value = 'baseflow_kg / dt * 24.0 * 3600.0 / 400.0'
[]
[abstraction_rate]
type = ParsedFunction
vars = 'abstraction_kg dt'
vals = 'abstraction_kg dt'
value = 'abstraction_kg / dt * 24.0 * 3600.0'
[]
[]
[AuxVariables]
[ini_pp]
[]
[pp_change]
[]
[]
[AuxKernels]
[ini_pp]
type = FunctionAux
variable = ini_pp
function = steady_state_pp
execute_on = INITIAL
[]
[pp_change]
type = ParsedAux
variable = pp_change
args = 'pp ini_pp'
function = 'pp - ini_pp'
[]
[]
[PorousFlowUnsaturated]
fp = simple_fluid
porepressure = pp
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
[]
[]
[]
[Materials]
[porosity_everywhere]
type = PorousFlowPorosityConst
porosity = 0.05
[]
[permeability_aquifers]
type = PorousFlowPermeabilityConst
block = 'top_aquifer bot_aquifer'
permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-13'
[]
[permeability_aquitard]
type = PorousFlowPermeabilityConst
block = aquitard
permeability = '1E-16 0 0 0 1E-16 0 0 0 1E-17'
[]
[]
[UserObjects]
[steady_state_solution]
type = SolutionUserObject
execute_on = INITIAL
mesh = gold/ex02_steady_state_ex.e
timestep = LATEST
system_variables = pp
[]
[baseflow]
type = PorousFlowSumQuantity
[]
[abstraction]
type = PorousFlowSumQuantity
[]
[]
[Postprocessors]
[baseflow_kg]
type = PorousFlowPlotQuantity
uo = baseflow
outputs = 'none'
[]
[dt]
type = TimestepSize
outputs = 'none'
[]
[baseflow_l_per_m_per_day]
type = FunctionValuePostprocessor
function = baseflow_rate
[]
[abstraction_kg]
type = PorousFlowPlotQuantity
uo = abstraction
outputs = 'none'
[]
[abstraction_kg_per_day]
type = FunctionValuePostprocessor
function = abstraction_rate
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
# following 2 lines are not mandatory, but illustrate a popular preconditioner choice in groundwater models
petsc_options_iname = '-pc_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = ' asm ilu 2 '
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 100
[TimeStepper]
type = FunctionDT
function = 'max(100, t)'
[]
end_time = 8.64E5 # 10 days
nl_abs_tol = 1E-11
[]
[Outputs]
print_linear_residuals = false
[ex]
type = Exodus
execute_on = final
[]
[csv]
type = CSV
[]
[]
(test/tests/functions/image_function/component.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
component = 0
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/level_set/examples/rotating_circle/circle_rotate_master.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 32
ny = 32
uniform_refine = 2
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[Variables]
[./phi]
[../]
[]
[BCs]
[./all]
type = DirichletBC
variable = phi
boundary = 'top bottom left right'
value = 0
[../]
[]
[Functions]
[./phi_exact]
type = LevelSetOlssonBubble
epsilon = 0.03
center = '0 0.5 0'
radius = 0.15
[../]
[./velocity_func]
type = ParsedVectorFunction
value_x = '4*y'
value_y = '-4*x'
[../]
[]
[ICs]
[./phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[../]
[./vel_ic]
type = VectorFunctionIC
variable = velocity
function = velocity_func
[]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./advection]
type = LevelSetAdvection
velocity = velocity
variable = phi
[../]
[]
[Postprocessors]
[./area]
type = LevelSetVolume
threshold = 0.5
variable = phi
location = outside
execute_on = 'initial timestep_end'
[../]
[./cfl]
type = LevelSetCFLCondition
velocity = velocity
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
start_time = 0
end_time = 1.570796
scheme = crank-nicolson
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
[./TimeStepper]
type = PostprocessorDT
postprocessor = cfl
scale = 0.8
[../]
[]
[MultiApps]
[./reinit]
type = LevelSetReinitializationMultiApp
input_files = 'circle_rotate_sub.i'
execute_on = 'timestep_end'
[../]
[]
[Transfers]
[./to_sub]
type = MultiAppCopyTransfer
source_variable = phi
variable = phi
direction = to_multiapp
multi_app = reinit
execute_on = 'timestep_end'
[../]
[./to_sub_init]
type = MultiAppCopyTransfer
source_variable = phi
variable = phi_0
direction = to_multiapp
multi_app = reinit
execute_on = 'timestep_end'
[../]
[./from_sub]
type = MultiAppCopyTransfer
source_variable = phi
variable = phi
direction = from_multiapp
multi_app = reinit
execute_on = 'timestep_end'
[../]
[]
[Outputs]
csv = true
exodus = true
[]
(modules/heat_conduction/test/tests/verify_against_analytical/ad_1D_transient.i)
# This test solves a 1D transient heat equation
# The error is caclulated by comparing to the analytical solution
# The problem setup and analytical solution are taken from "Advanced Engineering
# Mathematics, 10th edition" by Erwin Kreyszig.
# http://www.amazon.com/Advanced-Engineering-Mathematics-Erwin-Kreyszig/dp/0470458364
# It is Example 1 in section 12.6 on page 561
[Mesh]
type = GeneratedMesh
dim = 1
nx = 160
xmax = 80
[]
[Variables]
[./T]
[../]
[]
[ICs]
[./T_IC]
type = FunctionIC
variable = T
function = '100*sin(pi*x/80)'
[../]
[]
[Kernels]
[./HeatDiff]
type = ADHeatConduction
variable = T
[../]
[./HeatTdot]
type = ADHeatConductionTimeDerivative
variable = T
[../]
[]
[BCs]
[./sides]
type = DirichletBC
variable = T
boundary = 'left right'
value = 0
[../]
[]
[Materials]
[./k]
type = ADGenericConstantMaterial
prop_names = 'thermal_conductivity'
prop_values = '0.95' #copper in cal/(cm sec C)
[../]
[./cp]
type = ADGenericConstantMaterial
prop_names = 'specific_heat'
prop_values = '0.092' #copper in cal/(g C)
[../]
[./rho]
type = ADGenericConstantMaterial
prop_names = 'density'
prop_values = '8.92' #copper in g/(cm^3)
[../]
[]
[Postprocessors]
[./error]
type = NodalL2Error
function = '100*sin(pi*x/80)*exp(-0.95/(0.092*8.92)*pi^2/80^2*t)'
variable = T
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
l_tol = 1e-6
dt = 2
end_time = 100
[]
[Outputs]
exodus = true
[]
(test/tests/bcs/coupled_var_neumann/on_off.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = 0
xmax = 1
ymin = 0
ymax = 1
nx = 10
ny = 10
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[AuxVariables]
[./coupled_bc_var]
[../]
[./active]
initial_condition = 1
[../]
[]
[AuxKernels]
[./active_right]
type = ConstantAux
variable = active
value = 0.5
boundary = 1
[../]
[]
[ICs]
[./coupled_bc_var]
type = FunctionIC
variable = coupled_bc_var
function = set_coupled_bc_var
[../]
[]
[Functions]
[./set_coupled_bc_var]
type = ParsedFunction
value = 'y - 0.5'
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = CoupledVarNeumannBC
variable = u
boundary = 1
v = coupled_bc_var
scale_factor = active
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(modules/combined/test/tests/multiphase_mechanics/twophasestress.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
xmin = 0
xmax = 2
ymin = 0
ymax = 2
elem_type = QUAD4
[]
[GlobalParams]
displacements = 'disp_x disp_y'
[]
[Variables]
[./disp_x]
[../]
[./disp_y]
[../]
[]
[AuxVariables]
[./eta]
[./InitialCondition]
type = FunctionIC
function = 'x/2'
[../]
[../]
[./e11_aux]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./matl_e11]
type = RankTwoAux
rank_two_tensor = stress
index_i = 0
index_j = 0
variable = e11_aux
[../]
[]
[Kernels]
[./TensorMechanics]
[../]
[]
[Materials]
[./elasticity_tensor_A]
type = ComputeElasticityTensor
base_name = A
fill_method = symmetric9
C_ijkl = '1e6 1e5 1e5 1e6 0 1e6 .4e6 .2e6 .5e6'
[../]
[./strain_A]
type = ComputeSmallStrain
base_name = A
eigenstrain_names = eigenstrain
[../]
[./stress_A]
type = ComputeLinearElasticStress
base_name = A
[../]
[./eigenstrain_A]
type = ComputeEigenstrain
base_name = A
eigen_base = '0.1 0.05 0 0 0 0.01'
prefactor = -1
eigenstrain_name = eigenstrain
[../]
[./elasticity_tensor_B]
type = ComputeElasticityTensor
base_name = B
fill_method = symmetric9
C_ijkl = '1e6 0 0 1e6 0 1e6 .5e6 .5e6 .5e6'
[../]
[./strain_B]
type = ComputeSmallStrain
base_name = B
eigenstrain_names = 'B_eigenstrain'
[../]
[./stress_B]
type = ComputeLinearElasticStress
base_name = B
[../]
[./eigenstrain_B]
type = ComputeEigenstrain
base_name = B
eigen_base = '0.1 0.05 0 0 0 0.01'
prefactor = -1
eigenstrain_name = 'B_eigenstrain'
[../]
[./switching]
type = SwitchingFunctionMaterial
eta = eta
[../]
[./combined]
type = TwoPhaseStressMaterial
base_A = A
base_B = B
[../]
[]
[BCs]
[./bottom_y]
type = DirichletBC
variable = disp_y
boundary = 'bottom'
value = 0
[../]
[./left_x]
type = DirichletBC
variable = disp_x
boundary = 'left'
value = 0
[../]
[]
[Preconditioning]
[./SMP]
type = SMP
full = true
[../]
[]
[Executioner]
type = Steady
solve_type = 'NEWTON'
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
(modules/combined/examples/periodic_strain/global_strain_pfm.i)
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 50
ny = 50
xmin = -0.5
xmax = 0.5
ymin = -0.5
ymax = 0.5
[]
[./cnode]
input = gen
type = ExtraNodesetGenerator
coord = '0.0 0.0'
new_boundary = 100
[../]
[]
[Variables]
[./u_x]
[../]
[./u_y]
[../]
[./global_strain]
order = THIRD
family = SCALAR
[../]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'sin(2*x*pi)*sin(2*y*pi)*0.05+0.6'
[../]
[../]
[./w]
[../]
[]
[AuxVariables]
[./local_energy]
order = CONSTANT
family = MONOMIAL
[../]
[./disp_x]
[../]
[./disp_y]
[../]
[./s00]
order = CONSTANT
family = MONOMIAL
[../]
[./s01]
order = CONSTANT
family = MONOMIAL
[../]
[./s10]
order = CONSTANT
family = MONOMIAL
[../]
[./s11]
order = CONSTANT
family = MONOMIAL
[../]
[./e00]
order = CONSTANT
family = MONOMIAL
[../]
[./e01]
order = CONSTANT
family = MONOMIAL
[../]
[./e10]
order = CONSTANT
family = MONOMIAL
[../]
[./e11]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./disp_x]
type = GlobalDisplacementAux
variable = disp_x
scalar_global_strain = global_strain
global_strain_uo = global_strain_uo
component = 0
[../]
[./disp_y]
type = GlobalDisplacementAux
variable = disp_y
scalar_global_strain = global_strain
global_strain_uo = global_strain_uo
component = 1
[../]
[./local_free_energy]
type = TotalFreeEnergy
execute_on = 'initial LINEAR'
variable = local_energy
interfacial_vars = 'c'
kappa_names = 'kappa_c'
[../]
[./s00]
type = RankTwoAux
variable = s00
rank_two_tensor = stress
index_i = 0
index_j = 0
[../]
[./s01]
type = RankTwoAux
variable = s01
rank_two_tensor = stress
index_i = 0
index_j = 1
[../]
[./s10]
type = RankTwoAux
variable = s10
rank_two_tensor = stress
index_i = 1
index_j = 0
[../]
[./s11]
type = RankTwoAux
variable = s11
rank_two_tensor = stress
index_i = 1
index_j = 1
[../]
[./e00]
type = RankTwoAux
variable = e00
rank_two_tensor = total_strain
index_i = 0
index_j = 0
[../]
[./e01]
type = RankTwoAux
variable = e01
rank_two_tensor = total_strain
index_i = 0
index_j = 1
[../]
[./e10]
type = RankTwoAux
variable = e10
rank_two_tensor = total_strain
index_i = 1
index_j = 0
[../]
[./e11]
type = RankTwoAux
variable = e11
rank_two_tensor = total_strain
index_i = 1
index_j = 1
[../]
[]
[GlobalParams]
derivative_order = 2
enable_jit = true
displacements = 'u_x u_y'
block = 0
[]
[Kernels]
[./TensorMechanics]
[../]
# Cahn-Hilliard kernels
[./c_dot]
type = CoupledTimeDerivative
variable = w
v = c
block = 0
[../]
[./c_res]
type = SplitCHParsed
variable = c
f_name = F
kappa_name = kappa_c
w = w
block = 0
[../]
[./w_res]
type = SplitCHWRes
variable = w
mob_name = M
block = 0
[../]
[]
[ScalarKernels]
[./global_strain]
type = GlobalStrain
variable = global_strain
global_strain_uo = global_strain_uo
[../]
[]
[BCs]
[./Periodic]
[./all]
auto_direction = 'x y'
variable = 'c w u_x u_y'
[../]
[../]
# fix center point location
[./centerfix_x]
type = DirichletBC
boundary = 100
variable = u_x
value = 0
[../]
[./centerfix_y]
type = DirichletBC
boundary = 100
variable = u_y
value = 0
[../]
[]
[Materials]
[./consts]
type = GenericConstantMaterial
prop_names = 'M kappa_c'
prop_values = '0.2 0.01 '
[../]
[./shear1]
type = GenericConstantRankTwoTensor
tensor_values = '0 0 0 0 0 0.5'
tensor_name = shear1
[../]
[./shear2]
type = GenericConstantRankTwoTensor
tensor_values = '0 0 0 0 0 -0.5'
tensor_name = shear2
[../]
[./expand3]
type = GenericConstantRankTwoTensor
tensor_values = '1 1 0 0 0 0'
tensor_name = expand3
[../]
[./weight1]
type = DerivativeParsedMaterial
function = '0.3*c^2'
f_name = weight1
args = c
[../]
[./weight2]
type = DerivativeParsedMaterial
function = '0.3*(1-c)^2'
f_name = weight2
args = c
[../]
[./weight3]
type = DerivativeParsedMaterial
function = '4*(0.5-c)^2'
f_name = weight3
args = c
[../]
[./elasticity_tensor]
type = ComputeElasticityTensor
C_ijkl = '1 1'
fill_method = symmetric_isotropic
[../]
[./strain]
type = ComputeSmallStrain
global_strain = global_strain
eigenstrain_names = eigenstrain
[../]
[./eigenstrain]
type = CompositeEigenstrain
tensors = 'shear1 shear2 expand3'
weights = 'weight1 weight2 weight3'
args = c
eigenstrain_name = eigenstrain
[../]
[./global_strain]
type = ComputeGlobalStrain
scalar_global_strain = global_strain
global_strain_uo = global_strain_uo
[../]
[./stress]
type = ComputeLinearElasticStress
[../]
# chemical free energies
[./chemical_free_energy]
type = DerivativeParsedMaterial
f_name = Fc
function = '4*c^2*(1-c)^2'
args = 'c'
outputs = exodus
output_properties = Fc
[../]
# elastic free energies
[./elastic_free_energy]
type = ElasticEnergyMaterial
f_name = Fe
args = 'c'
outputs = exodus
output_properties = Fe
[../]
# free energy (chemical + elastic)
[./free_energy]
type = DerivativeSumMaterial
block = 0
f_name = F
sum_materials = 'Fc Fe'
args = 'c'
[../]
[]
[UserObjects]
[./global_strain_uo]
type = GlobalStrainUserObject
execute_on = 'Initial Linear Nonlinear'
[../]
[]
[Postprocessors]
[./total_free_energy]
type = ElementIntegralVariablePostprocessor
execute_on = 'initial TIMESTEP_END'
variable = local_energy
[../]
[./total_solute]
type = ElementIntegralVariablePostprocessor
execute_on = 'initial TIMESTEP_END'
variable = c
[../]
[./min]
type = ElementExtremeValue
execute_on = 'initial TIMESTEP_END'
value_type = min
variable = c
[../]
[./max]
type = ElementExtremeValue
execute_on = 'initial TIMESTEP_END'
value_type = max
variable = c
[../]
[]
[Preconditioning]
[./SMP]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
scheme = bdf2
solve_type = 'PJFNK'
line_search = basic
petsc_options_iname = '-pc_type -ksp_gmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
l_max_its = 30
nl_max_its = 12
l_tol = 1.0e-4
nl_rel_tol = 1.0e-8
nl_abs_tol = 1.0e-10
start_time = 0.0
end_time = 2.0
[./TimeStepper]
type = IterationAdaptiveDT
dt = 0.01
growth_factor = 1.5
cutback_factor = 0.8
optimal_iterations = 9
iteration_window = 2
[../]
[]
[Outputs]
execute_on = 'timestep_end'
print_linear_residuals = false
exodus = true
[./table]
type = CSV
delimiter = ' '
[../]
[]
(modules/combined/test/tests/GBDependentTensors/gb_property.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 50
ny = 2
xmin = 0
xmax = 10
ymin = 0
ymax = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);0.1+0.1*v'
[../]
[../]
[./mu]
[../]
[]
[AuxVariables]
[./gb]
family = LAGRANGE
order = FIRST
[../]
[./mobility_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./mobility_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./diffusivity_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./diffusivity_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./aniso_tensor_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./aniso_tensor_yy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Kernels]
[./conc]
type = CHSplitConcentration
variable = c
mobility = mobility_prop
chemical_potential_var = mu
[../]
[./chempot]
type = CHSplitChemicalPotential
variable = mu
chemical_potential_prop = mu_prop
c = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[]
[AuxKernels]
[./gb]
type = FunctionAux
variable = gb
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);v'
[../]
[./mobility_xx]
type = MaterialRealTensorValueAux
variable = mobility_xx
property = mobility_prop
row = 0
column = 0
[../]
[./mobility_yy]
type = MaterialRealTensorValueAux
variable = mobility_yy
property = mobility_prop
row = 1
column = 1
[../]
[./diffusivity_xx]
type = MaterialRealTensorValueAux
variable = diffusivity_xx
property = diffusivity
row = 0
column = 0
[../]
[./diffusivity_yy]
type = MaterialRealTensorValueAux
variable = diffusivity_yy
property = diffusivity
row = 1
column = 1
[../]
[./aniso_tensor_xx]
type = MaterialRealTensorValueAux
variable = aniso_tensor_xx
property = aniso_tensor
row = 0
column = 0
[../]
[./aniso_tensor_yy]
type = MaterialRealTensorValueAux
variable = aniso_tensor_yy
property = aniso_tensor
row = 1
column = 1
[../]
[]
[Materials]
[./chemical_potential]
type = DerivativeParsedMaterial
block = 0
f_name = mu_prop
args = c
function = 'c'
derivative_order = 1
[../]
[./var_dependence]
type = DerivativeParsedMaterial
block = 0
function = 'c*(1.0-c)'
args = c
f_name = var_dep
derivative_order = 1
[../]
[./mobility]
type = CompositeMobilityTensor
block = 0
M_name = mobility_prop
tensors = diffusivity
weights = var_dep
args = c
[../]
[./phase_normal]
type = PhaseNormalTensor
phase = gb
normal_tensor_name = gb_normal
[../]
[./aniso_tensor]
type = GBDependentAnisotropicTensor
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = aniso_tensor
[../]
[./diffusivity]
type = GBDependentDiffusivity
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = diffusivity
[../]
[]
[BCs]
[./Periodic]
[./all]
auto_direction = 'x y'
[../]
[../]
[]
[Executioner]
type = Transient
num_steps = 5
dt = 20
solve_type = PJFNK
petsc_options_iname = '-pc_type -ksp_grmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
l_tol = 1e-3
l_max_its = 20
nl_max_its = 5
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/jacobian_03.i)
# Checking the Jacobian of Flux-Limited TVD Advection, using flux_limiter_type = vanleer
#
# The initial conditions are u=x. This means that the argument of the flux limiter is 1, so that
# the flux_limiter=1 everywhere, irrespective of flux_limiter_type (except for 'none'). However
# superbee and minmod are nondifferentiable at this point, so using those flux_limiter_type will
# result in a poor Jacobian
#
# Here we use snes_check_jacobian instead of snes_type=test. The former just checks the Jacobian for the
# random initial conditions, while the latter checks for u=1 and u=-1
#
# The Jacobian is correct for u=1 and u=-1, but the finite-difference scheme used by snes_type=test gives the
# wrong answer.
# For u=1, the Kuzmin-Turek scheme adds as much antidiffusion as possible, resulting in a central-difference
# version of advection (flux_limiter = 1). This is correct, and the Jacobian is calculated correctly.
# However, when computing the Jacobian using finite differences, u is increased or decreased at a node.
# This results in that node being at a maximum or minimum, which means no antidiffusion should be added
# (flux_limiter = 0). This corresponds to a full-upwind scheme. So the finite-difference computes the
# Jacobian in the full-upwind scenario, which is incorrect (the original residual = 0, after finite-differencing
# the residual comes from the full-upwind scenario).
[Mesh]
type = GeneratedMesh
dim = 1
nx = 6
[]
[Variables]
[u]
[]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x'
[]
[]
[Kernels]
[flux]
type = FluxLimitedTVDAdvection
variable = u
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = vanleer
u = u
velocity = '1 -2 1.5'
[]
[]
[Preconditioning]
active = smp
[smp]
type = SMP
full = true
petsc_options = '-snes_check_jacobian'
[]
[]
[Executioner]
type = Transient
solve_type = Linear # this is to force convergence even though the nonlinear residual is high: we just care about the Jacobian in this test
end_time = 1
num_steps = 1
dt = 1
[]
(modules/porous_flow/examples/multiapp_fracture_flow/3dFracture/matrix_app.i)
# 3D matrix app doing thermo-hydro PorousFlow and receiving heat energy via a VectorPostprocessor from the 2D fracture App
[Mesh]
uniform_refine = 0
[generate]
type = GeneratedMeshGenerator
dim = 3
nx = 11
xmin = -10
xmax = 210
ny = 9
ymin = -10
ymax = 160
nz = 11
zmin = -10
zmax = 210
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[matrix_P]
scaling = 1E6
[]
[matrix_T]
initial_condition = 473
[]
[]
[ICs]
[frac_P]
type = FunctionIC
variable = matrix_P
function = insitu_pp
[]
[]
[Functions]
[insitu_pp]
type = ParsedFunction
value = '10 - 0.847E-2 * z' # Approximate hydrostatic in MPa
[]
[]
[PorousFlowFullySaturated]
coupling_type = ThermoHydro
porepressure = matrix_P
temperature = matrix_T
fp = water
gravity = '0 0 -9.81E-6' # Note the value, because of pressure_unit
pressure_unit = MPa
[]
[DiracKernels]
[heat_from_fracture]
type = ReporterPointSource
variable = matrix_T
value_name = heat_transfer_rate/transferred_joules_per_s
x_coord_name = heat_transfer_rate/x
y_coord_name = heat_transfer_rate/y
z_coord_name = heat_transfer_rate/z
[]
[]
[Modules]
[FluidProperties]
[water]
type = SimpleFluidProperties # this is largely irrelevant here since we care about heat conduction only
thermal_expansion = 0 # to prevent depressurization as the reservoir is cooled
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosityConst
porosity = 1E-3 # small porosity of rock
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-18 0 0 0 1E-18 0 0 0 1E-18'
[]
[internal_energy]
type = PorousFlowMatrixInternalEnergy
density = 2700 # kg/m^3
specific_heat_capacity = 800 # rough guess at specific heat capacity
[]
[aq_thermal_conductivity]
type = PorousFlowThermalConductivityIdeal
dry_thermal_conductivity = '5 0 0 0 5 0 0 0 5'
[]
[]
[VectorPostprocessors]
[heat_transfer_rate]
type = ConstantVectorPostprocessor
vector_names = 'transferred_joules_per_s x y z'
value = '0; 0; 0; 0'
outputs = none
[]
[]
[AuxVariables]
[normal_thermal_conductivity]
family = MONOMIAL
order = CONSTANT
[]
[fracture_normal_x]
family = MONOMIAL
order = CONSTANT
initial_condition = 0
[]
[fracture_normal_y]
family = MONOMIAL
order = CONSTANT
initial_condition = 1
[]
[fracture_normal_z]
family = MONOMIAL
order = CONSTANT
initial_condition = 0
[]
[element_normal_length]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[normal_thermal_conductivity_auxk]
type = ConstantAux
variable = normal_thermal_conductivity
value = 5 # very simple in this case
[]
[element_normal_length_auxk]
type = PorousFlowElementLength
variable = element_normal_length
direction = 'fracture_normal_x fracture_normal_y fracture_normal_z'
[]
[]
[Preconditioning]
[entire_jacobian]
type = SMP
full = true
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
[TimeStepper]
type = IterationAdaptiveDT
dt = 1
growth_factor = 1.1
optimal_iterations = 4
timestep_limiting_postprocessor = 1E8
[]
end_time = 1E8
nl_abs_tol = 1E-2
[]
[Outputs]
print_linear_residuals = false
exodus = false
[]
[MultiApps]
[fracture_app]
type = TransientMultiApp
input_files = fracture_only_aperture_changing.i
cli_args = 'Outputs/ex/sync_only=false'
execute_on = TIMESTEP_BEGIN
sub_cycling = true
### catch_up = true
### max_catch_up_steps = 100
[]
[]
[Transfers]
[element_normal_length_to_fracture]
type = MultiAppNearestNodeTransfer
direction = to_multiapp
multi_app = fracture_app
source_variable = element_normal_length
variable = enclosing_element_normal_length
[]
[element_normal_thermal_cond_to_fracture]
type = MultiAppNearestNodeTransfer
direction = to_multiapp
multi_app = fracture_app
source_variable = normal_thermal_conductivity
variable = enclosing_element_normal_thermal_cond
[]
[T_to_fracture]
type = MultiAppInterpolationTransfer
direction = to_multiapp
multi_app = fracture_app
source_variable = matrix_T
variable = transferred_matrix_T
[]
[normal_x_from_fracture]
type = MultiAppNearestNodeTransfer
direction = from_multiapp
multi_app = fracture_app
source_variable = normal_dirn_x
variable = fracture_normal_x
[]
[normal_y_from_fracture]
type = MultiAppNearestNodeTransfer
direction = from_multiapp
multi_app = fracture_app
source_variable = normal_dirn_y
variable = fracture_normal_y
[]
[normal_z_from_fracture]
type = MultiAppNearestNodeTransfer
direction = from_multiapp
multi_app = fracture_app
source_variable = normal_dirn_z
variable = fracture_normal_z
[]
[heat_from_fracture]
type = MultiAppReporterTransfer
direction = from_multiapp
multi_app = fracture_app
from_reporters = 'heat_transfer_rate/joules_per_s heat_transfer_rate/x heat_transfer_rate/y heat_transfer_rate/z'
to_reporters = 'heat_transfer_rate/transferred_joules_per_s heat_transfer_rate/x heat_transfer_rate/y heat_transfer_rate/z'
[]
[]
(test/tests/functions/image_function/flip.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
flip_x = true
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(test/tests/misc/check_error/function_file_test4.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = dummy #we don't get that far
format = rowls
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/porous_flow/test/tests/heat_advection/heat_advection_1d_fully_saturated_action.i)
# 1phase, heat advecting with a moving fluid
# Using the PorousFlowFullySaturated Action with various stabilization options
# With stabilization=none, this should produce an identical result to heat_advection_1d_fully_saturated.i
# With stabilization=Full, this should produce an identical result to heat_advection_1d.i and heat_advection_1d_fullsat.i
# With stabilization=KT, this should produce an identical result to heat_advection_1D_KT.i
[Mesh]
type = GeneratedMesh
dim = 1
nx = 50
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[temp]
initial_condition = 200
[]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = '1-x'
[]
[]
[BCs]
[pp0]
type = DirichletBC
variable = pp
boundary = left
value = 1
[]
[pp1]
type = DirichletBC
variable = pp
boundary = right
value = 0
[]
[spit_heat]
type = DirichletBC
variable = temp
boundary = left
value = 300
[]
[suck_heat]
type = DirichletBC
variable = temp
boundary = right
value = 200
[]
[]
[PorousFlowFullySaturated]
porepressure = pp
temperature = temp
coupling_type = ThermoHydro
fp = simple_fluid
add_darcy_aux = false
stabilization = none
flux_limiter_type = superbee
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 100
density0 = 1000
viscosity = 4.4
thermal_expansion = 0
cv = 2
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.2
[]
[zero_thermal_conductivity]
type = PorousFlowThermalConductivityIdeal
dry_thermal_conductivity = '0 0 0 0 0 0 0 0 0'
[]
[rock_heat]
type = PorousFlowMatrixInternalEnergy
specific_heat_capacity = 1.0
density = 125
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.1 0 0 0 2 0 0 0 3'
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 0.01
end_time = 0.6
[]
[VectorPostprocessors]
[T]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 51
sort_by = x
variable = temp
[]
[]
[Outputs]
file_base = heat_advection_1d_fully_saturation_action
[csv]
type = CSV
sync_times = '0.1 0.6'
sync_only = true
[]
[]
(modules/porous_flow/test/tests/hysteresis/hys_pc_2.i)
# Capillary-pressure calculation. Second-order drying curve
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0.1
xmax = 0.9
nx = 80
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = ''
[]
[]
[Variables]
[sat]
[]
[]
[ICs]
[sat]
type = FunctionIC
variable = sat
function = 'x'
[]
[]
[BCs]
[sat]
type = FunctionDirichletBC
variable = sat
function = 'x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = sat
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
initial_order = 2
previous_turning_points = '0.1 0.9'
[]
[pc_calculator]
type = PorousFlowHystereticInfo
alpha_d = 10.0
alpha_w = 7.0
n_d = 1.5
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 12.0
high_ratio = 0.9
low_extension_type = none
high_extension_type = none
sat_var = sat
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[pc]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[pc]
type = PorousFlowPropertyAux
variable = pc
property = hysteretic_info
[]
[]
[VectorPostprocessors]
[pc]
type = LineValueSampler
start_point = '0.1 0 0'
end_point = '0.9 0 0'
num_points = 8
sort_by = x
variable = 'sat pc'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_1D.i)
# Using flux-limited TVD advection ala Kuzmin and Turek, mploying PorousFlow Kernels and UserObjects, with superbee flux-limiter
# 1D version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowFluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = advective_flux_calculator_0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowFluxLimitedTVDAdvection
variable = porepressure
advective_flux_calculator = advective_flux_calculator_1
[]
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[advective_flux_calculator_0]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 0
[]
[advective_flux_calculator_1]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/porous_flow/test/tests/newton_cooling/nc04.i)
# Newton cooling from a bar. Heat conduction
[Mesh]
type = GeneratedMesh
dim = 2
nx = 100
ny = 1
xmin = 0
xmax = 100
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'temp'
number_fluid_phases = 0
number_fluid_components = 0
[]
[]
[Variables]
[temp]
[]
[]
[ICs]
[temp]
type = FunctionIC
variable = temp
function = '2-x/100'
[]
[]
[Kernels]
[conduction]
type = PorousFlowHeatConduction
variable = temp
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
temperature = temp
[]
[thermal_conductivity_irrelevant]
type = PorousFlowThermalConductivityIdeal
dry_thermal_conductivity = '1E2 0 0 0 1E2 0 0 0 1E2'
[]
[]
[BCs]
[left]
type = DirichletBC
variable = temp
boundary = left
value = 2
[]
[newton]
type = PorousFlowPiecewiseLinearSink
variable = temp
boundary = right
pt_vals = '0 1 2'
multipliers = '-1 0 1'
flux_function = 1
[]
[]
[VectorPostprocessors]
[temp]
type = LineValueSampler
variable = temp
start_point = '0 0.5 0'
end_point = '100 0.5 0'
sort_by = x
num_points = 11
execute_on = timestep_end
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -snes_max_it -sub_pc_factor_shift_type -pc_asm_overlap -snes_atol -snes_rtol '
petsc_options_value = 'gmres asm lu 100 NONZERO 2 1E-14 1E-12'
[]
[]
[Executioner]
type = Steady
[]
[Outputs]
file_base = nc04
execute_on = timestep_end
exodus = false
[along_line]
type = CSV
execute_vector_postprocessors_on = timestep_end
[]
[]
(test/tests/functions/image_function/moose_logo_test_2D.i)
[Problem]
solve = false
[]
[Mesh]
type = ImageMesh
cells_per_pixel = 1
dim = 2
file = moose_logo_small.png
[]
[Variables]
[original]
family = MONOMIAL
order = CONSTANT
[]
[scaled]
family = MONOMIAL
order = CONSTANT
[]
[shifted]
family = MONOMIAL
order = CONSTANT
[]
[]
[Functions]
[image]
type = ImageFunction
file = moose_logo_small.png
[]
[image_scale]
type = ImageFunction
file = moose_logo_small.png
scale = 0.00392156862
[]
[image_shift]
type = ImageFunction
file = moose_logo_small.png
shift = -127.5
[]
[]
[ICs]
[original_IC]
type = FunctionIC
function = image
variable = original
[]
[scaled_IC]
type = FunctionIC
function = image_scale
variable = scaled
[]
[shifted_IC]
type = FunctionIC
function = image_shift
variable = shifted
[]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
[]
(test/tests/functions/solution_function/solution_function_grad_p1.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
xmin = 0.0
xmax = 1.0
ymin = 0.0
ymax = 1.0
parallel_type = replicated
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./test_variable]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_cond_func
[../]
[../]
[]
[Functions]
[./initial_cond_func]
type = ParsedFunction
value = 2*x+4*y
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = 1
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 2
value = 1
[../]
[]
[Executioner]
type = Steady
nl_rel_tol = 1e-10
[]
[Outputs]
file_base = solution_function_grad_p1
exodus = true
[]
(test/tests/userobjects/shape_element_user_object/jacobian_test.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 2
parallel_type = replicated
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = (x-0.5)^2
[../]
[../]
[./v]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = (x-0.5)^2
[../]
[../]
[./w]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = (x-0.5)^2
[../]
[../]
[]
[Kernels]
[./diff_u]
type = Diffusion
variable = u
[../]
[./diff_v]
type = Diffusion
variable = v
[../]
[./shape_w]
type = ExampleShapeElementKernel2
user_object = example_uo
v = v
u = u
variable = w
[../]
[./time_w]
type = TimeDerivative
variable = w
[../]
[./time_u]
type = TimeDerivative
variable = u
[../]
[./time_v]
type = TimeDerivative
variable = v
[../]
[]
[UserObjects]
[./example_uo]
type = ExampleShapeElementUserObject
u = u
v = v
# as this userobject computes quantities for both the residual AND the jacobian
# it needs to have these execute_on flags set.
execute_on = 'linear nonlinear'
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
#off_diag_row = 'w w'
#off_diag_column = 'v u'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
petsc_options = '-snes_test_display'
petsc_options_iname = '-snes_type'
petsc_options_value = 'test'
dt = 0.1
num_steps = 2
[]
[Outputs]
exodus = true
perf_graph = true
[]
(modules/phase_field/test/tests/phase_field_kernels/AllenCahnVariableL.i)
#
# Test the parsed function free enery Allen-Cahn Bulk kernel
#
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
xmax = 12
ymax = 12
elem_type = QUAD4
[]
[AuxVariables]
[./chi]
[./InitialCondition]
type = FunctionIC
function = 'x/24+0.5'
[../]
[../]
[]
[Variables]
[./eta]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = SmoothCircleIC
x1 = 0.0
y1 = 0.0
radius = 6.0
invalue = 0.9
outvalue = 0.1
int_width = 3.0
[../]
[../]
[]
[Kernels]
[./detadt]
type = TimeDerivative
variable = eta
[../]
[./ACBulk]
type = AllenCahn
variable = eta
f_name = F
[../]
[./ACInterface]
type = ACInterface
variable = eta
kappa_name = 1
variable_L = true
args = chi
[../]
[]
[Materials]
[./L]
type = DerivativeParsedMaterial
f_name = L
args = 'eta chi'
function = '0.1 * eta^2 + chi^2'
derivative_order = 2
[../]
[./free_energy]
type = DerivativeParsedMaterial
f_name = F
args = 'eta'
function = '2 * eta^2 * (1-eta)^2 - 0.2*eta'
derivative_order = 2
[../]
[]
[Executioner]
type = Transient
scheme = 'bdf2'
solve_type = 'NEWTON'
num_steps = 2
dt = 1
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_2D_blocks.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek
# 2D version with blocks
# Top block: tracer is defined here, with velocity = (0.1, 0, 0)
# Central block: tracer is not defined here
# Bottom block: tracer is defined here, with velocity = (-0.1, 0, 0)
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 10
xmin = 0
xmax = 1
ny = 5
ymin = 0
ymax = 1
[]
[top]
input = gen
type = SubdomainBoundingBoxGenerator
bottom_left = '0 0.6 0'
top_right = '1 1 0'
block_id = 1
[]
[center]
input = bottom
type = SubdomainBoundingBoxGenerator
bottom_left = '0 0.4 0'
top_right = '1 0.6 0'
block_id = 2
[]
[bottom]
input = top
type = SubdomainBoundingBoxGenerator
bottom_left = '0 0 0'
top_right = '1 0.6 0'
block_id = 3
[]
[split_bdys]
type = BreakBoundaryOnSubdomainGenerator
input = center
boundaries = 'left right'
[]
[]
[GlobalParams]
block = '1 2 3'
[]
[Variables]
[tracer]
block = '1 3'
[]
[dummy]
[]
[]
[ICs]
[tracer_top]
type = FunctionIC
variable = tracer
function = 'if(x<0.1 | x>0.3, 0, 1)'
block = '1'
[]
[tracer_bot]
type = FunctionIC
variable = tracer
function = 'if(x<0.7 | x > 0.9, 0, 1)'
block = '3'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
block = '1 3'
[]
[flux_top]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo_top
block = '1'
[]
[flux_bot]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo_bot
block = '3'
[]
[.dummy]
type = TimeDerivative
variable = dummy
[]
[]
[UserObjects]
[fluo_top]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '0.1 0 0'
block = '1'
[]
[fluo_bot]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '-0.1 0 0'
block = '3'
[]
[]
[BCs]
[no_tracer_on_left_top]
type = DirichletBC
variable = tracer
value = 0
boundary = 'left_to_1'
[]
[remove_tracer_top]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = 'right_to_1'
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[no_tracer_on_left_bot]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = 'left_to_3'
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[remove_tracer_bot]
type = DirichletBC
variable = tracer
value = 0
boundary = 'right_to_3'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer_bot]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 11
sort_by = x
variable = tracer
[]
[tracer_top]
type = LineValueSampler
start_point = '0 1 0'
end_point = '1 1 0'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
timestep_tolerance = 1E-3
[]
[Outputs]
print_linear_residuals = false
[out]
type = CSV
execute_on = final
[]
[]
(modules/richards/test/tests/uo_egs/seff2.i)
# Outputs a 2phase effective saturation relationship into an exodus file
# and into a CSV file.
# In the exodus file, the Seff will be a function of "x", and
# this "x" is actually the difference in porepressures,
# say P_gas - P_water (so "x" should be positive).
# In the CSV file you will find the Seff at the "x" point
# specified by you below.
#
# You may specify:
# - the "type" of Seff in the UserObjects block
# - the parameters of this Seff function in the UserObjects block
# - the "x" point (which is del_porepressure) that you want to extract
# the Seff at, if you want a value at a particular point
# - the range of "x" values (which is porepressure values) may be
# changed in the Mesh block, below
[UserObjects]
[./seff]
type = RichardsSeff2waterVG
al = 1E-6
m = 0.8
[../]
[]
[Postprocessors]
[./point_val]
type = PointValue
execute_on = timestep_begin
# note this point must lie inside the mesh below
point = '1 0 0'
variable = seff
[../]
[]
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
# the following specify the range of porepressure
xmin = 0
xmax = 3E6
[]
############################
# You should not need to change any of the stuff below
############################
[Variables]
[./u]
[../]
[./v]
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = x
[../]
[./v_init]
type = ConstantIC
variable = v
value = 0
[../]
[]
[AuxVariables]
[./seff]
[../]
[]
[AuxKernels]
[./seff_AuxK]
type = RichardsSeffAux
variable = seff
seff_UO = seff
execute_on = timestep_begin
pressure_vars = 'v u'
[../]
[]
[Kernels]
[./dummy_u]
type = Diffusion
variable = u
[../]
[./dummy_v]
type = Diffusion
variable = v
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
num_steps = 0
[]
[Outputs]
file_base = seff2
[./csv]
type = CSV
[../]
[./exodus]
type = Exodus
hide = 'u v'
[../]
[]
(test/tests/misc/check_error/function_file_test7.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
x = '1'
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_1D.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek, with antidiffusion from superbee flux limiting
# 1D version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '0.1 0 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
nl_max_its = 500
timestep_tolerance = 1E-3
[]
[Outputs]
print_linear_residuals = false
[out]
type = CSV
execute_on = final
[]
[]
(modules/porous_flow/test/tests/numerical_diffusion/no_action.i)
# Using upwinded and mass-lumped PorousFlow Kernels: this is equivalent of fully_saturated_action.i with stabilization = Full
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = tracer
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowAdvectiveFlux
fluid_component = 1
variable = porepressure
[]
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-1
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/chemical_reactions/test/tests/parser/equilibrium_without_action.i)
# Test AqueousEquilibriumReactions parser
[Mesh]
type = GeneratedMesh
dim = 2
[]
[Variables]
[./a]
[../]
[./b]
[../]
[]
[AuxVariables]
[./pressure]
[../]
[./pa2]
[../]
[./pab]
[../]
[]
[AuxKernels]
[./pa2]
type = AqueousEquilibriumRxnAux
variable = pa2
v = a
log_k = 2
sto_v = 2
[../]
[./pab]
type = AqueousEquilibriumRxnAux
variable = pab
v = 'a b'
log_k = -2
sto_v = '1 1'
[../]
[]
[ICs]
[./a]
type = BoundingBoxIC
variable = a
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[./b]
type = BoundingBoxIC
variable = b
x1 = 0.0
y1 = 0.0
x2 = 1.0e-10
y2 = 1
inside = 1.0e-2
outside = 1.0e-10
[../]
[./pressure]
type = FunctionIC
variable = pressure
function = 2-x
[../]
[]
[Kernels]
[./a_ie]
type = PrimaryTimeDerivative
variable = a
[../]
[./a_diff]
type = PrimaryDiffusion
variable = a
[../]
[./a_conv]
type = PrimaryConvection
variable = a
p = pressure
[../]
[./b_ie]
type = PrimaryTimeDerivative
variable = b
[../]
[./b_diff]
type = PrimaryDiffusion
variable = b
[../]
[./b_conv]
type = PrimaryConvection
variable = b
p = pressure
[../]
[./a1_eq]
type = CoupledBEEquilibriumSub
variable = a
log_k = 2
weight = 2
sto_u = 2
[../]
[./a1_diff]
type = CoupledDiffusionReactionSub
variable = a
log_k = 2
weight = 2
sto_u = 2
[../]
[./a1_conv]
type = CoupledConvectionReactionSub
variable = a
log_k = 2
weight = 2
sto_u = 2
p = pressure
[../]
[./a2_eq]
type = CoupledBEEquilibriumSub
variable = a
v = b
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
[../]
[./a2_diff]
type = CoupledDiffusionReactionSub
variable = a
v = b
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
[../]
[./a2_conv]
type = CoupledConvectionReactionSub
variable = a
v = b
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
p = pressure
[../]
[./b2_eq]
type = CoupledBEEquilibriumSub
variable = b
v = a
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
[../]
[./b2_diff]
type = CoupledDiffusionReactionSub
variable = b
v = a
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
[../]
[./b2_conv]
type = CoupledConvectionReactionSub
variable = b
v = a
log_k = -2
weight = 1
sto_v = 1
sto_u = 1
p = pressure
[../]
[]
[BCs]
[./a_left]
type = DirichletBC
variable = a
boundary = left
value = 1.0e-2
[../]
[./a_right]
type = ChemicalOutFlowBC
variable = a
boundary = right
[../]
[./b_left]
type = DirichletBC
variable = b
boundary = left
value = 1.0e-2
[../]
[./b_right]
type = ChemicalOutFlowBC
variable = b
boundary = right
[../]
[]
[Materials]
[./porous]
type = GenericConstantMaterial
prop_names = 'diffusivity conductivity porosity'
prop_values = '1e-4 1e-4 0.2'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
nl_abs_tol = 1e-12
end_time = 10
dt = 10
[]
[Outputs]
file_base = equilibrium_out
exodus = true
perf_graph = true
print_linear_residuals = true
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
(test/tests/dgkernels/1d_advection_dg/1d_advection_dg.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[Functions]
[./ic_u]
type = PiecewiseConstant
axis = x
direction = right
xy_data = '0.1 0.0
0.6 1.0
1.0 0.0'
[../]
[]
[Variables]
[./u]
order = FIRST
family = MONOMIAL
[../]
[]
[Kernels]
[./time_u]
type = TimeDerivative
variable = u
[../]
[./adv_u]
implicit = false
type = ConservativeAdvection
variable = u
velocity = '1 0 0'
[../]
[]
[DGKernels]
[./dg_advection_u]
implicit = false
type = DGConvection
variable = u
velocity = '1 0 0'
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = u
function = ic_u
[../]
[]
[Executioner]
type = Transient
[./TimeIntegrator]
type = ExplicitMidpoint
[../]
solve_type = 'LINEAR'
num_steps = 4
dt = 2e-4
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/jacobian/fflux01.i)
# 1phase, 1component, constant viscosity, constant insitu permeability
# density with constant bulk, Corey relative perm, nonzero gravity, unsaturated with vanGenuchten
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
xmin = 0
xmax = 1
ny = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = -0.7+x+y
[]
[]
[Kernels]
[flux0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pp
gravity = '-1 -0.1 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.5
density0 = 1
thermal_expansion = 0
viscosity = 1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1 0 0 0 2 0 0 0 3'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[Preconditioning]
active = check
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000'
[]
[check]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000 test'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
exodus = false
[]
(modules/porous_flow/test/tests/mass_conservation/mass07.i)
# Checking that the mass postprocessor throws the correct error if
# too many phases are supplied
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[sat]
[]
[]
[AuxVariables]
[massfrac_ph0_sp0]
initial_condition = 1
[]
[massfrac_ph1_sp0]
initial_condition = 0
[]
[]
[ICs]
[pinit]
type = ConstantIC
value = 1
variable = pp
[]
[satinit]
type = FunctionIC
function = 1-x
variable = sat
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = sat
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp sat'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 0.1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = pp
phase1_saturation = sat
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac_ph0_sp0 massfrac_ph1_sp0'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[comp1_total_mass]
type = PorousFlowFluidMass
fluid_component = 1
phase = '0 1 2'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
(modules/level_set/test/tests/verification/1d_level_set_supg_mms/1d_level_set_supg_mms.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = 0
xmax = 32
nx = 64
[]
[Variables]
[./phi]
[../]
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[ICs]
[./phi_ic]
function = phi_exact
variable = phi
type = FunctionIC
[../]
[./vel_ic]
type = VectorFunctionIC
variable = velocity
function = velocity_func
[]
[]
[Functions]
[./phi_exact]
type = ParsedFunction
value = 'a*exp(1/(10*t))*sin(2*pi*x/b) + 1'
vars = 'a b'
vals = '1 8'
[../]
[./phi_mms]
type = ParsedFunction
value = '-a*exp(1/(10*t))*sin(2*pi*x/b)/(10*t^2) + 2*pi*a*exp(1/(10*t))*cos(2*pi*x/b)/b'
vars = 'a b'
vals = '1 8'
[../]
[./velocity_func]
type = ParsedVectorFunction
value_x = '1'
value_y = '1'
[../]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./time_supg]
type = LevelSetTimeDerivativeSUPG
variable = phi
velocity = velocity
[../]
[./phi_advection]
type = LevelSetAdvection
variable = phi
velocity = velocity
[../]
[./phi_forcing]
type = BodyForce
variable = phi
function = phi_mms
[../]
[./phi_advection_supg]
type = LevelSetAdvectionSUPG
variable = phi
velocity = velocity
[../]
[./phi_forcing_supg]
type = LevelSetForcingFunctionSUPG
velocity = velocity
variable = phi
function = phi_mms
[../]
[]
[Postprocessors]
[./error]
type = ElementL2Error
function = phi_exact
variable = phi
[../]
[./h]
type = AverageElementSize
[../]
[./point]
type = PointValue
point = '0.1 0 0'
variable = phi
[../]
[]
[Executioner]
type = Transient
start_time = 1
dt = 0.01
end_time = 1.25
solve_type = PJFNK
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
scheme = bdf2
nl_rel_tol = 1e-12
[]
[Outputs]
interval = 10
execute_on = 'timestep_end'
csv = true
[]
(test/tests/functions/image_function/image_mesh_3d.i)
[Mesh]
type = ImageMesh
dim = 3
file_base = stack/test
file_suffix = png
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
# ImageFunction gets its file range parameters from ImageMesh,
# when it is present. This prevents duplicating information in
# input files.
type = ImageFunction
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/relperm/corey2.i)
# Test Corey relative permeability curve by varying saturation over the mesh
# Corey exponent n = 2 for both phases
# No residual saturation in either phase
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
family = LAGRANGE
order = FIRST
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[kr0aux]
family = MONOMIAL
order = CONSTANT
[]
[kr1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[kr0]
type = PorousFlowPropertyAux
property = relperm
phase = 0
variable = kr0aux
[]
[kr1]
type = PorousFlowPropertyAux
property = relperm
phase = 1
variable = kr1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
pc = 0
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityCorey
phase = 0
n = 2
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux kr0aux kr1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 20
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-8
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(modules/level_set/examples/rotating_circle/circle_rotate.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 32
ny = 32
uniform_refine = 2
[]
[AuxVariables]
[./velocity]
family = LAGRANGE_VEC
[../]
[]
[Variables]
[./phi]
[../]
[]
[Functions]
[./phi_exact]
type = LevelSetOlssonBubble
epsilon = 0.03
center = '0 0.5 0'
radius = 0.15
[../]
[./velocity_func]
type = ParsedVectorFunction
value_x = '4*y'
value_y = '-4*x'
[../]
[]
[ICs]
[./phi_ic]
type = FunctionIC
function = phi_exact
variable = phi
[../]
[./vel_ic]
type = VectorFunctionIC
variable = velocity
function = velocity_func
[]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = phi
[../]
[./advection]
type = LevelSetAdvection
velocity = velocity
variable = phi
[../]
[]
[Postprocessors]
[./area]
type = LevelSetVolume
threshold = 0.5
variable = phi
location = outside
execute_on = 'initial timestep_end'
[../]
[./cfl]
type = LevelSetCFLCondition
velocity = velocity
execute_on = 'initial' #timestep_end'
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
start_time = 0
end_time = 1.570796
scheme = crank-nicolson
petsc_options_iname = '-pc_type -pc_sub_type'
petsc_options_value = 'asm ilu'
[./TimeStepper]
type = PostprocessorDT
postprocessor = cfl
scale = 0.8
[../]
[]
[Outputs]
csv = true
exodus = true
[]
(modules/combined/test/tests/surface_tension_KKS/surface_tension_KKS.i)
#
# KKS coupled with elasticity. Physical parameters for matrix and precipitate phases
# are gamma and gamma-prime phases, respectively, in the Ni-Al system.
# Parameterization is as described in L.K. Aagesen et al., Computational Materials
# Science, 140, 10-21 (2017), with isotropic elastic properties in both phases
# and without eigenstrain.
#
[Mesh]
type = GeneratedMesh
dim = 1
nx = 200
xmax = 200
[]
[Problem]
coord_type = RSPHERICAL
[]
[GlobalParams]
displacements = 'disp_x'
[]
[Variables]
# order parameter
[./eta]
order = FIRST
family = LAGRANGE
[../]
# solute concentration
[./c]
order = FIRST
family = LAGRANGE
[../]
# chemical potential
[./w]
order = FIRST
family = LAGRANGE
[../]
# solute phase concentration (matrix)
[./cm]
order = FIRST
family = LAGRANGE
initial_condition = 0.13
[../]
# solute phase concentration (precipitate)
[./cp]
order = FIRST
family = LAGRANGE
initial_condition = 0.235
[../]
[]
[AuxVariables]
[./energy_density]
family = MONOMIAL
[../]
[./extra_xx]
order = CONSTANT
family = MONOMIAL
[../]
[./extra_yy]
order = CONSTANT
family = MONOMIAL
[../]
[./extra_zz]
order = CONSTANT
family = MONOMIAL
[../]
[./strain_xx]
order = CONSTANT
family = MONOMIAL
[../]
[./strain_yy]
order = CONSTANT
family = MONOMIAL
[../]
[./strain_zz]
order = CONSTANT
family = MONOMIAL
[../]
[]
[ICs]
[./eta_ic]
variable = eta
type = FunctionIC
function = ic_func_eta
[../]
[./c_ic]
variable = c
type = FunctionIC
function = ic_func_c
[../]
[]
[Functions]
[./ic_func_eta]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2);0.5*(1.0-tanh((r-r0)/delta_eta/sqrt(2.0)))'
vars = 'delta_eta r0'
vals = '6.431 100'
[../]
[./ic_func_c]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2);eta_an:=0.5*(1.0-tanh((r-r0)/delta/sqrt(2.0)));0.235*eta_an^3*(6*eta_an^2-15*eta_an+10)+0.13*(1-eta_an^3*(6*eta_an^2-15*eta_an+10))'
vars = 'delta r0'
vals = '6.431 100'
[../]
[]
[Modules/TensorMechanics/Master]
[./all]
add_variables = true
generate_output = 'hydrostatic_stress stress_xx stress_yy stress_zz'
[../]
[]
[Kernels]
# enforce c = (1-h(eta))*cm + h(eta)*cp
[./PhaseConc]
type = KKSPhaseConcentration
ca = cm
variable = cp
c = c
eta = eta
[../]
# enforce pointwise equality of chemical potentials
[./ChemPotVacancies]
type = KKSPhaseChemicalPotential
variable = cm
cb = cp
fa_name = f_total_matrix
fb_name = f_total_ppt
[../]
#
# Cahn-Hilliard Equation
#
[./CHBulk]
type = KKSSplitCHCRes
variable = c
ca = cm
fa_name = f_total_matrix
w = w
[../]
[./dcdt]
type = CoupledTimeDerivative
variable = w
v = c
[../]
[./ckernel]
type = SplitCHWRes
mob_name = M
variable = w
[../]
#
# Allen-Cahn Equation
#
[./ACBulkF]
type = KKSACBulkF
variable = eta
fa_name = f_total_matrix
fb_name = f_total_ppt
w = 0.0033
args = 'cp cm'
[../]
[./ACBulkC]
type = KKSACBulkC
variable = eta
ca = cm
cb = cp
fa_name = f_total_matrix
[../]
[./ACInterface]
type = ACInterface
variable = eta
kappa_name = kappa
[../]
[./detadt]
type = TimeDerivative
variable = eta
[../]
[]
[AuxKernels]
[./extra_xx]
type = RankTwoAux
rank_two_tensor = extra_stress
index_i = 0
index_j = 0
variable = extra_xx
[../]
[./extra_yy]
type = RankTwoAux
rank_two_tensor = extra_stress
index_i = 1
index_j = 1
variable = extra_yy
[../]
[./extra_zz]
type = RankTwoAux
rank_two_tensor = extra_stress
index_i = 2
index_j = 2
variable = extra_zz
[../]
[./strain_xx]
type = RankTwoAux
rank_two_tensor = mechanical_strain
index_i = 0
index_j = 0
variable = strain_xx
[../]
[./strain_yy]
type = RankTwoAux
rank_two_tensor = mechanical_strain
index_i = 1
index_j = 1
variable = strain_yy
[../]
[./strain_zz]
type = RankTwoAux
rank_two_tensor = mechanical_strain
index_i = 2
index_j = 2
variable = strain_zz
[../]
[]
[Materials]
# Chemical free energy of the matrix
[./fm]
type = DerivativeParsedMaterial
f_name = fm
args = 'cm'
function = '6.55*(cm-0.13)^2'
[../]
# Elastic energy of the matrix
[./elastic_free_energy_m]
type = ElasticEnergyMaterial
base_name = matrix
f_name = fe_m
args = ' '
[../]
# Total free energy of the matrix
[./Total_energy_matrix]
type = DerivativeSumMaterial
f_name = f_total_matrix
sum_materials = 'fm fe_m'
args = 'cm'
[../]
# Free energy of the precipitate phase
[./fp]
type = DerivativeParsedMaterial
f_name = fp
args = 'cp'
function = '6.55*(cp-0.235)^2'
[../]
# Elastic energy of the precipitate
[./elastic_free_energy_p]
type = ElasticEnergyMaterial
base_name = ppt
f_name = fe_p
args = ' '
[../]
# Total free energy of the precipitate
[./Total_energy_ppt]
type = DerivativeSumMaterial
f_name = f_total_ppt
sum_materials = 'fp fe_p'
args = 'cp'
[../]
# Total elastic energy
[./Total_elastic_energy]
type = DerivativeTwoPhaseMaterial
eta = eta
f_name = f_el_mat
fa_name = fe_m
fb_name = fe_p
outputs = exodus
W = 0
[../]
# h(eta)
[./h_eta]
type = SwitchingFunctionMaterial
h_order = HIGH
eta = eta
[../]
# g(eta)
[./g_eta]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta
outputs = exodus
[../]
# constant properties
[./constants]
type = GenericConstantMaterial
prop_names = 'M L kappa'
prop_values = '0.7 0.7 0.1365'
[../]
#Mechanical properties
[./Stiffness_matrix]
type = ComputeElasticityTensor
C_ijkl = '74.25 14.525'
base_name = matrix
fill_method = symmetric_isotropic
[../]
[./Stiffness_ppt]
type = ComputeElasticityTensor
C_ijkl = '74.25 14.525'
base_name = ppt
fill_method = symmetric_isotropic
[../]
[./strain_matrix]
type = ComputeRSphericalSmallStrain
base_name = matrix
[../]
[./strain_ppt]
type = ComputeRSphericalSmallStrain
base_name = ppt
[../]
[./stress_matrix]
type = ComputeLinearElasticStress
base_name = matrix
[../]
[./stress_ppt]
type = ComputeLinearElasticStress
base_name = ppt
[../]
[./global_stress]
type = TwoPhaseStressMaterial
base_A = matrix
base_B = ppt
[../]
[./interface_stress]
type = ComputeSurfaceTensionKKS
v = eta
kappa_name = kappa
w = 0.0033
[../]
[]
[BCs]
[./left_r]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[]
#
# Precondition using handcoded off-diagonal terms
#
[Preconditioning]
[./full]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm lu nonzero'
l_max_its = 30
nl_max_its = 10
l_tol = 1.0e-4
nl_rel_tol = 1.0e-9
nl_abs_tol = 1.0e-10
num_steps = 2
dt = 0.5
[]
[Outputs]
exodus = true
[./csv]
type = CSV
execute_on = 'final'
[../]
[]
(test/tests/time_steppers/timesequence_stepper/timesequence_restart1.i)
[Mesh]
type = GeneratedMesh
dim = 2
xmin = -1
xmax = 1
ymin = -1
ymax = 1
nx = 2
ny = 2
elem_type = QUAD9
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
end_time = 4.0
[./TimeStepper]
type = TimeSequenceStepper
time_sequence = '0 0.85 1.3 2 4'
[../]
[]
[Outputs]
exodus = true
[./checkpoint]
type = Checkpoint
num_files = 4
[../]
[]
(modules/richards/test/tests/sinks/s02.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 1
ny = 1
xmin = 0
xmax = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1
[../]
[./SeffVG]
type = RichardsSeff1VG
m = 0.5
al = 1 # same deal with PETSc constant state
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.2
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 0.1
[../]
[]
[Variables]
[./pressure]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = initial_pressure
[../]
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 2
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-lfout-rfout-mf)/2/(mi+mf))
vars = 'mi mf lfout rfout'
vals = 'mass_init mass_fin left_flux_out right_flux_out'
[../]
[]
[Postprocessors]
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./mass_fin]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./left_flux_out]
type = RichardsHalfGaussianSinkFlux
boundary = left
variable = pressure
centre = 1
max = 2
sd = 1
[../]
[./right_flux_out]
type = RichardsHalfGaussianSinkFlux
boundary = right
variable = pressure
centre = 1
max = 2
sd = 1
[../]
[./p0]
type = PointValue
point = '0 0 0'
variable = pressure
[../]
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
[BCs]
[./left_flux]
type = RichardsHalfGaussianSink
boundary = left
variable = pressure
centre = 1
max = 2
sd = 1
[../]
[./right_flux]
type = RichardsHalfGaussianSink
boundary = right
variable = pressure
centre = 1
max = 2
sd = 1
[../]
[]
[Kernels]
active = 'richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
SUPG_UO = SUPGstandard
sat_UO = Saturation
seff_UO = SeffVG
viscosity = 1E-3
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-10 10000'
[../]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 4E-3
end_time = 0.4
[]
[Outputs]
file_base = s02
csv = true
execute_on = timestep_end
[]
(test/tests/userobjects/shape_element_user_object/jacobian.i)
[GlobalParams]
use_displaced_mesh = true
[]
[Mesh]
type = GeneratedMesh
dim = 1
nx = 2
parallel_type = replicated
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = (x-0.5)^2
[../]
[../]
[./v]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = (x-0.5)^2
[../]
[../]
[]
[Kernels]
[./diff_u]
type = Diffusion
variable = u
[../]
[./diff_v]
type = Diffusion
variable = v
[../]
[./shape_w]
type = ExampleShapeElementKernel
user_object = example_uo
v = v
variable = u
[../]
[./time_u]
type = TimeDerivative
variable = u
[../]
[./time_v]
type = TimeDerivative
variable = v
[../]
[]
[UserObjects]
[./example_uo]
type = ExampleShapeElementUserObject
u = u
v = v
# as this userobject computes quantities for both the residual AND the jacobian
# it needs to have these execute_on flags set.
execute_on = 'linear nonlinear'
[../]
[]
[Preconditioning]
[./smp]
type = SMP
#full = true
off_diag_row = 'u'
off_diag_column = 'v'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
petsc_options = '-snes_test_display'
petsc_options_iname = '-snes_type'
petsc_options_value = 'test'
dt = 0.1
num_steps = 2
[]
[Outputs]
exodus = true
perf_graph = true
[]
(modules/phase_field/test/tests/misc/interface_grad.i)
#
# Test a gradient continuity interfacekernel
#
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 20
ny = 10
ymax = 0.5
[]
[./box1]
type = SubdomainBoundingBoxGenerator
block_id = 1
bottom_left = '0 0 0'
top_right = '0.51 1 0'
input = gen
[../]
[./box2]
type = SubdomainBoundingBoxGenerator
block_id = 2
bottom_left = '0.49 0 0'
top_right = '1 1 0'
input = box1
[../]
[./iface_u]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 1
paired_block = 2
new_boundary = 10
input = box2
[../]
[./iface_v]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 2
paired_block = 1
new_boundary = 11
input = iface_u
[../]
[]
[Variables]
[./u]
block = 1
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.4)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[./v]
block = 2
initial_condition = 0.8
[../]
[]
[Kernels]
[./u_diff]
type = Diffusion
variable = u
block = 1
[../]
[./u_dt]
type = TimeDerivative
variable = u
block = 1
[../]
[./v_diff]
type = Diffusion
variable = v
block = 2
[../]
[./v_dt]
type = TimeDerivative
variable = v
block = 2
[../]
[]
[InterfaceKernels]
[./iface]
type = InterfaceDiffusionFluxMatch
variable = u
boundary = 10
neighbor_var = v
[../]
[]
[BCs]
[./u_boundary_term]
type = DiffusionFluxBC
variable = u
boundary = 10
[../]
[./v_boundary_term]
type = DiffusionFluxBC
variable = v
boundary = 11
[../]
[]
[Executioner]
type = Transient
dt = 0.002
num_steps = 10
[]
[Outputs]
exodus = true
print_linear_residuals = false
[]
(modules/richards/test/tests/gravity_head_2/gh02.i)
# unsaturated = true
# gravity = true
# supg = false
# transient = false
[Mesh]
type = GeneratedMesh
dim = 1
nx = 20
xmin = 0
xmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 1.0E2
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 0.5
bulk_mod = 0.5E2
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.1
sum_s_res = 0.15
[../]
[./SatGas]
type = RichardsSat
s_res = 0.05
sum_s_res = 0.15
[../]
[./SUPGwater]
type = RichardsSUPGnone
[../]
[./SUPGgas]
type = RichardsSUPGnone
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
# get nonconvergence if initial condition is too crazy
[./water_ic]
type = FunctionIC
function = pwater_initial
variable = pwater
[../]
[./gas_ic]
type = FunctionIC
function = pgas_initial
variable = pgas
[../]
[]
[Kernels]
active = 'richardsfwater richardsfgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[]
[AuxVariables]
[./seffgas]
[../]
[./seffwater]
[../]
[]
[AuxKernels]
[./seffgas_kernel]
type = RichardsSeffAux
pressure_vars = 'pwater pgas'
seff_UO = SeffGas
variable = seffgas
[../]
[./seffwater_kernel]
type = RichardsSeffAux
pressure_vars = 'pwater pgas'
seff_UO = SeffWater
variable = seffwater
[../]
[]
[Postprocessors]
[./mwater_init]
type = RichardsMass
variable = pwater
execute_on = timestep_begin
outputs = none
[../]
[./mgas_init]
type = RichardsMass
variable = pgas
execute_on = timestep_begin
outputs = none
[../]
[./mwater_fin]
type = RichardsMass
variable = pwater
execute_on = timestep_end
outputs = none
[../]
[./mgas_fin]
type = RichardsMass
variable = pgas
execute_on = timestep_end
outputs = none
[../]
[./mass_error_water]
type = FunctionValuePostprocessor
function = fcn_mass_error_w
outputs = none # no reason why mass should be conserved
[../]
[./mass_error_gas]
type = FunctionValuePostprocessor
function = fcn_mass_error_g
outputs = none # no reason why mass should be conserved
[../]
[./pw_left]
type = PointValue
point = '0 0 0'
variable = pwater
outputs = none
[../]
[./pw_right]
type = PointValue
point = '1 0 0'
variable = pwater
outputs = none
[../]
[./error_water]
type = FunctionValuePostprocessor
function = fcn_error_water
[../]
[./pg_left]
type = PointValue
point = '0 0 0'
variable = pgas
outputs = none
[../]
[./pg_right]
type = PointValue
point = '1 0 0'
variable = pgas
outputs = none
[../]
[./error_gas]
type = FunctionValuePostprocessor
function = fcn_error_gas
[../]
[]
[Functions]
[./pwater_initial]
type = ParsedFunction
value = 1-x/2
[../]
[./pgas_initial]
type = ParsedFunction
value = 2-x/5
[../]
[./fcn_mass_error_w]
type = ParsedFunction
value = 'abs(0.5*(mi-mf)/(mi+mf))'
vars = 'mi mf'
vals = 'mwater_init mwater_fin'
[../]
[./fcn_mass_error_g]
type = ParsedFunction
value = 'abs(0.5*(mi-mf)/(mi+mf))'
vars = 'mi mf'
vals = 'mgas_init mgas_fin'
[../]
[./fcn_error_water]
type = ParsedFunction
value = 'abs((-b*log(-(gdens0*xval+(-b*exp(-p0/b)))/b)-p1)/p1)'
vars = 'b gdens0 p0 xval p1'
vals = '1E2 -1 pw_left 1 pw_right'
[../]
[./fcn_error_gas]
type = ParsedFunction
value = 'abs((-b*log(-(gdens0*xval+(-b*exp(-p0/b)))/b)-p1)/p1)'
vars = 'b gdens0 p0 xval p1'
vals = '0.5E2 -0.5 pg_left 1 pg_right'
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.1
mat_permeability = '1E-5 0 0 0 1E-5 0 0 0 1E-5'
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 0.5E-3'
gravity = '-1 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'gmres asm lu NONZERO 1E-10 1E-10 10000'
[../]
[]
[Executioner]
type = Steady
solve_type = Newton
[]
[Outputs]
execute_on = 'timestep_end'
file_base = gh02
csv = true
[]
(test/tests/misc/initial_solution_copy/solutions_equal.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
[]
[Variables]
[./u]
[../]
[]
[Functions]
[./initial_func]
type = ParsedFunction
value = sin(pi*x)*sin(pi*y)
[../]
[]
[Kernels]
[./diff]
type = CoefDiffusion
variable = u
coef = 0.1
[../]
[./time]
type = TimeDerivative
variable = u
[../]
[./source]
type = BodyForce
variable = u
value = 1
[../]
[]
[BCs]
active = 'func_bc'
[./left]
type = DirichletBC
variable = u
boundary = left
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 1
[../]
[./func_bc]
type = FunctionDirichletBC
variable = u
boundary = 'bottom right top left'
function = initial_func
[../]
[]
[Postprocessors]
[./test_pp]
type = TestCopyInitialSolution
execute_on = timestep_begin
[../]
[]
[Executioner]
type = Transient
num_steps = 1
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -pc_hypre_type'
petsc_options_value = 'hypre boomeramg'
[]
[Outputs]
exodus = true
[]
[ICs]
[./initial]
function = initial_func
variable = u
type = FunctionIC
[../]
[]
(modules/porous_flow/examples/multiapp_fracture_flow/diffusion_multiapp/single_var.i)
# No heat transfer between matrix and fracture, with the matrix and fracture being identical spatial domains
[Mesh]
[generate]
type = GeneratedMeshGenerator
dim = 1
nx = 100
xmin = 0
xmax = 50.0
[]
[]
[Variables]
[T]
[]
[]
[ICs]
[T]
type = FunctionIC
variable = T
function = 'if(x<0.5, 2, 0)' # delta function
[]
[]
[Kernels]
[dot]
type = TimeDerivative
variable = T
[]
[fracture_diffusion]
type = Diffusion
variable = T
[]
[]
[Preconditioning]
[entire_jacobian]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
dt = 100
end_time = 100
[]
[VectorPostprocessors]
[final_results]
type = LineValueSampler
start_point = '0 0 0'
end_point = '50 0 0'
num_points = 11
sort_by = x
variable = T
outputs = final_csv
[]
[]
[Outputs]
print_linear_residuals = false
[final_csv]
type = CSV
sync_times = 100
sync_only = true
[]
[]
(modules/phase_field/test/tests/misc/equal_gradient_lagrange.i)
#
# This test demonstrates an InterfaceKernel set that can enforce the componentwise
# continuity of the gradient of a variable using the Lagrange multiplier method.
#
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 20
ny = 10
ymax = 0.5
[]
[./box1]
type = SubdomainBoundingBoxGenerator
block_id = 1
bottom_left = '0 0 0'
top_right = '0.51 1 0'
input = gen
[../]
[./box2]
type = SubdomainBoundingBoxGenerator
block_id = 2
bottom_left = '0.49 0 0'
top_right = '1 1 0'
input = box1
[../]
[./iface_u]
type = SideSetsBetweenSubdomainsGenerator
primary_block = 1
paired_block = 2
new_boundary = 10
input = box2
[../]
[]
[Variables]
[./u2]
block = 1
[./InitialCondition]
type = FunctionIC
function = 'r:=sqrt((x-0.4)^2+(y-0.5)^2);if(r<0.05,5,1)'
[../]
[../]
[./v2]
block = 2
initial_condition = 0.8
[../]
[./lambda]
[../]
[]
[Kernels]
[./u2_diff]
type = Diffusion
variable = u2
block = 1
[../]
[./u2_dt]
type = TimeDerivative
variable = u2
block = 1
[../]
[./v2_diff]
type = Diffusion
variable = v2
block = 2
[../]
[./v2_dt]
type = TimeDerivative
variable = v2
block = 2
[../]
[./lambda]
type = NullKernel
variable = lambda
[../]
[]
[InterfaceKernels]
[./iface]
type = InterfaceDiffusionBoundaryTerm
boundary = 10
variable = u2
neighbor_var = v2
[../]
[./lambda]
type = EqualGradientLagrangeMultiplier
variable = lambda
boundary = 10
element_var = u2
neighbor_var = v2
component = 0
[../]
[./constraint]
type = EqualGradientLagrangeInterface
boundary = 10
lambda = lambda
variable = u2
neighbor_var = v2
component = 0
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[VectorPostprocessors]
[./uv]
type = LineValueSampler
variable = 'u2 v2'
start_point = '0 0.5 0'
end_point = '1 0.5 0'
sort_by = x
num_points = 100
[../]
[]
[Executioner]
type = Transient
petsc_options_iname = '-pctype -sub_pc_type -sub_pc_factor_shift_type -pc_factor_shift_type'
petsc_options_value = ' asm lu nonzero nonzero'
dt = 0.002
num_steps = 10
[]
[Outputs]
exodus = true
csv = true
hide = lambda
print_linear_residuals = false
[]
(modules/richards/test/tests/buckley_leverett/bl22_lumped.i)
# two-phase version
# super-sharp front version
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
richardsVarNames_UO = PPNames
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1E-4 1E-3 1E-2 2E-2 5E-2 6E-2 0.1 0.2'
x = '0 1E-2 1E-1 1 5 20 40 41'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E6
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-4
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-4
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[./bounds_dummy]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsLumpedMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsLumpedMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[./richardsppenalty]
type = RichardsPPenalty
variable = pgas
a = 1E-18
lower_var = pwater
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_water
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_gas
[../]
[]
[BCs]
[./left_w]
type = DirichletBC
variable = pwater
boundary = left
value = 1E6
[../]
[./left_g]
type = DirichletBC
variable = pgas
boundary = left
value = 1000
[../]
[./right_w]
type = DirichletBC
variable = pwater
boundary = right
value = -100000
[../]
[./right_g]
type = DirichletBC
variable = pgas
boundary = right
value = 0
[../]
[]
[Functions]
[./initial_water]
type = ParsedFunction
value = 1000000*(1-min(x/5,1))-if(x<5,0,100000)
[../]
[./initial_gas]
type = ParsedFunction
value = 1000
[../]
[]
[Materials]
[./rock]
type = RichardsMaterial
block = 0
mat_porosity = 0.15
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
viscosity = '1E-3 1E-6'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./standard]
type = SMP
full = true
petsc_options = '-snes_converged_reason -ksp_diagonal_scale -ksp_diagonal_scale_fix -ksp_gmres_modifiedgramschmidt'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap -snes_atol -snes_rtol -snes_max_it -ksp_rtol -ksp_atol'
petsc_options_value = 'gmres asm lu NONZERO 2 1E-10 1E-10 20 1E-10 1E-100'
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
end_time = 50
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
execute_on = 'timestep_end'
file_base = bl22_lumped
[./exodus]
type = Exodus
interval = 100000
hide = 'pgas bounds_dummy'
execute_on = 'initial final timestep_end'
[../]
[]
(modules/porous_flow/test/tests/hysteresis/hys_sat_02.i)
# 1-phase hysteresis. Saturation calculation. Primary drying curve with low_extension_type = quadratic
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0
xmax = 10
nx = 100
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = pp
[]
[]
[Variables]
[pp]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = '1 - x'
[]
[]
[BCs]
[pp]
type = FunctionDirichletBC
variable = pp
function = '1 - x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = pp
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
[]
[saturation_calculator]
type = PorousFlow1PhaseHysP
alpha_d = 10.0
alpha_w = 10.0
n_d = 1.1
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 7.0
low_extension_type = quadratic
porepressure = pp
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[saturation]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[saturation]
type = PorousFlowPropertyAux
variable = saturation
property = saturation
phase = 0
[]
[]
[VectorPostprocessors]
[sat]
type = LineValueSampler
start_point = '0.5 0 0'
end_point = '9.5 0 0'
num_points = 10
sort_by = x
variable = 'saturation pp'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(modules/combined/test/tests/DiffuseCreep/strain.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 50
ny = 2
xmin = 0
xmax = 10
ymin = 0
ymax = 2
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);0.1+0.1*v'
[../]
[../]
[./mu]
[../]
[./jx]
[../]
[./jy]
[../]
[]
[AuxVariables]
[./gb]
family = LAGRANGE
order = FIRST
[../]
[./creep_strain_xx]
family = MONOMIAL
order = CONSTANT
[../]
[./creep_strain_yy]
family = MONOMIAL
order = CONSTANT
[../]
[./creep_strain_xy]
family = MONOMIAL
order = CONSTANT
[../]
[]
[Kernels]
[./conc]
type = CHSplitConcentration
variable = c
mobility = mobility_prop
chemical_potential_var = mu
[../]
[./chempot]
type = CHSplitChemicalPotential
variable = mu
chemical_potential_prop = mu_prop
c = c
[../]
[./flux_x]
type = CHSplitFlux
variable = jx
component = 0
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./flux_y]
type = CHSplitFlux
variable = jy
component = 1
mobility_name = mobility_prop
mu = mu
c = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[]
[AuxKernels]
[./gb]
type = FunctionAux
variable = gb
function = 'x0:=5.0;thk:=0.5;m:=2;r:=abs(x-x0);v:=exp(-(r/thk)^m);v'
[../]
[./creep_strain_xx]
type = RankTwoAux
variable = creep_strain_xx
rank_two_tensor = creep_strain
index_i = 0
index_j = 0
[../]
[./creep_strain_yy]
type = RankTwoAux
variable = creep_strain_yy
rank_two_tensor = creep_strain
index_i = 1
index_j = 1
[../]
[./creep_strain_xy]
type = RankTwoAux
variable = creep_strain_xy
rank_two_tensor = creep_strain
index_i = 0
index_j = 1
[../]
[]
[Materials]
[./chemical_potential]
type = DerivativeParsedMaterial
block = 0
f_name = mu_prop
args = c
function = 'c'
derivative_order = 1
[../]
[./var_dependence]
type = DerivativeParsedMaterial
block = 0
function = 'c*(1.0-c)'
args = c
f_name = var_dep
derivative_order = 1
[../]
[./mobility]
type = CompositeMobilityTensor
block = 0
M_name = mobility_prop
tensors = diffusivity
weights = var_dep
args = c
[../]
[./phase_normal]
type = PhaseNormalTensor
phase = gb
normal_tensor_name = gb_normal
[../]
[./aniso_tensor]
type = GBDependentAnisotropicTensor
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = aniso_tensor
[../]
[./diffusivity]
type = GBDependentDiffusivity
gb = gb
bulk_parameter = 0.1
gb_parameter = 1
gb_normal_tensor_name = gb_normal
gb_tensor_prop_name = diffusivity
[../]
[./diffuse_strain_increment]
type = FluxBasedStrainIncrement
xflux = jx
yflux = jy
gb = gb
property_name = diffuse
[../]
[./diffuse_creep_strain]
type = SumTensorIncrements
tensor_name = creep_strain
coupled_tensor_increment_names = diffuse
[../]
[]
[BCs]
[./Periodic]
[./all]
auto_direction = 'x y'
[../]
[../]
[]
[Executioner]
type = Transient
solve_type = PJFNK
petsc_options_iname = '-pc_type -ksp_grmres_restart -sub_ksp_type -sub_pc_type -pc_asm_overlap'
petsc_options_value = 'asm 31 preonly lu 1'
nl_max_its = 5
dt = 20
num_steps = 5
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Outputs]
exodus = true
[]
(test/tests/transfers/multiapp_projection_transfer/high_order_master.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 4
ny = 4
[]
[Functions]
[./test_function]
type = ParsedFunction
value = '2.5*x^2 + 0.75*y^2 + 0.15*x*y'
[../]
[]
[AuxVariables]
[./from_sub]
family = monomial
order = first
[../]
[./test_var]
family = monomial
order = first
[./InitialCondition]
type = FunctionIC
function = test_function
[../]
[../]
[]
[Variables]
[./u]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
[]
[Outputs]
execute_on = 'timestep_end'
exodus = true
[]
[MultiApps]
[./sub]
type = FullSolveMultiApp
app_type = MooseTestApp
execute_on = initial
positions = '0.0 0.0 0.0'
input_files = high_order_sub.i
[../]
[]
[Transfers]
[./from]
type = MultiAppProjectionTransfer
direction = from_multiapp
execute_on = same_as_multiapp
multi_app = sub
source_variable = test_var
variable = from_sub
[../]
[./to]
type = MultiAppProjectionTransfer
direction = to_multiapp
execute_on = same_as_multiapp
multi_app = sub
source_variable = test_var
variable = from_master
[../]
[]
(test/tests/time_steppers/timesequence_stepper/timesequence_restart3.i)
[Mesh]
file = timesequence_restart1_cp/0002_mesh.cpr
[]
[Problem]
restart_file_base = timesequence_restart1_cp/0002
[]
[Functions]
[./exact_fn]
type = ParsedFunction
value = t*t*(x*x+y*y)
[../]
[./forcing_fn]
type = ParsedFunction
value = 2*t*(x*x+y*y)-4*t*t
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = SECOND
[../]
[]
[ICs]
[./u_var]
type = FunctionIC
variable = u
function = exact_fn
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./all]
type = FunctionDirichletBC
variable = u
boundary = 'left right top bottom'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
end_time = 4.5
[./TimeStepper]
type = TimeSequenceStepper
time_sequence = '0 0.85 1.3 1.9 2 4 4.5'
[../]
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/recover/pffltvd.i)
# Tests that PorousFlow can successfully recover using a checkpoint file.
# This test contains stateful material properties, adaptivity, integrated
# boundary conditions with nodal-sized materials, and TVD flux limiting.
#
# This test file is run three times:
# 1) The full input file is run to completion
# 2) The input file is run for half the time and checkpointing is included
# 3) The input file is run in recovery using the checkpoint data
#
# The final output of test 3 is compared to the final output of test 1 to verify
# that recovery was successful.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[Adaptivity]
initial_steps = 1
initial_marker = tracer_marker
marker = tracer_marker
max_h_level = 1
[Markers]
[tracer_marker]
type = ValueRangeMarker
variable = tracer
lower_bound = 0.02
upper_bound = 0.98
[]
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '2 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowFluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = advective_flux_calculator_0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowFluxLimitedTVDAdvection
variable = porepressure
advective_flux_calculator = advective_flux_calculator_1
[]
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 2
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[advective_flux_calculator_0]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 0
[]
[advective_flux_calculator_1]
type = PorousFlowAdvectiveFluxCalculatorSaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[]
[VectorPostprocessors]
[tracer]
type = NodalValueSampler
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 0.2
dt = 0.05
[]
[Outputs]
csv = true
[]
(modules/rdg/test/tests/advection_1d/1d_aefv_square_wave.i)
############################################################
[GlobalParams]
order = CONSTANT
family = MONOMIAL
u = u
slope_limiting = lslope
implicit = false
[]
############################################################
[Mesh]
type = GeneratedMesh
dim = 1
xmin = 0
xmax = 1
nx = 100
[]
############################################################
[Functions]
[./ic_u]
type = PiecewiseConstant
axis = x
direction = right
xy_data = '0.1 0.5
0.6 1.0
1.0 0.5'
[../]
[]
############################################################
[UserObjects]
[./lslope]
type = AEFVSlopeLimitingOneD
execute_on = 'linear'
scheme = 'none' #none | minmod | mc | superbee
[../]
[./internal_side_flux]
type = AEFVUpwindInternalSideFlux
execute_on = 'linear'
[../]
[./free_outflow_bc]
type = AEFVFreeOutflowBoundaryFlux
execute_on = 'linear'
[../]
[]
############################################################
[Variables]
[./u]
[../]
[]
############################################################
[ICs]
[./u_ic]
type = FunctionIC
variable = 'u'
function = ic_u
[../]
[]
############################################################
[Kernels]
[./time_u]
implicit = true
type = TimeDerivative
variable = u
[../]
[]
############################################################
[DGKernels]
[./concentration]
type = AEFVKernel
variable = u
component = 'concentration'
flux = internal_side_flux
[../]
[]
############################################################
[BCs]
[./concentration]
type = AEFVBC
boundary = 'left right'
variable = u
component = 'concentration'
flux = free_outflow_bc
[../]
[]
############################################################
[Materials]
[./aefv]
type = AEFVMaterial
block = 0
[../]
[]
############################################################
[Executioner]
type = Transient
[./TimeIntegrator]
type = ExplicitMidpoint
[../]
solve_type = 'LINEAR'
l_tol = 1e-4
nl_rel_tol = 1e-20
nl_abs_tol = 1e-8
nl_max_its = 60
start_time = 0.0
num_steps = 4 # 4 | 400 for complete run
dt = 5e-4
dtmin = 1e-6
[]
[Outputs]
[./Exodus]
type = Exodus
file_base = 1d_aefv_square_wave_none_out
interval = 2
[../]
perf_graph = true
[]
(modules/porous_flow/test/tests/numerical_diffusion/framework.i)
# Using framework objects: no mass lumping or upwinding
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[Variables]
[tracer]
[]
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = TimeDerivative
variable = tracer
[]
[flux]
type = ConservativeAdvection
velocity = '0.1 0 0'
variable = tracer
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-1
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
[out]
type = CSV
execute_on = final
[]
[]
(modules/richards/test/tests/theis/th22.i)
# two-phase, fully-saturated
# production
[Mesh]
type = FileMesh
file = th02_input.e
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[Functions]
[./dts]
type = PiecewiseLinear
y = '1 2 4 20'
x = '0 1 10 100'
[../]
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = 'pwater pgas'
[../]
[./DensityWater]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./DensityGas]
type = RichardsDensityConstBulk
dens0 = 1
bulk_mod = 2E6
[../]
[./SeffWater]
type = RichardsSeff2waterVG
m = 0.8
al = 1E-5
[../]
[./SeffGas]
type = RichardsSeff2gasVG
m = 0.8
al = 1E-5
[../]
[./RelPermWater]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./RelPermGas]
type = RichardsRelPermPower
simm = 0.0
n = 3
[../]
[./SatWater]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SatGas]
type = RichardsSat
s_res = 0.0
sum_s_res = 0.0
[../]
[./SUPGwater]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./SUPGgas]
type = RichardsSUPGstandard
p_SUPG = 1E-5
[../]
[./total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
[./pwater]
order = FIRST
family = LAGRANGE
[../]
[./pgas]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./water_ic]
type = FunctionIC
variable = pwater
function = initial_pressure
[../]
[./gas_ic]
type = FunctionIC
variable = pgas
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsfwater richardstwater richardsfgas richardstgas'
[./richardstwater]
type = RichardsMassChange
variable = pwater
[../]
[./richardsfwater]
type = RichardsFlux
variable = pwater
[../]
[./richardstgas]
type = RichardsMassChange
variable = pgas
[../]
[./richardsfgas]
type = RichardsFlux
variable = pgas
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = SeffWater
pressure_vars = 'pwater pgas'
[../]
[]
[DiracKernels]
[./bh]
type = RichardsPolyLineSink
pressures = '-1E9 1E9'
fluxes = '200 200'
point_file = th01.points
SumQuantityUO = total_outflow_mass
variable = pwater
[../]
[]
[Postprocessors]
[./flow_report]
type = RichardsPlotQuantity
uo = total_outflow_mass
[../]
[./p50]
type = PointValue
variable = pwater
point = '50 0 0'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 1E5
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 1
mat_porosity = 0.1
mat_permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
density_UO = 'DensityWater DensityGas'
relperm_UO = 'RelPermWater RelPermGas'
SUPG_UO = 'SUPGwater SUPGgas'
sat_UO = 'SatWater SatGas'
seff_UO = 'SeffWater SeffGas'
viscosity = '1E-3 1E-5'
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason -ksp_diagonal_scale -ksp_diagonal_scale_fix -ksp_gmres_modifiedgramschmidt -snes_linesearch_monitor'
petsc_options_iname = '-ksp_type -pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap -snes_atol -snes_rtol -snes_max_it -ksp_rtol -ksp_atol'
petsc_options_value = 'gmres asm lu NONZERO 2 1E-7 1E-10 20 1E-10 1E-100'
[../]
[]
[Executioner]
type = Transient
end_time = 100
solve_type = NEWTON
[./TimeStepper]
type = FunctionDT
function = dts
[../]
[]
[Outputs]
execute_on = 'timestep_end'
file_base = th22
exodus = true
csv = true
[]
(modules/richards/test/tests/dirac/bh03.i)
# fully-saturated
# injection
[Mesh]
type = GeneratedMesh
dim = 3
nx = 1
ny = 1
nz = 1
xmin = -1
xmax = 1
ymin = -1
ymax = 1
zmin = -1
zmax = 1
[]
[GlobalParams]
richardsVarNames_UO = PPNames
[]
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E8
[../]
[./borehole_total_outflow_mass]
type = RichardsSumQuantity
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[DiracKernels]
[./bh]
type = RichardsBorehole
bottom_pressure = 1E7
point_file = bh03.bh
SumQuantityUO = borehole_total_outflow_mass
variable = pressure
unit_weight = '0 0 0'
character = -1
[../]
[]
[Postprocessors]
[./bh_report]
type = RichardsPlotQuantity
uo = borehole_total_outflow_mass
[../]
[./fluid_mass0]
type = RichardsMass
variable = pressure
execute_on = timestep_begin
[../]
[./fluid_mass1]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
[./zmass_error]
type = FunctionValuePostprocessor
function = mass_bal_fcn
execute_on = timestep_end
[../]
[./p0]
type = PointValue
variable = pressure
point = '1 1 1'
execute_on = timestep_end
[../]
[]
[Functions]
[./initial_pressure]
type = ParsedFunction
value = 0
[../]
[./mass_bal_fcn]
type = ParsedFunction
value = abs((a-c+d)/2/(a+c))
vars = 'a c d'
vals = 'fluid_mass1 fluid_mass0 bh_report'
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = 0
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-12 0 0 0 1E-12 0 0 0 1E-12'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 0'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-10 1E-10 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 0.5
dt = 1E-2
solve_type = NEWTON
[]
[Outputs]
file_base = bh03
exodus = false
csv = true
execute_on = timestep_end
[]
(test/tests/scaling/residual-based/residual-based-two-var.i)
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = '1000 * (1 - x)'
[]
[v]
type = FunctionIC
variable = v
function = '1e-3 * (1 - x)'
[]
[]
[Variables]
[u][]
[v][]
[]
[Problem]
type = ReferenceResidualProblem
extra_tag_vectors = 'ref'
reference_vector = 'ref'
[]
[Kernels]
[./diff]
type = Diffusion
variable = u
extra_vector_tags = 'ref'
[../]
[rxn]
type = PReaction
power = 2
variable = u
extra_vector_tags = 'ref'
[]
[./diff_v]
type = Diffusion
variable = v
extra_vector_tags = 'ref'
[../]
[rxn_v]
type = PReaction
power = 2
variable = v
extra_vector_tags = 'ref'
[]
[]
[BCs]
[./left]
type = DirichletBC
variable = u
boundary = left
value = 1000
[../]
[./right]
type = DirichletBC
variable = u
boundary = right
value = 0
[../]
[./left_v]
type = DirichletBC
variable = v
boundary = left
value = 1e-3
[../]
[./right_v]
type = DirichletBC
variable = v
boundary = right
value = 0
[../]
[]
[Executioner]
type = Steady
solve_type = PJFNK
verbose = true
automatic_scaling = true
resid_vs_jac_scaling_param = 1
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/buckley_leverett/bl01.i)
# Buckley-Leverett 1-phase.
# The front starts at (around) x=5, and at t=50 it should
# have moved to x=9.6. The version below has a nonzero
# suction function, and at t=50, the front sits between
# (about) x=9.6 and x=9.9. Changing the van-Genuchten
# al parameter to 1E-4 softens the front so it sits between
# (about) x=9.7 and x=10.4, and the simulation runs much faster.
# With al=1E-2 and nx=600, the front sits between x=9.6 and x=9.8,
# but takes about 100 times longer to run.
[Mesh]
type = GeneratedMesh
dim = 1
nx = 150
xmin = 0
xmax = 15
[]
[GlobalParams]
PorousFlowDictator = dictator
compute_enthalpy = false
compute_internal_energy = false
[]
[Variables]
[pp]
[InitialCondition]
type = FunctionIC
function = 'max((1000000-x/5*1000000)-20000,-20000)'
[]
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[flux0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pp
gravity = '0 0 0'
[]
[]
[BCs]
[left]
type = DirichletBC
variable = pp
boundary = left
value = 980000
[]
[]
[AuxVariables]
[sat]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[sat]
type = MaterialStdVectorAux
variable = sat
execute_on = timestep_end
index = 0
property = PorousFlow_saturation_qp
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.8
alpha = 1e-3
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e6
viscosity = 1e-3
density0 = 1000
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-10 0 0 0 1E-10 0 0 0 1E-10'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.15
[]
[]
[Preconditioning]
active = andy
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'gmres bjacobi 1E-10 1E-10 20'
[]
[]
[Functions]
[timestepper]
type = PiecewiseLinear
x = '0 0.01 0.1 1 1.5 2 20 30 40 50'
y = '0.01 0.1 0.2 0.3 0.1 0.3 0.3 0.4 0.4 0.5'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 50
[TimeStepper]
type = FunctionDT
function = timestepper
[]
[]
[VectorPostprocessors]
[pp]
type = LineValueSampler
start_point = '0 0 0'
end_point = '15 0 0'
num_points = 150
sort_by = x
variable = pp
[]
[sat]
type = LineValueSampler
start_point = '0 0 0'
end_point = '15 0 0'
num_points = 150
sort_by = x
variable = sat
[]
[]
[Outputs]
file_base = bl01
[csv]
type = CSV
sync_only = true
sync_times = '0.01 50'
[]
[exodus]
type = Exodus
execute_on = 'initial final'
[]
[]
(test/tests/functions/solution_function/solution_function_rot1.i)
# checking rotation of points by 45 deg about z axis in a SolutionUserObject
[Mesh]
# this is chosen so when i rotate through 45deg i get a length of "1" along the x or y or z direction
type = GeneratedMesh
dim = 3
xmin = -0.70710678
xmax = 0.70710678
nx = 3
ymin = -0.70710678
ymax = 0.70710678
ny = 3
zmin = -0.70710678
zmax = 0.70710678
nz = 3
[]
[UserObjects]
[./solution_uo]
type = SolutionUserObject
mesh = cube_with_u_equals_x.e
timestep = LATEST
system_variables = u
rotation0_vector = '0 0 1'
rotation0_angle = 45
transformation_order = rotation0
[../]
[]
[Variables]
[./u]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./u_init]
type = FunctionIC
variable = u
function = solution_fcn
[../]
[]
[Functions]
[./solution_fcn]
type = SolutionFunction
from_variable = u
solution = solution_uo
[../]
[]
[Kernels]
[./diff]
type = TimeDerivative
variable = u
[../]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
l_max_its = 800
nl_rel_tol = 1e-10
num_steps = 1
end_time = 1
dt = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = solution_function_rot1
exodus = true
[]
(modules/porous_flow/examples/multiapp_fracture_flow/diffusion_multiapp/fracture_app_heat.i)
# Heat energy from this fracture app is transferred to the matrix app
[Mesh]
[generate]
type = GeneratedMeshGenerator
dim = 1
nx = 100
xmin = 0
xmax = 50.0
[]
[]
[Variables]
[frac_T]
[]
[]
[ICs]
[frac_T]
type = FunctionIC
variable = frac_T
function = 'if(x<1E-6, 2, 0)' # delta function
[]
[]
[AuxVariables]
[transferred_matrix_T]
[]
[heat_to_matrix]
[]
[]
[Kernels]
[dot]
type = TimeDerivative
variable = frac_T
[]
[fracture_diffusion]
type = Diffusion
variable = frac_T
[]
[toMatrix]
type = PorousFlowHeatMassTransfer
variable = frac_T
v = transferred_matrix_T
transfer_coefficient = 0.004
[]
[]
[AuxKernels]
[heat_to_matrix]
type = ParsedAux
variable = heat_to_matrix
args = 'frac_T transferred_matrix_T'
function = '0.004 * (frac_T - transferred_matrix_T)'
[]
[]
[Preconditioning]
[entire_jacobian]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
dt = 100
end_time = 100
[]
[VectorPostprocessors]
[final_results]
type = LineValueSampler
start_point = '0 0 0'
end_point = '50 0 0'
num_points = 11
sort_by = x
variable = frac_T
outputs = final_csv
[]
[]
[Outputs]
print_linear_residuals = false
[final_csv]
type = CSV
sync_times = 100
sync_only = true
[]
[]
[MultiApps]
[matrix_app]
type = TransientMultiApp
input_files = matrix_app_heat.i
execute_on = TIMESTEP_END
[]
[]
[Transfers]
[heat_to_matrix]
type = MultiAppCopyTransfer
direction = to_multiapp
multi_app = matrix_app
source_variable = heat_to_matrix
variable = heat_from_frac
[]
[T_from_matrix]
type = MultiAppCopyTransfer
direction = from_multiapp
multi_app = matrix_app
source_variable = matrix_T
variable = transferred_matrix_T
[]
[]
(modules/combined/examples/publications/rapid_dev/fig3.i)
#
# Fig. 3 input for 10.1016/j.commatsci.2017.02.017
# D. Schwen et al./Computational Materials Science 132 (2017) 36-45
# Comparison of an analytical (ca) and numerical (c) phase field interface
# profile. Supply the L parameter on the command line to gather the data for
# the inset plot.
#
[Mesh]
type = GeneratedMesh
dim = 1
nx = ${L}
xmin = -30
xmax = 30
[]
[Functions]
[./solution]
type = ParsedFunction
value = 0.5*(1+tanh(x/2^0.5))
[../]
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = solution
#type = FunctionIC
#function = if(x>0,1,0)
[../]
[../]
[./w]
[../]
[]
[AuxVariables]
[./diff]
[../]
[./ca]
[./InitialCondition]
type = FunctionIC
function = '0.5*(1+tanh(x/2^0.5))'
[../]
[../]
[]
[AuxKernels]
[./diff]
type = ParsedAux
variable = diff
function = c-ca
args = 'c ca'
[../]
[]
[Materials]
[./F]
type = DerivativeParsedMaterial
f_name = F
function = 'c^2*(1-c)^2'
args = c
[../]
[]
[Kernels]
# Split Cahn-Hilliard kernels
[./c_res]
type = SplitCHParsed
variable = c
f_name = F
kappa_name = 1
w = w
[../]
[./wres]
type = SplitCHWRes
variable = w
mob_name = 1
[../]
[./time]
type = CoupledTimeDerivative
variable = w
v = c
[../]
[]
[Postprocessors]
[./L2]
type = ElementL2Error
function = solution
variable = c
[../]
[]
[VectorPostprocessors]
[./c]
type = LineValueSampler
variable = 'c ca diff'
start_point = '-10 0 0'
end_point = '10 0 0'
num_points = 200
sort_by = x
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
nl_rel_tol = 1e-10
nl_abs_tol = 1e-12
end_time = 1e+6
[./TimeStepper]
type = IterationAdaptiveDT
dt = 1
optimal_iterations = 5
iteration_window = 1
[../]
[]
[Outputs]
csv = true
execute_on = final
[]
(modules/combined/test/tests/eigenstrain/composite.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 5
ny = 5
[]
[GlobalParams]
displacements = 'disp_x disp_y'
[]
[Variables]
[./disp_x]
order = FIRST
family = LAGRANGE
[../]
[./disp_y]
order = FIRST
family = LAGRANGE
[../]
[]
[Kernels]
[./TensorMechanics]
[../]
[]
[AuxVariables]
[./c]
[./InitialCondition]
type = FunctionIC
function = x
[../]
[../]
[./s11]
family = MONOMIAL
order = CONSTANT
[../]
[./s22]
family = MONOMIAL
order = CONSTANT
[../]
[./ds11]
family = MONOMIAL
order = CONSTANT
[../]
[./ds22]
family = MONOMIAL
order = CONSTANT
[../]
[]
[AuxKernels]
[./s11]
type = RankTwoAux
variable = s11
rank_two_tensor = eigenstrain
index_i = 0
index_j = 0
[../]
[./s22]
type = RankTwoAux
variable = s22
rank_two_tensor = eigenstrain
index_i = 1
index_j = 1
[../]
[./ds11]
type = RankTwoAux
variable = ds11
rank_two_tensor = delastic_strain/dc
index_i = 0
index_j = 0
[../]
[./ds22]
type = RankTwoAux
variable = ds22
rank_two_tensor = delastic_strain/dc
index_i = 1
index_j = 1
[../]
[]
[Materials]
[./elasticity_tensor]
type = ComputeElasticityTensor
C_ijkl = '1 1'
fill_method = symmetric_isotropic
[../]
[./stress]
type = ComputeLinearElasticStress
[../]
[./strain]
type = ComputeSmallStrain
displacements = 'disp_x disp_y'
eigenstrain_names = 'eigenstrain'
[../]
[./eigen1]
type = GenericConstantRankTwoTensor
tensor_values = '1 -1 0 0 0 0'
tensor_name = eigen1
[../]
[./eigen2]
type = GenericConstantRankTwoTensor
tensor_values = '-1 1 0 0 0 0'
tensor_name = eigen2
[../]
[./weight1]
type = DerivativeParsedMaterial
function = 0.02*c^2
f_name = weight1
args = c
[../]
[./weight2]
type = DerivativeParsedMaterial
function = 0.02*(1-c)^2
f_name = weight2
args = c
[../]
[./eigenstrain]
type = CompositeEigenstrain
tensors = 'eigen1 eigen2'
weights = 'weight1 weight2'
args = c
eigenstrain_name = eigenstrain
[../]
[]
[BCs]
[./bottom_y]
type = DirichletBC
variable = disp_y
boundary = bottom
value = 0
[../]
[./left_x]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[]
[Executioner]
type = Transient
num_steps = 1
[]
[Outputs]
exodus = true
execute_on = final
[]
(test/tests/functions/image_function/image_2d.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
[]
[Variables]
[u]
[]
[]
[Functions]
[image_func]
type = ImageFunction
file_base = stack/test
file_suffix = png
file_range = '0' # file_range is a vector input, a single entry means "read only 1 file"
[]
[]
[ICs]
[u_ic]
type = FunctionIC
function = image_func
variable = u
[]
[]
[Problem]
type = FEProblem
solve = false
[]
[Executioner]
type = Transient
num_steps = 1
dt = 0.1
[]
[Outputs]
exodus = true
[]
(test/tests/multiapps/grid-sequencing/vi-coarser.i)
l=10
nx=20
num_steps=2
[Mesh]
type = GeneratedMesh
dim = 1
xmax = ${l}
nx = ${nx}
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[bounds][]
[]
[Bounds]
[./u_upper_bounds]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = upper
bound_value = ${l}
[../]
[./u_lower_bounds]
type = ConstantBoundsAux
variable = bounds
bounded_variable = u
bound_type = lower
bound_value = 0
[../]
[]
[ICs]
[u]
type = FunctionIC
variable = u
function = 'x'
[]
[]
[Kernels]
[time]
type = TimeDerivative
variable = u
[]
[diff]
type = Diffusion
variable = u
[]
[ffn]
type = BodyForce
variable = u
function = 'if(x<5,-1,1)'
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 0
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = ${l}
variable = u
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
num_steps = ${num_steps}
solve_type = NEWTON
dtmin = 1
petsc_options = '-snes_vi_monitor'
petsc_options_iname = '-snes_max_linear_solve_fail -ksp_max_it -pc_type -sub_pc_factor_levels -snes_linesearch_type -snes_type'
petsc_options_value = '0 30 asm 16 basic vinewtonrsls'
[]
[Outputs]
exodus = true
[csv]
type = CSV
execute_on = 'nonlinear timestep_end'
[]
[dof]
type = DOFMap
execute_on = 'initial'
[]
[]
[Debug]
show_var_residual_norms = true
[]
[Postprocessors]
active = 'upper_violations lower_violations'
[upper_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = ${fparse 10+1e-8}
comparator = 'greater'
[]
[lower_violations]
type = GreaterThanLessThanPostprocessor
variable = u
execute_on = 'nonlinear timestep_end'
value = -1e-8
comparator = 'less'
[]
[nls]
type = NumNonlinearIterations
[]
[cum_nls]
type = CumulativeValuePostprocessor
postprocessor = nls
[]
[]
(modules/porous_flow/test/tests/heterogeneous_materials/constant_poroperm2.i)
# Assign porosity and permeability variables from constant AuxVariables to create
# a heterogeneous model
[Mesh]
type = GeneratedMesh
dim = 3
nx = 3
ny = 3
nz = 3
xmin = 1
xmax = 4
ymin = 1
ymax = 4
zmin = 1
zmax = 4
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 -10'
[]
[Variables]
[ppwater]
initial_condition = 1e6
[]
[]
[AuxVariables]
[poro]
family = MONOMIAL
order = CONSTANT
[]
[permxx]
family = MONOMIAL
order = CONSTANT
[]
[permxy]
family = MONOMIAL
order = CONSTANT
[]
[permxz]
family = MONOMIAL
order = CONSTANT
[]
[permyx]
family = MONOMIAL
order = CONSTANT
[]
[permyy]
family = MONOMIAL
order = CONSTANT
[]
[permyz]
family = MONOMIAL
order = CONSTANT
[]
[permzx]
family = MONOMIAL
order = CONSTANT
[]
[permzy]
family = MONOMIAL
order = CONSTANT
[]
[permzz]
family = MONOMIAL
order = CONSTANT
[]
[poromat]
family = MONOMIAL
order = CONSTANT
[]
[permxxmat]
family = MONOMIAL
order = CONSTANT
[]
[permxymat]
family = MONOMIAL
order = CONSTANT
[]
[permxzmat]
family = MONOMIAL
order = CONSTANT
[]
[permyxmat]
family = MONOMIAL
order = CONSTANT
[]
[permyymat]
family = MONOMIAL
order = CONSTANT
[]
[permyzmat]
family = MONOMIAL
order = CONSTANT
[]
[permzxmat]
family = MONOMIAL
order = CONSTANT
[]
[permzymat]
family = MONOMIAL
order = CONSTANT
[]
[permzzmat]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[poromat]
type = PorousFlowPropertyAux
property = porosity
variable = poromat
[]
[permxxmat]
type = PorousFlowPropertyAux
property = permeability
variable = permxxmat
column = 0
row = 0
[]
[permxymat]
type = PorousFlowPropertyAux
property = permeability
variable = permxymat
column = 1
row = 0
[]
[permxzmat]
type = PorousFlowPropertyAux
property = permeability
variable = permxzmat
column = 2
row = 0
[]
[permyxmat]
type = PorousFlowPropertyAux
property = permeability
variable = permyxmat
column = 0
row = 1
[]
[permyymat]
type = PorousFlowPropertyAux
property = permeability
variable = permyymat
column = 1
row = 1
[]
[permyzmat]
type = PorousFlowPropertyAux
property = permeability
variable = permyzmat
column = 2
row = 1
[]
[permzxmat]
type = PorousFlowPropertyAux
property = permeability
variable = permzxmat
column = 0
row = 2
[]
[permzymat]
type = PorousFlowPropertyAux
property = permeability
variable = permzymat
column = 1
row = 2
[]
[permzzmat]
type = PorousFlowPropertyAux
property = permeability
variable = permzzmat
column = 2
row = 2
[]
[]
[ICs]
[poro]
type = RandomIC
seed = 0
variable = poro
max = 0.5
min = 0.1
[]
[permxx]
type = FunctionIC
function = permxx
variable = permxx
[]
[permxy]
type = FunctionIC
function = permxy
variable = permxy
[]
[permxz]
type = FunctionIC
function = permxz
variable = permxz
[]
[permyx]
type = FunctionIC
function = permyx
variable = permyx
[]
[permyy]
type = FunctionIC
function = permyy
variable = permyy
[]
[permyz]
type = FunctionIC
function = permyz
variable = permyz
[]
[permzx]
type = FunctionIC
function = permzx
variable = permzx
[]
[permzy]
type = FunctionIC
function = permzy
variable = permzy
[]
[permzz]
type = FunctionIC
function = permzz
variable = permzz
[]
[]
[Functions]
[permxx]
type = ParsedFunction
value = '(x*x)*1e-11'
[]
[permxy]
type = ParsedFunction
value = '(x*y)*1e-11'
[]
[permxz]
type = ParsedFunction
value = '(x*z)*1e-11'
[]
[permyx]
type = ParsedFunction
value = '(y*x)*1e-11'
[]
[permyy]
type = ParsedFunction
value = '(y*y)*1e-11'
[]
[permyz]
type = ParsedFunction
value = '(y*z)*1e-11'
[]
[permzx]
type = ParsedFunction
value = '(z*x)*1e-11'
[]
[permzy]
type = ParsedFunction
value = '(z*y)*1e-11'
[]
[permzz]
type = ParsedFunction
value = '(z*z)*1e-11'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
variable = ppwater
[]
[flux0]
type = PorousFlowAdvectiveFlux
variable = ppwater
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'ppwater'
number_fluid_phases = 1
number_fluid_components = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e9
density0 = 1000
viscosity = 1e-3
thermal_expansion = 0
cv = 2
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseFullySaturated
porepressure = ppwater
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = poro
[]
[permeability]
type = PorousFlowPermeabilityConstFromVar
perm_xx = permxx
perm_xy = permxy
perm_xz = permxz
perm_yx = permyx
perm_yy = permyy
perm_yz = permyz
perm_zx = permzx
perm_zy = permzy
perm_zz = permzz
[]
[relperm_water]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[Postprocessors]
[mass_ph0]
type = PorousFlowFluidMass
fluid_component = 0
execute_on = 'initial timestep_end'
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-10'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 100
dt = 100
[]
[Outputs]
execute_on = 'initial timestep_end'
exodus = true
perf_graph = true
[]
(modules/tensor_mechanics/test/tests/cohesive_zone_model/bilinear_mixed_scale_strength.i)
[Mesh]
[msh]
type = GeneratedMeshGenerator
dim = 2
xmax = 1
ymax = 2
nx = 5
ny = 10
[]
[block1]
type = SubdomainBoundingBoxGenerator
input = 'msh'
bottom_left = '0 0 0'
top_right = '1 1 0'
block_id = 1
block_name = 'block1'
[]
[block2]
type = SubdomainBoundingBoxGenerator
input = 'block1'
bottom_left = '0 1 0'
top_right = '1 2 0'
block_id = 2
block_name = 'block2'
[]
[split]
type = BreakMeshByBlockGenerator
input = block2
[]
[top_node]
type = ExtraNodesetGenerator
coord = '0 2 0'
input = split
new_boundary = top_node
[]
[bottom_node]
type = ExtraNodesetGenerator
coord = '0 0 0'
input = top_node
new_boundary = bottom_node
[]
[]
[GlobalParams]
displacements = 'disp_x disp_y'
[]
[Modules]
[TensorMechanics]
[Master]
generate_output = 'stress_yy'
[all]
strain = FINITE
add_variables = true
use_automatic_differentiation = true
decomposition_method = TaylorExpansion
save_in = 'resid_x resid_y'
[]
[]
[]
[]
[ICs]
[scale_factor]
type = FunctionIC
variable = scale_factor
function = 'if(x<0.5,1,100)'
[]
[]
[BCs]
[fix_x]
type = DirichletBC
preset = true
value = 0.0
boundary = bottom_node
variable = disp_x
[]
[fix_top]
type = DirichletBC
preset = true
boundary = top
variable = disp_x
value = 0
[]
[top]
type = FunctionDirichletBC
boundary = top
variable = disp_y
function = 'if(t<=0.3,t,if(t<=0.6,0.3-(t-0.3),0.6-t))'
preset = true
[]
[bottom]
type = DirichletBC
boundary = bottom
variable = disp_y
value = 0
preset = true
[]
[]
[AuxVariables]
[resid_x]
[]
[resid_y]
[]
[mode_mixity_ratio]
order = CONSTANT
family = MONOMIAL
[]
[damage]
order = CONSTANT
family = MONOMIAL
[]
[effective_displacement_at_full_degradation]
order = CONSTANT
family = MONOMIAL
[]
[maximum_mixed_mode_relative_displacement]
order = CONSTANT
family = MONOMIAL
[]
[effective_displacement_at_damage_initiation]
order = CONSTANT
family = MONOMIAL
[]
[scale_factor]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[mode_mixity_ratio]
type = MaterialRealAux
variable = mode_mixity_ratio
property = mode_mixity_ratio
execute_on = timestep_end
boundary = interface
[]
[damage]
type = MaterialRealAux
variable = damage
property = damage
execute_on = timestep_end
boundary = interface
[]
[effective_displacement_at_damage_initiation]
type = MaterialRealAux
variable = effective_displacement_at_damage_initiation
property = effective_displacement_at_damage_initiation
execute_on = timestep_end
boundary = interface
[]
[effective_displacement_at_full_degradation]
type = MaterialRealAux
variable = effective_displacement_at_full_degradation
property = effective_displacement_at_full_degradation
execute_on = timestep_end
boundary = interface
[]
[maximum_mixed_mode_relative_displacement]
type = MaterialRealAux
variable = maximum_mixed_mode_relative_displacement
property = maximum_mixed_mode_relative_displacement
execute_on = timestep_end
boundary = interface
[]
[]
[Modules/TensorMechanics/CohesiveZoneMaster]
[czm_ik]
boundary = 'interface'
[]
[]
[Materials]
[stress]
type = ADComputeFiniteStrainElasticStress
[]
[elasticity_tensor]
type = ADComputeElasticityTensor
fill_method = symmetric9
C_ijkl = '1.684e5 0.176e5 0.176e5 1.684e5 0.176e5 1.684e5 0.754e5 0.754e5 0.754e5'
[]
[czm]
type = BiLinearMixedModeTraction
boundary = 'interface'
penalty_stiffness = 1e6
GI_C = 1e3
GII_C = 1e2
normal_strength = 1e4
shear_strength = 1e3
displacements = 'disp_x disp_y'
eta = 2.2
viscosity = 1e-3
normal_strength_scale_factor = scale_factor
[]
[]
[Postprocessors]
[resid_x]
type = NodalSum
variable = resid_x
boundary = top
[]
[resid_y]
type = NodalSum
variable = resid_y
boundary = top
[]
[disp_y]
type = SideAverageValue
variable = disp_y
boundary = top
[]
[disp_x]
type = SideAverageValue
variable = disp_x
boundary = top
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = 'NEWTON'
line_search = none
petsc_options_iname = '-pc_type'
petsc_options_value = 'lu'
automatic_scaling = true
l_max_its = 2
l_tol = 1e-14
nl_max_its = 30
nl_rel_tol = 1e-10
nl_abs_tol = 1e-10
start_time = 0.0
dt = 0.01
end_time = 0.05
dtmin = 0.01
[]
[Outputs]
csv = true
exodus = true
[]
(test/tests/time_integrators/multi_stage_time_integrator/unconverged_1st_stage.i)
# This test is designed to check that a time step solve should stop if *any*
# time integrator solve stage fails, not just the *last* stage. If a time
# integrator does not check convergence per stage, then a time step proceeds
# past intermediate stages without checking nonlinear convergence. This test
# is designed to check that the 2nd stage is never even entered by making it
# impossible for the first stage to converge.
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 5
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x
[../]
[./exact_fn]
type = ParsedFunction
value = t*x
[../]
[]
[Variables]
[./u]
[../]
[]
[Kernels]
[./time]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./body]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = u
function = ic
[../]
[]
[BCs]
[./bcs]
type = FunctionDirichletBC
variable = u
boundary = '0 1'
function = exact_fn
[../]
[]
[Executioner]
type = Transient
[./TimeIntegrator]
type = LStableDirk2
[../]
num_steps = 1
abort_on_solve_fail = true
solve_type = NEWTON
nl_max_its = 0
[]
(modules/porous_flow/test/tests/dirackernels/injection_with_plasticity.i)
# Example: Injection into a uniform aquifer 10 x 10 x 5 km
# Drucker-Prager deformation
# Darcy flow
gravity = -9.81
solid_density = 2350
fluid_density = 1000
porosity0 = 0.1
[Mesh]
type = GeneratedMesh
dim = 3
xmin = 0
xmax = 1e4
ymin = 0
ymax = 1e4
zmax = 0
zmin = -5e3
nx = 2
ny = 2
nz = 2
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 ${gravity}'
displacements = 'disp_x disp_y disp_z'
strain_at_nearest_qp = true
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
thermal_expansion = 0 # Not doing a thermal simulation
bulk_modulus = 2E9
density0 = ${fluid_density}
viscosity = 5E-4
[]
[]
[]
[PorousFlowFullySaturated]
coupling_type = HydroMechanical
porepressure = pp
dictator_name = dictator
fp = simple_fluid
add_darcy_aux = false
add_stress_aux = false
stabilization = none
[]
[Variables]
[disp_x]
[]
[disp_y]
[]
[disp_z]
[]
[pp]
scaling = 1E6
[InitialCondition]
type = FunctionIC
function = ini_pp
[]
[]
[]
[Functions]
[ini_stress]
type = ParsedFunction
value = '-${gravity} * z * (${solid_density} - ${fluid_density}) * (1.0 - ${porosity0})' # initial effective stress that should result from weight force
[]
[ini_pp]
type = ParsedFunction
value = '${gravity} * z * ${fluid_density} + 1E5'
[]
[]
[BCs]
[p_top]
type = FunctionDirichletBC
variable = pp
boundary = front
function = ini_pp
[]
[x_roller]
type = DirichletBC
variable = disp_x
boundary = 'left right'
value = 0
[]
[y_roller]
type = DirichletBC
variable = disp_y
boundary = 'top bottom'
value = 0
[]
[z_confined]
type = DirichletBC
variable = disp_z
boundary = 'back front'
value = 0
[]
[]
[UserObjects]
[pls_total_outflow_mass]
type = PorousFlowSumQuantity
[]
# Cohesion
[mc_coh]
type = TensorMechanicsHardeningConstant
value = 6.0E6
[]
# Friction angle
[mc_phi]
type = TensorMechanicsHardeningConstant
value = 35.0
convert_to_radians = true
[]
# Dilation angle
[mc_psi]
type = TensorMechanicsHardeningConstant
value = 2
convert_to_radians = true
[]
# Drucker-Prager objects
[dp]
type = TensorMechanicsPlasticDruckerPragerHyperbolic
mc_cohesion = mc_coh
mc_friction_angle = mc_phi
mc_dilation_angle = mc_psi
yield_function_tolerance = 1E-3
internal_constraint_tolerance = 1E-6
[]
# Tensile strength
[tens]
type = TensorMechanicsHardeningConstant
value = 3.0E6
[]
# Compressive strength (cap on yield envelope)
[compr_all]
type = TensorMechanicsHardeningConstant
value = 1E10
[]
[]
[Materials]
[strain]
type = ComputeIncrementalSmallStrain
eigenstrain_names = eigenstrain_all
[]
[eigenstrain_all]
type = ComputeEigenstrainFromInitialStress
initial_stress = 'ini_stress 0 0 0 ini_stress 0 0 0 ini_stress'
eigenstrain_name = eigenstrain_all
[]
[elasticity_tensor]
type = ComputeIsotropicElasticityTensor
bulk_modulus = 3.3333E9
shear_modulus = 2.5E9
[]
[dp_mat]
type = CappedDruckerPragerStressUpdate
DP_model = dp
tensile_strength = tens
compressive_strength = compr_all
smoothing_tol = 1E5
yield_function_tol = 1E-3
tip_smoother = 0
[]
[stress]
type = ComputeMultipleInelasticStress
inelastic_models = dp_mat
[]
# Permeability
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-13 0 0 0 1E-13 0 0 0 1E-13'
[]
# Porosity
[porosity]
type = PorousFlowPorosity
porosity_zero = ${porosity0}
biot_coefficient = 1.0
solid_bulk = 1.0 # Required but irrelevant when biot_coefficient is unity
mechanical = true
fluid = true
[]
# Density of saturated rock
[density]
type = PorousFlowTotalGravitationalDensityFullySaturatedFromPorosity
rho_s = ${solid_density}
[]
[]
[DiracKernels]
[pls]
type = PorousFlowPolyLineSink
variable = pp
SumQuantityUO = pls_total_outflow_mass
point_file = two_nodes.bh
function_of = pressure
fluid_phase = 0
p_or_t_vals = '0 1E7'
fluxes = '-1.59 -1.59'
[]
[]
[Preconditioning]
[usual]
type = SMP
full = true
[]
[]
[Executioner]
solve_type = Newton
type = Transient
dt = 1E6
end_time = 1E6
nl_rel_tol = 1E-7
[]
[Outputs]
exodus = true
[]
(modules/phase_field/test/tests/free_energy_material/VanDerWaalsFreeEnergy.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 20
ny = 20
elem_type = QUAD4
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = x*0.4+0.001
[../]
[../]
[./T]
[./InitialCondition]
type = FunctionIC
function = y*1999+1
[../]
[../]
[]
[Materials]
[./free_energy]
type = VanDerWaalsFreeEnergy
f_name = Fgas
m = 134 # Xenon
a = 7.3138
b = 84.77
omega = 41
c = c
T = T
outputs = exodus
[../]
[]
[Problem]
solve = false
kernel_coverage_check = false
[]
[Executioner]
type = Transient
num_steps = 1
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/basic_advection/except1.i)
# phase number is too high in PorousFlowBasicAdvection
[Mesh]
type = GeneratedMesh
dim = 1
nx = 100
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[u]
[]
[]
[AuxVariables]
[P]
[]
[]
[ICs]
[P]
type = FunctionIC
variable = P
function = '2*(1-x)'
[]
[u]
type = FunctionIC
variable = u
function = 'if(x<0.1,1,0)'
[]
[]
[Kernels]
[u_dot]
type = TimeDerivative
variable = u
[]
[u_advection]
type = PorousFlowBasicAdvection
variable = u
phase = 1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = ''
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e9
density0 = 4
thermal_expansion = 0
viscosity = 150.0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = P
capillary_pressure = pc
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '5 0 0 0 5 0 0 0 5'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 0
phase = 0
[]
[darcy_velocity]
type = PorousFlowDarcyVelocityMaterial
gravity = '0.25 0 0'
[]
[]
[BCs]
[left]
type = DirichletBC
boundary = left
value = 1
variable = u
[]
[right]
type = DirichletBC
boundary = right
value = 0
variable = u
[]
[]
[Preconditioning]
[basic]
type = SMP
full = true
petsc_options_iname = '-pc_type -snes_rtol'
petsc_options_value = ' lu 1E-10'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 5
[]
[Outputs]
exodus = true
print_linear_residuals = false
[]
(modules/porous_flow/test/tests/mass_conservation/mass09.i)
# Checking that the mass postprocessor throws the correct error when more than a single
# phase index is given when using the saturation_threshold parameter
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[sat]
[]
[]
[AuxVariables]
[massfrac_ph0_sp0]
initial_condition = 1
[]
[massfrac_ph1_sp0]
initial_condition = 0
[]
[]
[ICs]
[pinit]
type = ConstantIC
value = 1
variable = pp
[]
[satinit]
type = FunctionIC
function = 1-x
variable = sat
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = sat
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp sat'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 0.1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = pp
phase1_saturation = sat
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac_ph0_sp0 massfrac_ph1_sp0'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[comp1_total_mass]
type = PorousFlowFluidMass
fluid_component = 1
saturation_threshold = 0.5
phase = '0 1'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
(test/tests/misc/jacobian/offdiag.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 10
ny = 10
[]
[Variables]
[./s]
[./InitialCondition]
type = FunctionIC
function = sin(10*x+y)
[../]
[../]
[./t]
[./InitialCondition]
type = FunctionIC
function = sin(13*y+x)
[../]
[../]
[]
[Kernels]
[./diffs]
type = WrongJacobianDiffusion
variable = s
coupled = t
[../]
[./difft]
type = WrongJacobianDiffusion
variable = t
coupled = s
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
(modules/porous_flow/test/tests/flux_limited_TVD_advection/fltvd_3D.i)
# Using Flux-Limited TVD Advection ala Kuzmin and Turek, with antidiffusion from superbee flux limiting
# 3D version
[Mesh]
type = GeneratedMesh
dim = 3
nx = 10
xmin = 0
xmax = 1
ny = 4
ymin = 0
ymax = 0.5
nz = 3
zmin = 0
zmax = 2
[]
[Variables]
[tracer]
[]
[]
[Problem]
error_on_jacobian_nonzero_reallocation=true
[]
[ICs]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.3,0,1))'
[]
[]
[Kernels]
[mass_dot]
type = MassLumpedTimeDerivative
variable = tracer
[]
[flux]
type = FluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = fluo
[]
[]
[UserObjects]
[fluo]
type = AdvectiveFluxCalculatorConstantVelocity
flux_limiter_type = superbee
u = tracer
velocity = '0.1 0 0'
[]
[]
[BCs]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_tracer]
# Ideally, an OutflowBC would be used, but that does not exist in the framework
# In 1D VacuumBC is the same as OutflowBC, with the alpha parameter being twice the velocity
type = VacuumBC
boundary = right
alpha = 0.2 # 2 * velocity
variable = tracer
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0.5 2'
num_points = 11
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
nl_max_its = 500
timestep_tolerance = 1E-3
[]
[Outputs]
print_linear_residuals = false
[out]
type = CSV
execute_on = final
[]
[]
(test/tests/misc/check_error/function_file_test17.i)
# Test for usage of missing function
[Mesh]
[./square]
type = GeneratedMeshGenerator
nx = 2
ny = 2
dim = 2
[../]
[]
[Variables]
active = 'u'
[./u]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic_function
[../]
[../]
[]
[Functions]
[./ic_function]
type = PiecewiseLinear
data_file = piecewise_linear_rows_more_data.csv
xy_in_file_only = false
x_index_in_file = 0
y_index_in_file = 0 # will generate an error because x and y index are equal
scale_factor = 1.0
[../]
[]
[Kernels]
active = 'diff'
[./diff]
type = Diffusion
variable = u
[../]
[]
[BCs]
active = 'left right'
[./left]
type = DirichletBC
variable = u
boundary = 3
value = 0
[../]
[./right]
type = DirichletBC
variable = u
boundary = 1
value = 1
[../]
[]
[Executioner]
type = Steady
solve_type = 'PJFNK'
[]
[Outputs]
file_base = out
exodus = true
[]
(test/tests/userobjects/postprocessor_spatial_user_object/master.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 4
ny = 4
[]
[Functions]
[./ic_fn]
type = ParsedFunction
value = 'x * y'
[../]
[]
[Variables]
[./u]
family = LAGRANGE
order = FIRST
[../]
[]
[ICs]
[./u_ic]
type = FunctionIC
variable = u
function = ic_fn
[../]
[./a_ic]
type = ConstantIC
variable = a
value = 1
[../]
[]
[AuxVariables]
[./a]
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./rhs]
type = BodyForce
variable = u
function = 1
[../]
[]
[MultiApps]
[./sub]
type = TransientMultiApp
app_type = MooseTestApp
input_files = 'sub.i'
positions = '
0.25 0.25 0
0.75 0.75 0'
execute_on = 'initial timestep_end'
[../]
[]
[Transfers]
[./master_to_sub]
type = MultiAppNearestNodeTransfer
direction = to_multiapp
multi_app = sub
source_variable = u
variable = a
[../]
[./sub_to_master]
type = MultiAppUserObjectTransfer
direction = from_multiapp
multi_app = sub
user_object = fn_uo
variable = a
[../]
[]
[Executioner]
type = Transient
dt = 0.1
num_steps = 10
[]
[Outputs]
exodus = true
[]
(modules/ray_tracing/test/tests/userobjects/ray_tracing_study/kernel_change_ray/kernel_change_ray.i)
[Mesh]
[gmg]
type = GeneratedMeshGenerator
dim = 2
nx = 5
ny = 5
xmax = 5
ymax = 5
[]
[]
[Variables/phase]
[InitialCondition]
type = FunctionIC
variable = field
function = '(x > 2.99) * 1.0'
[]
[]
[RayBCs/kill]
type = KillRayBC
boundary = 'top right bottom left'
[]
[RayKernels/test]
type = RefractionRayKernelTest
field = phase
[]
[UserObjects/lots]
type = LotsOfRaysRayStudy
vertex_to_vertex = true
centroid_to_vertex = true
centroid_to_centroid = false
execute_on = initial
[]
[Postprocessors/total_distance]
type = RayTracingStudyResult
study = lots
result = total_distance
[]
[Executioner]
type = Steady
[]
[Problem]
solve = false
[]
[Outputs]
exodus = false
csv = true
[]
(modules/combined/examples/mortar/mortar_gradient.i)
#
# Compare a diffusion equation with (c) and without (v) periodic gradient
# constraints and a ramped sloped initial condition and value-periodic diffusion (p)
# without a slope.
#
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 2
nx = 40
ny = 40
[]
[secondary_x]
input = gen
type = LowerDBlockFromSidesetGenerator
sidesets = '3'
new_block_id = 10
new_block_name = "secondary_x"
[]
[primary_x]
input = secondary_x
type = LowerDBlockFromSidesetGenerator
sidesets = '1'
new_block_id = 12
new_block_name = "primary_x"
[]
[secondary_y]
input = primary_x
type = LowerDBlockFromSidesetGenerator
sidesets = '0'
new_block_id = 11
new_block_name = "secondary_y"
[]
[primary_y]
input = secondary_y
type = LowerDBlockFromSidesetGenerator
sidesets = '2'
new_block_id = 13
new_block_name = "primary_y"
[]
[]
[Functions]
[./init_slope]
# slope with a concentration spike close to the lower interface
type = ParsedFunction
value = 'if(x>0.4 & x<0.6 & y>0.1 & y<0.3, 3+y, y)'
[../]
[./init_flat]
# no-slope and the same spike
type = ParsedFunction
value = 'if(x>0.4 & x<0.6 & y>0.1 & y<0.3, 3, 0)'
[../]
[]
[Variables]
# gradient constrained concentration
[./c]
order = FIRST
family = LAGRANGE
block = 0
[./InitialCondition]
type = FunctionIC
function = init_slope
[../]
[../]
# unconstrained concentrarion
[./v]
order = FIRST
family = LAGRANGE
block = 0
[./InitialCondition]
type = FunctionIC
function = init_slope
[../]
[../]
# flat value periodic diffusion
[./p]
order = FIRST
family = LAGRANGE
block = 0
[./InitialCondition]
type = FunctionIC
function = init_flat
[../]
[../]
# Lagrange multipliers for gradient component in the horizontal directon
[./lm_left_right_x]
order = FIRST
family = LAGRANGE
block = "secondary_x"
[../]
[./lm_left_right_y]
order = FIRST
family = LAGRANGE
block = "secondary_x"
[../]
# Lagrange multipliers for gradient component in the vertical directon
[./lm_up_down_x]
order = FIRST
family = LAGRANGE
block = "secondary_y"
[../]
[./lm_up_down_y]
order = FIRST
family = LAGRANGE
block = "secondary_y"
[../]
[]
[Kernels]
# the gradient constrained concentration
[./diff]
type = Diffusion
variable = c
block = 0
[../]
[./dt]
type = TimeDerivative
variable = c
block = 0
[../]
# the un-constrained concentration
[./diff2]
type = Diffusion
variable = v
block = 0
[../]
[./dt2]
type = TimeDerivative
variable = v
block = 0
[../]
# the value periodic concentration
[./diff3]
type = Diffusion
variable = p
block = 0
[../]
[./dt3]
type = TimeDerivative
variable = p
block = 0
[../]
[]
[Constraints]
[./equaly_grad_x]
type = EqualGradientConstraint
variable = lm_up_down_x
component = 0
secondary_variable = c
secondary_boundary = bottom
primary_boundary = top
secondary_subdomain = secondary_y
primary_subdomain = primary_y
periodic = true
[../]
[./equaly_grad_y]
type = EqualGradientConstraint
variable = lm_up_down_y
component = 1
secondary_variable = c
secondary_boundary = bottom
primary_boundary = top
secondary_subdomain = secondary_y
primary_subdomain = primary_y
periodic = true
[../]
[./equalx_grad_x]
type = EqualGradientConstraint
variable = lm_left_right_x
component = 0
secondary_variable = c
secondary_boundary = left
primary_boundary = right
secondary_subdomain = secondary_x
primary_subdomain = primary_x
periodic = true
[../]
[./equalx_grad_y]
type = EqualGradientConstraint
variable = lm_left_right_y
component = 1
secondary_variable = c
secondary_boundary = left
primary_boundary = right
secondary_subdomain = secondary_x
primary_subdomain = primary_x
periodic = true
[../]
[]
[BCs]
# DiffusionFluxBC is the surface term in the weak form of the Diffusion equation
[./surface]
type = DiffusionFluxBC
boundary = 'top bottom left right'
variable = c
[../]
[./surface2]
type = DiffusionFluxBC
boundary = 'top bottom left right'
variable = v
[../]
# for the value periodic diffusion we skip the surface term and apply value PBCs
[./Periodic]
[./up_down]
variable = p
primary = 0
secondary = 2
translation = '0 1 0'
[../]
[./left_right]
variable = p
primary = 1
secondary = 3
translation = '-1 0 0'
[../]
[../]
[]
[AuxVariables]
[./diff_constraint]
block = 0
[../]
[./diff_periodic]
block = 0
[../]
[./diff_slope]
block = 0
[../]
[./slope]
block = 0
[./InitialCondition]
type = FunctionIC
function = y
[../]
[../]
[]
[AuxKernels]
# difference between the constrained and unconstrained sloped diffusions
[./diff_constraint]
type = ParsedAux
variable = diff_constraint
function = 'c-v'
args = 'c v'
block = 0
[../]
# difference between the periodic gradient constrained diffusion and the flat
# value period diffusien with a constant slope added. This should be the same,
# but they aren't quite because the gradient constraint affects the gradient in
# the entire elements (i.e. a larger volume is affected by the gradient constraint
# compared to the nodal value periodicity)
[./diff_periodic]
type = ParsedAux
variable = diff_periodic
function = 'c-p-slope'
args = 'c p slope'
block = 0
[../]
# subtract the constant slope from the gradient periodic simulation (should yield
# almost p - per the argument above)
[./diff_slope]
type = ParsedAux
variable = diff_slope
function = 'c-slope'
args = 'c slope'
block = 0
[../]
[]
[Preconditioning]
[./smp]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
solve_type = NEWTON
# the shift is necessary to facilitate the solve. The Lagrange multipliers
# introduce zero-on diaginal blocks, which make the matrix hard to invert.
petsc_options_iname = '-pc_type -pc_factor_shift_type -pc_factor_shift_amount'
petsc_options_value = ' lu NONZERO 1e-10'
nl_rel_tol = 1e-11
nl_abs_tol = 1e-10
l_tol = 1e-10
dt = 0.01
num_steps = 20
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/hysteresis/hys_pc_3.i)
# Capillary-pressure calculation. Third-order curve
# When comparing the results with a by-hand computation, remember the MOOSE results are averaged over an element
[Mesh]
[mesh]
type = GeneratedMeshGenerator
dim = 1
xmin = 0.4
xmax = 0.9
nx = 50
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
number_fluid_phases = 1
number_fluid_components = 1
porous_flow_vars = ''
[]
[]
[Variables]
[sat]
[]
[]
[ICs]
[sat]
type = FunctionIC
variable = sat
function = 'x'
[]
[]
[BCs]
[sat]
type = FunctionDirichletBC
variable = sat
function = 'x'
boundary = 'left right'
[]
[]
[Kernels]
[dummy]
type = Diffusion
variable = sat
[]
[]
[Materials]
[hys_order]
type = PorousFlowHysteresisOrder
initial_order = 3
previous_turning_points = '0.1 0.9 0.4'
[]
[pc_calculator]
type = PorousFlowHystereticInfo
alpha_d = 10.0
alpha_w = 7.0
n_d = 1.5
n_w = 1.9
S_l_min = 0.1
S_lr = 0.2
S_gr_max = 0.3
Pc_max = 12.0
high_ratio = 0.9
low_extension_type = none
high_extension_type = none
sat_var = sat
[]
[]
[AuxVariables]
[hys_order]
family = MONOMIAL
order = CONSTANT
[]
[pc]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[hys_order]
type = PorousFlowPropertyAux
variable = hys_order
property = hysteresis_order
[]
[pc]
type = PorousFlowPropertyAux
variable = pc
property = hysteretic_info
[]
[]
[VectorPostprocessors]
[pc]
type = LineValueSampler
start_point = '0.4 0 0'
end_point = '0.9 0 0'
num_points = 8
sort_by = x
variable = 'sat pc'
[]
[]
[Executioner]
type = Transient
solve_type = Linear
dt = 1
end_time = 1
[]
[Outputs]
csv = true
[]
(modules/tensor_mechanics/test/tests/auxkernels/tensorelasticenergyaux.i)
[Mesh]
type = GeneratedMesh
dim = 2
nx = 5
ny = 5
nz = 0
xmax = 3
ymax = 2
zmax = 0
elem_type = QUAD4
[]
[GlobalParams]
displacements = 'disp_x disp_y'
[]
[Variables]
[./dummy]
[../]
[]
[AuxVariables]
[./disp_x]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = sin(x)*0.1
[../]
[../]
[./disp_y]
order = FIRST
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = cos(y)*0.05
[../]
[../]
[./E]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./elastic_energy]
type = ElasticEnergyAux
variable = E
[../]
[]
[Materials]
[./elasticity]
type = ComputeElasticityTensor
fill_method = symmetric9
C_ijkl = '1 2 4 3 2 5 1 3 1'
[../]
[./strain]
type = ComputeSmallStrain
[../]
[./stress]
type = ComputeLinearElasticStress
[../]
[]
[Executioner]
type = Transient
num_steps = 1
[]
[Problem]
kernel_coverage_check = false
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/heterogeneous_materials/constant_poroperm.i)
# Assign porosity and permeability variables from constant AuxVariables to create
# a heterogeneous model
[Mesh]
type = GeneratedMesh
dim = 3
nx = 3
ny = 3
nz = 3
xmax = 3
ymax = 3
zmax = 3
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 -10'
[]
[Variables]
[ppwater]
initial_condition = 1.5e6
[]
[]
[AuxVariables]
[poro]
family = MONOMIAL
order = CONSTANT
[]
[permxx]
family = MONOMIAL
order = CONSTANT
[]
[permxy]
family = MONOMIAL
order = CONSTANT
[]
[permxz]
family = MONOMIAL
order = CONSTANT
[]
[permyx]
family = MONOMIAL
order = CONSTANT
[]
[permyy]
family = MONOMIAL
order = CONSTANT
[]
[permyz]
family = MONOMIAL
order = CONSTANT
[]
[permzx]
family = MONOMIAL
order = CONSTANT
[]
[permzy]
family = MONOMIAL
order = CONSTANT
[]
[permzz]
family = MONOMIAL
order = CONSTANT
[]
[poromat]
family = MONOMIAL
order = CONSTANT
[]
[permxxmat]
family = MONOMIAL
order = CONSTANT
[]
[permxymat]
family = MONOMIAL
order = CONSTANT
[]
[permxzmat]
family = MONOMIAL
order = CONSTANT
[]
[permyxmat]
family = MONOMIAL
order = CONSTANT
[]
[permyymat]
family = MONOMIAL
order = CONSTANT
[]
[permyzmat]
family = MONOMIAL
order = CONSTANT
[]
[permzxmat]
family = MONOMIAL
order = CONSTANT
[]
[permzymat]
family = MONOMIAL
order = CONSTANT
[]
[permzzmat]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[poromat]
type = PorousFlowPropertyAux
property = porosity
variable = poromat
[]
[permxxmat]
type = PorousFlowPropertyAux
property = permeability
variable = permxxmat
column = 0
row = 0
[]
[permxymat]
type = PorousFlowPropertyAux
property = permeability
variable = permxymat
column = 1
row = 0
[]
[permxzmat]
type = PorousFlowPropertyAux
property = permeability
variable = permxzmat
column = 2
row = 0
[]
[permyxmat]
type = PorousFlowPropertyAux
property = permeability
variable = permyxmat
column = 0
row = 1
[]
[permyymat]
type = PorousFlowPropertyAux
property = permeability
variable = permyymat
column = 1
row = 1
[]
[permyzmat]
type = PorousFlowPropertyAux
property = permeability
variable = permyzmat
column = 2
row = 1
[]
[permzxmat]
type = PorousFlowPropertyAux
property = permeability
variable = permzxmat
column = 0
row = 2
[]
[permzymat]
type = PorousFlowPropertyAux
property = permeability
variable = permzymat
column = 1
row = 2
[]
[permzzmat]
type = PorousFlowPropertyAux
property = permeability
variable = permzzmat
column = 2
row = 2
[]
[]
[ICs]
[poro]
type = RandomIC
seed = 0
variable = poro
max = 0.5
min = 0.1
[]
[permx]
type = FunctionIC
function = permx
variable = permxx
[]
[permy]
type = FunctionIC
function = permy
variable = permyy
[]
[permz]
type = FunctionIC
function = permz
variable = permzz
[]
[]
[Functions]
[permx]
type = ParsedFunction
value = '(1+x)*1e-11'
[]
[permy]
type = ParsedFunction
value = '(1+y)*1e-11'
[]
[permz]
type = ParsedFunction
value = '(1+z)*1e-11'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
variable = ppwater
[]
[flux0]
type = PorousFlowAdvectiveFlux
variable = ppwater
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'ppwater'
number_fluid_phases = 1
number_fluid_components = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2e9
density0 = 1000
viscosity = 1e-3
thermal_expansion = 0
cv = 2
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseFullySaturated
porepressure = ppwater
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = poro
[]
[permeability]
type = PorousFlowPermeabilityConstFromVar
perm_xx = permxx
perm_yy = permyy
perm_zz = permzz
[]
[relperm_water]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[Postprocessors]
[mass_ph0]
type = PorousFlowFluidMass
fluid_component = 0
execute_on = 'initial timestep_end'
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol'
petsc_options_value = 'bcgs bjacobi 1E-12 1E-10'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 100
dt = 100
[]
[Outputs]
execute_on = 'initial timestep_end'
exodus = true
perf_graph = true
[]
(test/tests/mesh_modifiers/mesh_side_set/test.i)
[Mesh]
[gen]
type = GeneratedMeshGenerator
dim = 3
nx = 4
ny = 4
nz = 4
elem_type = TET4
[]
[left_block]
type = SubdomainBoundingBoxGenerator
input = gen
block_id = 1
block_name = left_block
bottom_left = '0 0 0'
top_right = '0.5 1 1'
[]
[right_block]
type = SubdomainBoundingBoxGenerator
input = left_block
block_id = 2
block_name = right_block
bottom_left = '0.5 0 0'
top_right = '1 1 1'
[]
[center_side_set]
type = SideSetsBetweenSubdomainsGenerator
input = right_block
primary_block = left_block
paired_block = right_block
new_boundary = center_side_set
[]
[center_mesh]
type = MeshSideSetGenerator
input = center_side_set
boundaries = center_side_set
block_id = 10
block_name = center_mesh
[]
[]
[Variables]
[c_volume]
[InitialCondition]
type = FunctionIC
function = '1-(x-0.5)^2+(y-0.5)^2+(z-0.5)^2'
[]
[]
[c_plane]
block = 'center_mesh'
[]
[]
[Kernels]
[volume_diff]
type = Diffusion
variable = c_volume
block = 'left_block right_block'
[]
[volume_dt]
type = TimeDerivative
variable = c_volume
block = 'left_block right_block'
[]
# couple the lower dimensional variable to the volume variable
[plane_reaction]
type = Reaction
variable = c_plane
block = 'center_mesh'
[]
[plane_coupled]
type = CoupledForce
variable = c_plane
v = c_volume
block = 'center_mesh'
[]
[]
[Executioner]
type = Transient
dt = 0.01
num_steps = 2
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/flux_limited_TVD_pflow/jacobian_05.i)
# Checking the Jacobian of Flux-Limited TVD Advection, 2 phases, 2 components, using flux_limiter_type != None
#
# Here we use snes_check_jacobian instead of snes_type=test. The former just checks the Jacobian for the
# random initial conditions, while the latter checks for u=1 and u=-1
#
# The Jacobian is correct for u=1 and u=-1, but the finite-difference scheme used by snes_type=test gives the
# wrong answer.
# For u=constant, the Kuzmin-Turek scheme adds as much antidiffusion as possible, resulting in a central-difference
# version of advection (flux_limiter = 1). This is correct, and the Jacobian is calculated correctly.
# However, when computing the Jacobian using finite differences, u is increased or decreased at a node.
# This results in that node being at a maximum or minimum, which means no antidiffusion should be added
# (flux_limiter = 0). This corresponds to a full-upwind scheme. So the finite-difference computes the
# Jacobian in the full-upwind scenario, which is incorrect (the original residual = 0, after finite-differencing
# the residual comes from the full-upwind scenario).
[Mesh]
type = GeneratedMesh
dim = 1
nx = 10
xmin = 0
xmax = 5
[]
[GlobalParams]
gravity = '1.1 2 -0.5'
PorousFlowDictator = dictator
[]
[Variables]
[ppwater]
[]
[ppgas]
[]
[massfrac_ph0_sp0]
[]
[massfrac_ph1_sp0]
[]
[]
[ICs]
[ppwater]
type = FunctionIC
variable = ppwater
function = 'if(x<1,0,if(x<4,sin(x-1),1))'
[]
[ppgas]
type = FunctionIC
variable = ppgas
function = 'x*(6-x)/6'
[]
[massfrac_ph0_sp0]
type = FunctionIC
variable = massfrac_ph0_sp0
function = 'x/6'
[]
[massfrac_ph1_sp0]
type = FunctionIC
variable = massfrac_ph1_sp0
function = '1-x/7'
[]
[]
[Kernels]
[flux_ph0_sp0]
type = PorousFlowFluxLimitedTVDAdvection
variable = ppwater
advective_flux_calculator = advective_flux_calculator_ph0_sp0
[]
[flux_ph0_sp1]
type = PorousFlowFluxLimitedTVDAdvection
variable = ppgas
advective_flux_calculator = advective_flux_calculator_ph0_sp1
[]
[flux_ph1_sp0]
type = PorousFlowFluxLimitedTVDAdvection
variable = massfrac_ph0_sp0
advective_flux_calculator = advective_flux_calculator_ph1_sp0
[]
[flux_ph1_sp1]
type = PorousFlowFluxLimitedTVDAdvection
variable = massfrac_ph1_sp0
advective_flux_calculator = advective_flux_calculator_ph1_sp1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid0]
type = SimpleFluidProperties
bulk_modulus = 1.5
density0 = 1
thermal_expansion = 0
viscosity = 1
[]
[simple_fluid1]
type = SimpleFluidProperties
bulk_modulus = 0.5
density0 = 0.5
thermal_expansion = 0
viscosity = 1.4
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'ppwater ppgas massfrac_ph0_sp0 massfrac_ph1_sp0'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
alpha = 1
m = 0.5
[]
[advective_flux_calculator_ph0_sp0]
type = PorousFlowAdvectiveFluxCalculatorUnsaturatedMultiComponent
flux_limiter_type = minmod
phase = 0
fluid_component = 0
[]
[advective_flux_calculator_ph0_sp1]
type = PorousFlowAdvectiveFluxCalculatorUnsaturatedMultiComponent
flux_limiter_type = vanleer
phase = 0
fluid_component = 1
[]
[advective_flux_calculator_ph1_sp0]
type = PorousFlowAdvectiveFluxCalculatorUnsaturatedMultiComponent
flux_limiter_type = mc
phase = 1
fluid_component = 0
[]
[advective_flux_calculator_ph1_sp1]
type = PorousFlowAdvectiveFluxCalculatorUnsaturatedMultiComponent
flux_limiter_type = superbee
phase = 1
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePP
phase0_porepressure = ppwater
phase1_porepressure = ppgas
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac_ph0_sp0 massfrac_ph1_sp0'
[]
[simple_fluid0]
type = PorousFlowSingleComponentFluid
fp = simple_fluid0
phase = 0
[]
[simple_fluid1]
type = PorousFlowSingleComponentFluid
fp = simple_fluid1
phase = 1
[]
[relperm0]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[relperm1]
type = PorousFlowRelativePermeabilityCorey
n = 3
phase = 1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1.21 0 0 0 1.5 0 0 0 0.8'
[]
[]
[Preconditioning]
[smp]
type = SMP
full = true
petsc_options = '-snes_check_jacobian'
[]
[]
[Executioner]
type = Transient
solve_type = Linear # this is to force convergence even though the nonlinear residual is high: we just care about the Jacobian in this test
end_time = 1
num_steps = 1
dt = 1
[]
(modules/combined/examples/phase_field-mechanics/kks_mechanics_VTS.i)
# KKS phase-field model coupled with elasticity using the Voigt-Taylor scheme as
# described in L.K. Aagesen et al., Computational Materials Science, 140, 10-21 (2017)
# Original run #170329e
[Mesh]
type = GeneratedMesh
dim = 3
nx = 640
ny = 1
nz = 1
xmin = -10
xmax = 10
ymin = 0
ymax = 0.03125
zmin = 0
zmax = 0.03125
elem_type = HEX8
[]
[Variables]
# order parameter
[./eta]
order = FIRST
family = LAGRANGE
[../]
# solute concentration
[./c]
order = FIRST
family = LAGRANGE
[../]
# chemical potential
[./w]
order = FIRST
family = LAGRANGE
[../]
# solute phase concentration (matrix)
[./cm]
order = FIRST
family = LAGRANGE
[../]
# solute phase concentration (precipitate)
[./cp]
order = FIRST
family = LAGRANGE
[../]
[./disp_x]
order = FIRST
family = LAGRANGE
[../]
[./disp_y]
order = FIRST
family = LAGRANGE
[../]
[./disp_z]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./eta_ic]
variable = eta
type = FunctionIC
function = ic_func_eta
block = 0
[../]
[./c_ic]
variable = c
type = FunctionIC
function = ic_func_c
block = 0
[../]
[./w_ic]
variable = w
type = ConstantIC
value = 0.00991
block = 0
[../]
[./cm_ic]
variable = cm
type = ConstantIC
value = 0.131
block = 0
[../]
[./cp_ic]
variable = cp
type = ConstantIC
value = 0.236
block = 0
[../]
[]
[Functions]
[./ic_func_eta]
type = ParsedFunction
value = '0.5*(1.0+tanh((x)/delta_eta/sqrt(2.0)))'
vars = 'delta_eta'
vals = '0.8034'
[../]
[./ic_func_c]
type = ParsedFunction
value = '0.2388*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))^3*(6*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))^2-15*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))+10)+0.1338*(1-(0.5*(1.0+tanh(x/delta/sqrt(2.0))))^3*(6*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))^2-15*(0.5*(1.0+tanh(x/delta/sqrt(2.0))))+10))'
vars = 'delta'
vals = '0.8034'
[../]
[./psi_eq_int]
type = ParsedFunction
value = 'volume*psi_alpha'
vars = 'volume psi_alpha'
vals = 'volume psi_alpha'
[../]
[./gamma]
type = ParsedFunction
value = '(psi_int - psi_eq_int) / dy / dz'
vars = 'psi_int psi_eq_int dy dz'
vals = 'psi_int psi_eq_int 0.03125 0.03125'
[../]
[]
[AuxVariables]
[./sigma11]
order = CONSTANT
family = MONOMIAL
[../]
[./sigma22]
order = CONSTANT
family = MONOMIAL
[../]
[./sigma33]
order = CONSTANT
family = MONOMIAL
[../]
[./e11]
order = CONSTANT
family = MONOMIAL
[../]
[./e12]
order = CONSTANT
family = MONOMIAL
[../]
[./e22]
order = CONSTANT
family = MONOMIAL
[../]
[./e33]
order = CONSTANT
family = MONOMIAL
[../]
[./e_el11]
order = CONSTANT
family = MONOMIAL
[../]
[./e_el12]
order = CONSTANT
family = MONOMIAL
[../]
[./e_el22]
order = CONSTANT
family = MONOMIAL
[../]
[./f_el]
order = CONSTANT
family = MONOMIAL
[../]
[./eigen_strain00]
order = CONSTANT
family = MONOMIAL
[../]
[./Fglobal]
order = CONSTANT
family = MONOMIAL
[../]
[./psi]
order = CONSTANT
family = MONOMIAL
[../]
[]
[AuxKernels]
[./matl_sigma11]
type = RankTwoAux
rank_two_tensor = stress
index_i = 0
index_j = 0
variable = sigma11
[../]
[./matl_sigma22]
type = RankTwoAux
rank_two_tensor = stress
index_i = 1
index_j = 1
variable = sigma22
[../]
[./matl_sigma33]
type = RankTwoAux
rank_two_tensor = stress
index_i = 2
index_j = 2
variable = sigma33
[../]
[./matl_e11]
type = RankTwoAux
rank_two_tensor = total_strain
index_i = 0
index_j = 0
variable = e11
[../]
[./matl_e12]
type = RankTwoAux
rank_two_tensor = total_strain
index_i = 0
index_j = 1
variable = e12
[../]
[./matl_e22]
type = RankTwoAux
rank_two_tensor = total_strain
index_i = 1
index_j = 1
variable = e22
[../]
[./matl_e33]
type = RankTwoAux
rank_two_tensor = total_strain
index_i = 2
index_j = 2
variable = e33
[../]
[./f_el]
type = MaterialRealAux
variable = f_el
property = f_el_mat
execute_on = timestep_end
[../]
[./GlobalFreeEnergy]
variable = Fglobal
type = KKSGlobalFreeEnergy
fa_name = fm
fb_name = fp
w = 0.0264
kappa_names = kappa
interfacial_vars = eta
[../]
[./psi_potential]
variable = psi
type = ParsedAux
args = 'Fglobal w c f_el sigma11 e11'
function = 'Fglobal - w*c + f_el - sigma11*e11'
[../]
[]
[BCs]
[./left_x]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[./right_x]
type = DirichletBC
variable = disp_x
boundary = right
value = 0
[../]
[./front_y]
type = DirichletBC
variable = disp_y
boundary = front
value = 0
[../]
[./back_y]
type = DirichletBC
variable = disp_y
boundary = back
value = 0
[../]
[./top_z]
type = DirichletBC
variable = disp_z
boundary = top
value = 0
[../]
[./bottom_z]
type = DirichletBC
variable = disp_z
boundary = bottom
value = 0
[../]
[]
[Materials]
# Chemical free energy of the matrix
[./fm]
type = DerivativeParsedMaterial
f_name = fm
args = 'cm'
function = '6.55*(cm-0.13)^2'
[../]
# Elastic energy of the matrix
[./elastic_free_energy_m]
type = ElasticEnergyMaterial
base_name = matrix
f_name = fe_m
args = ' '
outputs = exodus
[../]
# Total free energy of the matrix
[./Total_energy_matrix]
type = DerivativeSumMaterial
f_name = f_total_matrix
sum_materials = 'fm fe_m'
args = 'cm'
[../]
# Free energy of the precipitate phase
[./fp]
type = DerivativeParsedMaterial
f_name = fp
args = 'cp'
function = '6.55*(cp-0.235)^2'
[../]
# Elastic energy of the precipitate
[./elastic_free_energy_p]
type = ElasticEnergyMaterial
base_name = ppt
f_name = fe_p
args = ' '
outputs = exodus
[../]
# Total free energy of the precipitate
[./Total_energy_ppt]
type = DerivativeSumMaterial
f_name = f_total_ppt
sum_materials = 'fp fe_p'
args = 'cp'
[../]
# Total elastic energy
[./Total_elastic_energy]
type = DerivativeTwoPhaseMaterial
eta = eta
f_name = f_el_mat
fa_name = fe_m
fb_name = fe_p
outputs = exodus
W = 0
[../]
# h(eta)
[./h_eta]
type = SwitchingFunctionMaterial
h_order = HIGH
eta = eta
[../]
# g(eta)
[./g_eta]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta
[../]
# constant properties
[./constants]
type = GenericConstantMaterial
prop_names = 'M L kappa misfit'
prop_values = '0.7 0.7 0.01704 0.00377'
[../]
#Mechanical properties
[./Stiffness_matrix]
type = ComputeElasticityTensor
C_ijkl = '103.3 74.25 74.25 103.3 74.25 103.3 46.75 46.75 46.75'
base_name = matrix
fill_method = symmetric9
[../]
[./Stiffness_ppt]
type = ComputeElasticityTensor
C_ijkl = '100.7 71.45 71.45 100.7 71.45 100.7 50.10 50.10 50.10'
base_name = ppt
fill_method = symmetric9
[../]
[./stress_matrix]
type = ComputeLinearElasticStress
base_name = matrix
[../]
[./stress_ppt]
type = ComputeLinearElasticStress
base_name = ppt
[../]
[./strain_matrix]
type = ComputeSmallStrain
displacements = 'disp_x disp_y disp_z'
base_name = matrix
[../]
[./strain_ppt]
type = ComputeSmallStrain
displacements = 'disp_x disp_y disp_z'
base_name = ppt
eigenstrain_names = 'eigenstrain_ppt'
[../]
[./eigen_strain]
type = ComputeEigenstrain
base_name = ppt
eigen_base = '1 1 1 0 0 0'
prefactor = misfit
eigenstrain_name = 'eigenstrain_ppt'
[../]
[./global_stress]
type = TwoPhaseStressMaterial
base_A = matrix
base_B = ppt
[../]
[./global_strain]
type = ComputeSmallStrain
displacements = 'disp_x disp_y disp_z'
[../]
[]
[Kernels]
[./TensorMechanics]
displacements = 'disp_x disp_y disp_z'
[../]
# enforce c = (1-h(eta))*cm + h(eta)*cp
[./PhaseConc]
type = KKSPhaseConcentration
ca = cm
variable = cp
c = c
eta = eta
[../]
# enforce pointwise equality of chemical potentials
[./ChemPotVacancies]
type = KKSPhaseChemicalPotential
variable = cm
cb = cp
fa_name = f_total_matrix
fb_name = f_total_ppt
[../]
#
# Cahn-Hilliard Equation
#
[./CHBulk]
type = KKSSplitCHCRes
variable = c
ca = cm
fa_name = f_total_matrix
w = w
[../]
[./dcdt]
type = CoupledTimeDerivative
variable = w
v = c
[../]
[./ckernel]
type = SplitCHWRes
mob_name = M
variable = w
[../]
#
# Allen-Cahn Equation
#
[./ACBulkF]
type = KKSACBulkF
variable = eta
fa_name = f_total_matrix
fb_name = f_total_ppt
w = 0.0264
args = 'cp cm'
[../]
[./ACBulkC]
type = KKSACBulkC
variable = eta
ca = cm
cb = cp
fa_name = f_total_matrix
[../]
[./ACInterface]
type = ACInterface
variable = eta
kappa_name = kappa
[../]
[./detadt]
type = TimeDerivative
variable = eta
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm ilu nonzero'
l_max_its = 30
nl_max_its = 10
l_tol = 1.0e-4
nl_rel_tol = 1.0e-8
nl_abs_tol = 1.0e-11
num_steps = 200
[./TimeStepper]
type = SolutionTimeAdaptiveDT
dt = 0.5
[../]
[]
[VectorPostprocessors]
#[./eta]
# type = LineValueSampler
# start_point = '-10 0 0'
# end_point = '10 0 0'
# variable = eta
# num_points = 321
# sort_by = id
#[../]
#[./eta_position]
# type = FindValueOnLineSample
# vectorpostprocessor = eta
# variable_name = eta
# search_value = 0.5
#[../]
# [./f_el]
# type = LineMaterialRealSampler
# start = '-20 0 0'
# end = '20 0 0'
# sort_by = id
# property = f_el
# [../]
# [./f_el_a]
# type = LineMaterialRealSampler
# start = '-20 0 0'
# end = '20 0 0'
# sort_by = id
# property = fe_m
# [../]
# [./f_el_b]
# type = LineMaterialRealSampler
# start = '-20 0 0'
# end = '20 0 0'
# sort_by = id
# property = fe_p
# [../]
# [./h_out]
# type = LineMaterialRealSampler
# start = '-20 0 0'
# end = '20 0 0'
# sort_by = id
# property = h
# [../]
# [./fm_out]
# type = LineMaterialRealSampler
# start = '-20 0 0'
# end = '20 0 0'
# sort_by = id
# property = fm
# [../]
[]
[Postprocessors]
[./f_el_int]
type = ElementIntegralMaterialProperty
mat_prop = f_el_mat
[../]
[./c_alpha]
type = SideAverageValue
boundary = left
variable = c
[../]
[./c_beta]
type = SideAverageValue
boundary = right
variable = c
[../]
[./e11_alpha]
type = SideAverageValue
boundary = left
variable = e11
[../]
[./e11_beta]
type = SideAverageValue
boundary = right
variable = e11
[../]
[./s11_alpha]
type = SideAverageValue
boundary = left
variable = sigma11
[../]
[./s22_alpha]
type = SideAverageValue
boundary = left
variable = sigma22
[../]
[./s33_alpha]
type = SideAverageValue
boundary = left
variable = sigma33
[../]
[./s11_beta]
type = SideAverageValue
boundary = right
variable = sigma11
[../]
[./s22_beta]
type = SideAverageValue
boundary = right
variable = sigma22
[../]
[./s33_beta]
type = SideAverageValue
boundary = right
variable = sigma33
[../]
[./f_el_alpha]
type = SideAverageValue
boundary = left
variable = f_el
[../]
[./f_el_beta]
type = SideAverageValue
boundary = right
variable = f_el
[../]
[./f_c_alpha]
type = SideAverageValue
boundary = left
variable = Fglobal
[../]
[./f_c_beta]
type = SideAverageValue
boundary = right
variable = Fglobal
[../]
[./chem_pot_alpha]
type = SideAverageValue
boundary = left
variable = w
[../]
[./chem_pot_beta]
type = SideAverageValue
boundary = right
variable = w
[../]
[./psi_alpha]
type = SideAverageValue
boundary = left
variable = psi
[../]
[./psi_beta]
type = SideAverageValue
boundary = right
variable = psi
[../]
[./total_energy]
type = ElementIntegralVariablePostprocessor
variable = Fglobal
[../]
# Get simulation cell size from postprocessor
[./volume]
type = ElementIntegralMaterialProperty
mat_prop = 1
[../]
[./psi_eq_int]
type = FunctionValuePostprocessor
function = psi_eq_int
[../]
[./psi_int]
type = ElementIntegralVariablePostprocessor
variable = psi
[../]
[./gamma]
type = FunctionValuePostprocessor
function = gamma
[../]
[]
#
# Precondition using handcoded off-diagonal terms
#
[Preconditioning]
[./full]
type = SMP
full = true
[../]
[]
[Outputs]
[./exodus]
type = Exodus
interval = 20
[../]
[./csv]
type = CSV
execute_on = 'final'
[../]
#[./console]
# type = Console
# output_file = true
# [../]
[]
(modules/porous_flow/test/tests/jacobian/fflux02.i)
# 1phase, 3components, constant viscosity, constant insitu permeability
# density with constant bulk, Corey relative perm, nonzero gravity, unsaturated with vanGenuchten
[Mesh]
type = GeneratedMesh
dim = 2
nx = 2
xmin = 0
xmax = 1
ny = 1
ymin = 0
ymax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[massfrac0]
[]
[massfrac1]
[]
[]
[ICs]
[pp]
type = FunctionIC
variable = pp
function = -0.7+x+y
[]
[massfrac0]
type = RandomIC
variable = massfrac0
min = 0
max = 0.3
[]
[massfrac1]
type = RandomIC
variable = massfrac1
min = 0
max = 0.4
[]
[]
[Kernels]
[flux0]
type = PorousFlowAdvectiveFlux
fluid_component = 0
variable = pp
gravity = '-1 -0.1 0'
[]
[flux1]
type = PorousFlowAdvectiveFlux
fluid_component = 1
variable = massfrac0
gravity = '-1 -0.1 0'
[]
[flux2]
type = PorousFlowAdvectiveFlux
fluid_component = 2
variable = massfrac1
gravity = '-1 -0.1 0'
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp massfrac0 massfrac1'
number_fluid_phases = 1
number_fluid_components = 3
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.5
density0 = 1
thermal_expansion = 0
viscosity = 1
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'massfrac0 massfrac1'
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1 0 0 0 2 0 0 0 3'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[]
[Preconditioning]
active = check
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000'
[]
[check]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -snes_type'
petsc_options_value = 'bcgs bjacobi 1E-15 1E-10 10000 test'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
exodus = false
[]
(modules/porous_flow/test/tests/aux_kernels/darcy_velocity.i)
# checking that the PorousFlowDarcyVelocityComponent AuxKernel works as expected
# for the fully-saturated case (relative-permeability = 1)
# There is one element, of unit size. The pressures and fluid densities at the qps are:
# (x,y,z)=( 0.211325 , 0.211325 , 0.211325 ). p = 1.479 rho = 3.217
# (x,y,z)=( 0.788675 , 0.211325 , 0.211325 ). p = 2.057 rho = 4.728
# (x,y,z)=( 0.211325 , 0.788675 , 0.211325 ). p = 2.634 rho = 6.947
# (x,y,z)=( 0.788675 , 0.788675 , 0.211325 ). p = 3.211 rho = 10.208
# (x,y,z)=( 0.211325 , 0.211325 , 0.788675 ). p = 3.789 rho = 15.001
# (x,y,z)=( 0.788675 , 0.211325 , 0.788675 ). p = 4.367 rho = 22.043
# (x,y,z)=( 0.211325 , 0.788675 , 0.788675 ). p = 4.943 rho = 32.392
# (x,y,z)=( 0.788675 , 0.788675 , 0.788675 ). p = 5.521 rho = 47.599
# Average density = 17.7668
# grad(P) = (1, 2, 4)
# with permeability = diag(1, 2, 3) and gravity = (1, -2, 3) and viscosity = 3.2
# So Darcy velocity = (5.23963, -23.4585, 46.2192)
[Mesh]
type = GeneratedMesh
dim = 3
xmin = 0
xmax = 1
ymin = 0
ymax = 1
zmin = 0
zmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '1 -2 3'
[]
[Variables]
[pp]
[]
[]
[ICs]
[pinit]
type = FunctionIC
function = x+2*y+4*z
variable = pp
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[]
[AuxVariables]
[vel_x]
order = CONSTANT
family = MONOMIAL
[]
[vel_y]
order = CONSTANT
family = MONOMIAL
[]
[vel_z]
order = CONSTANT
family = MONOMIAL
[]
[]
[AuxKernels]
[vel_x]
type = PorousFlowDarcyVelocityComponent
variable = vel_x
component = x
fluid_phase = 0
[]
[vel_y]
type = PorousFlowDarcyVelocityComponent
variable = vel_y
component = y
fluid_phase = 0
[]
[vel_z]
type = PorousFlowDarcyVelocityComponent
variable = vel_z
component = z
fluid_phase = 0
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp'
number_fluid_phases = 1
number_fluid_components = 1
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1.5
viscosity = 3.2
density0 = 1.2
thermal_expansion = 0
[]
[]
[]
[Postprocessors]
[vel_x]
type = PointValue
variable = vel_x
point = '0.5 0.5 0.5'
[]
[vel_y]
type = PointValue
variable = vel_y
point = '0.5 0.5 0.5'
[]
[vel_z]
type = PointValue
variable = vel_z
point = '0.5 0.5 0.5'
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1 0 0 0 2 0 0 0 3'
[]
[relperm]
type = PorousFlowRelativePermeabilityCorey
n = 2
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Executioner]
type = Transient
solve_type = Newton
nl_abs_tol = 1e-16
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = darcy_velocity
csv = true
[]
(test/tests/vectorpostprocessors/spherical_average/spherical_average.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 10
ny = 10
nz = 10
xmin = -5
xmax = 5
ymin = -5
ymax = 5
zmin = -5
zmax = 5
[]
[Variables]
[./c]
[./InitialCondition]
type = FunctionIC
function = sin(x*7.4+z*4.1)+cos(y*3.8+x*8.7)+sin(z*9.1+y*2.6)
[../]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = c
[../]
[./time]
type = TimeDerivative
variable = c
[../]
[]
[VectorPostprocessors]
[./average]
type = SphericalAverage
variable = c
radius = 5
bin_number = 10
execute_on = 'initial timestep_end'
[../]
[]
[Executioner]
type = Transient
num_steps = 1
dt = 1
solve_type = PJFNK
[]
[Outputs]
execute_on = 'initial timestep_end'
exodus = true
csv = true
[]
(modules/porous_flow/examples/tutorial/06.i)
# Darcy flow with a tracer
[Mesh]
[annular]
type = AnnularMeshGenerator
nr = 10
rmin = 1.0
rmax = 10
growth_r = 1.4
nt = 4
dmin = 0
dmax = 90
[]
[make3D]
type = MeshExtruderGenerator
extrusion_vector = '0 0 12'
num_layers = 3
bottom_sideset = 'bottom'
top_sideset = 'top'
input = annular
[]
[shift_down]
type = TransformGenerator
transform = TRANSLATE
vector_value = '0 0 -6'
input = make3D
[]
[aquifer]
type = SubdomainBoundingBoxGenerator
block_id = 1
bottom_left = '0 0 -2'
top_right = '10 10 2'
input = shift_down
[]
[injection_area]
type = ParsedGenerateSideset
combinatorial_geometry = 'x*x+y*y<1.01'
included_subdomain_ids = 1
new_sideset_name = 'injection_area'
input = 'aquifer'
[]
[rename]
type = RenameBlockGenerator
old_block_id = '0 1'
new_block_name = 'caps aquifer'
input = 'injection_area'
[]
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[porepressure]
[]
[tracer_concentration]
[]
[]
[ICs]
[tracer_concentration]
type = FunctionIC
function = '0.5*if(x*x+y*y<1.01,1,0)'
variable = tracer_concentration
[]
[]
[PorousFlowFullySaturated]
porepressure = porepressure
coupling_type = Hydro
gravity = '0 0 0'
fp = the_simple_fluid
mass_fraction_vars = tracer_concentration
stabilization = none # Note to reader: 06_KT.i uses KT stabilization - compare the results
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1E6
boundary = injection_area
[]
[constant_outer_porepressure]
type = DirichletBC
variable = porepressure
value = 0
boundary = rmax
[]
[injected_tracer]
type = DirichletBC
variable = tracer_concentration
value = 0.5
boundary = injection_area
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
viscosity = 1.0E-3
density0 = 1000.0
[]
[]
[]
[Materials]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability_aquifer]
type = PorousFlowPermeabilityConst
block = aquifer
permeability = '1E-14 0 0 0 1E-14 0 0 0 1E-14'
[]
[permeability_caps]
type = PorousFlowPermeabilityConst
block = caps
permeability = '1E-15 0 0 0 1E-15 0 0 0 1E-16'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options = '-ksp_diagonal_scale -ksp_diagonal_scale_fix'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 1E6
dt = 1E5
nl_rel_tol = 1E-14
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/examples/multiapp_fracture_flow/diffusion_multiapp/two_vars.i)
# Heat transfer between matrix and fracture, with the matrix and fracture being identical spatial domains, but a multiapp approach is not used
[Mesh]
[generate]
type = GeneratedMeshGenerator
dim = 1
nx = 100
xmin = 0
xmax = 50.0
[]
[]
[Variables]
[frac_T]
[]
[matrix_T]
[]
[]
[ICs]
[frac_T]
type = FunctionIC
variable = frac_T
function = 'if(x<0.5, 2, 0)' # delta function
[]
[]
[Kernels]
[dot_frac]
type = TimeDerivative
variable = frac_T
[]
[frac_diffusion]
type = Diffusion
variable = frac_T
[]
[toMatrix]
type = PorousFlowHeatMassTransfer
variable = frac_T
v = matrix_T
transfer_coefficient = 0.004
[]
[dot_matrix]
type = TimeDerivative
variable = matrix_T
[]
[matrix_diffusion]
type = Diffusion
variable = matrix_T
[]
[toFrac]
type = PorousFlowHeatMassTransfer
variable = matrix_T
v = frac_T
transfer_coefficient = 0.004
[]
[]
[Preconditioning]
[entire_jacobian]
type = SMP
full = true
[]
[]
[Executioner]
type = Transient
solve_type = NEWTON
dt = 100
end_time = 100
[]
[VectorPostprocessors]
[final_results]
type = LineValueSampler
start_point = '0 0 0'
end_point = '50 0 0'
num_points = 11
sort_by = x
variable = 'frac_T matrix_T'
outputs = final_csv
[]
[]
[Outputs]
print_linear_residuals = false
[final_csv]
type = CSV
sync_times = 100
sync_only = true
[]
[]
(modules/porous_flow/test/tests/mass_conservation/mass02.i)
# checking that the mass postprocessor correctly calculates the mass
# 1phase, 2component, constant porosity
[Mesh]
type = GeneratedMesh
dim = 1
nx = 3
xmin = -1
xmax = 1
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[pp]
[]
[mass_frac_comp0]
[]
[]
[ICs]
[pinit]
type = FunctionIC
function = x
variable = pp
[]
[minit]
type = FunctionIC
function = 'x*x'
variable = mass_frac_comp0
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = pp
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = mass_frac_comp0
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'pp mass_frac_comp0'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureVG
m = 0.5
alpha = 1
[]
[]
[Modules]
[FluidProperties]
[simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 1
density0 = 1
thermal_expansion = 0
[]
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = pp
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = 'mass_frac_comp0'
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = simple_fluid
phase = 0
[]
[porosity]
type = PorousFlowPorosityConst
porosity = 0.1
[]
[]
[Postprocessors]
[total_mass_0]
type = PorousFlowFluidMass
[]
[total_mass_1]
type = PorousFlowFluidMass
fluid_component = 1
[]
[]
[Preconditioning]
[andy]
type = SMP
full = true
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it'
petsc_options_value = 'bcgs bjacobi 1 1 10000'
[]
[]
[Executioner]
type = Transient
solve_type = Newton
dt = 1
end_time = 1
[]
[Outputs]
execute_on = 'timestep_end'
file_base = mass02
csv = true
[]
(modules/tensor_mechanics/test/tests/interface_stress/test.i)
[Mesh]
type = GeneratedMesh
dim = 3
nx = 10
ny = 10
nz = 10
xmax = 1
ymax = 1
zmax = 1
xmin = -1
ymin = -1
zmin = -1
[]
[GlobalParams]
order = CONSTANT
family = MONOMIAL
rank_two_tensor = extra_stress
[]
[Functions]
[./sphere]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2); if(r>1,0,1-3*r^2+2*r^3)'
[../]
[]
[Variables]
[./dummy]
[../]
[]
[Kernels]
[./diff]
type = Diffusion
variable = dummy
[../]
[]
[AuxVariables]
[./eta]
[./InitialCondition]
type = FunctionIC
function = sphere
[../]
order = FIRST
family = LAGRANGE
[../]
[./s00]
[../]
[./s01]
[../]
[./s02]
[../]
[./s10]
[../]
[./s11]
[../]
[./s12]
[../]
[./s20]
[../]
[./s21]
[../]
[./s22]
[../]
[]
[AuxKernels]
[./s00]
type = RankTwoAux
variable = s00
index_i = 0
index_j = 0
[../]
[./s01]
type = RankTwoAux
variable = s01
index_i = 0
index_j = 1
[../]
[./s02]
type = RankTwoAux
variable = s02
index_i = 0
index_j = 2
[../]
[./s10]
type = RankTwoAux
variable = s10
index_i = 1
index_j = 0
[../]
[./s11]
type = RankTwoAux
variable = s11
index_i = 1
index_j = 1
[../]
[./s12]
type = RankTwoAux
variable = s12
index_i = 1
index_j = 2
[../]
[./s20]
type = RankTwoAux
variable = s20
index_i = 2
index_j = 0
[../]
[./s21]
type = RankTwoAux
variable = s21
index_i = 2
index_j = 1
[../]
[./s22]
type = RankTwoAux
variable = s22
index_i = 2
index_j = 2
[../]
[]
[Materials]
[./interface]
type = ComputeInterfaceStress
v = eta
stress = 3.0
[../]
[]
[Executioner]
type = Steady
[]
[Outputs]
exodus = true
execute_on = timestep_end
hide = 'dummy eta'
[]
(test/tests/kernels/conservative_advection/no_upwinding_2D.i)
# 2D test of advection with no upwinding
# Note there are overshoots or undershoots
# but numerical diffusion is minimized.
# The center of the blob advects with the correct velocity
[Mesh]
type = GeneratedMesh
dim = 2
nx = 40
ny = 40
[]
[Variables]
[./u]
[../]
[]
[ICs]
[./u_blob]
type = FunctionIC
variable = u
function = 'if(x<0.2,if(y<0.2,1,0),0)'
[../]
[]
[Kernels]
[./udot]
type = TimeDerivative
variable = u
[../]
[./advection]
type = ConservativeAdvection
variable = u
velocity = '2 1 0'
[../]
[]
[Executioner]
type = Transient
solve_type = LINEAR
dt = 0.01
end_time = 0.1
l_tol = 1E-14
[]
[Outputs]
exodus = true
[]
(modules/porous_flow/test/tests/capillary_pressure/brooks_corey2.i)
# Test Brooks-Corey capillary pressure curve by varying saturation over the mesh
# lambda = 2, sat_lr = 0.1, log_extension = true
[Mesh]
type = GeneratedMesh
dim = 1
nx = 500
[]
[GlobalParams]
PorousFlowDictator = dictator
[]
[Variables]
[p0]
initial_condition = 1e6
[]
[s1]
[]
[]
[AuxVariables]
[s0aux]
family = MONOMIAL
order = CONSTANT
[]
[s1aux]
family = MONOMIAL
order = CONSTANT
[]
[p0aux]
family = MONOMIAL
order = CONSTANT
[]
[p1aux]
family = MONOMIAL
order = CONSTANT
[]
[]
[AuxKernels]
[s0]
type = PorousFlowPropertyAux
property = saturation
phase = 0
variable = s0aux
[]
[s1]
type = PorousFlowPropertyAux
property = saturation
phase = 1
variable = s1aux
[]
[p0]
type = PorousFlowPropertyAux
property = pressure
phase = 0
variable = p0aux
[]
[p1]
type = PorousFlowPropertyAux
property = pressure
phase = 1
variable = p1aux
[]
[]
[Functions]
[s1]
type = ParsedFunction
value = x
[]
[]
[ICs]
[s1]
type = FunctionIC
variable = s1
function = s1
[]
[]
[Kernels]
[p0]
type = Diffusion
variable = p0
[]
[s1]
type = Diffusion
variable = s1
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'p0 s1'
number_fluid_phases = 2
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureBC
lambda = 2
log_extension = true
pe = 1e5
sat_lr = 0.1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow2PhasePS
phase0_porepressure = p0
phase1_saturation = s1
capillary_pressure = pc
[]
[kr0]
type = PorousFlowRelativePermeabilityVG
phase = 0
m = 0.5
[]
[kr1]
type = PorousFlowRelativePermeabilityCorey
phase = 1
n = 2
[]
[]
[VectorPostprocessors]
[vpp]
type = LineValueSampler
variable = 's0aux s1aux p0aux p1aux'
start_point = '0 0 0'
end_point = '1 0 0'
num_points = 500
sort_by = id
[]
[]
[Executioner]
type = Steady
solve_type = NEWTON
nl_abs_tol = 1e-6
[]
[BCs]
[sleft]
type = DirichletBC
variable = s1
value = 0
boundary = left
[]
[sright]
type = DirichletBC
variable = s1
value = 1
boundary = right
[]
[]
[Outputs]
csv = true
execute_on = timestep_end
[]
(test/tests/time_integrators/actually_explicit_euler_verification/ee-1d-quadratic-neumann.i)
[Mesh]
type = GeneratedMesh
dim = 1
xmin = -1
xmax = 1
nx = 10
elem_type = EDGE3
[]
[Functions]
[./ic]
type = ParsedFunction
value = 0
[../]
[./forcing_fn]
type = ParsedFunction
value = x*x-2*t+t*x*x
[../]
[./exact_fn]
type = ParsedFunction
value = t*x*x
[../]
[./left_bc_fn]
type = ParsedFunction
value = -t*2*x
[../]
[./right_bc_fn]
type = ParsedFunction
value = t*2*x
[../]
[]
[Variables]
[./u]
order = SECOND
family = LAGRANGE
[./InitialCondition]
type = FunctionIC
function = ic
[../]
[../]
[]
[Kernels]
[./td]
type = TimeDerivative
variable = u
[../]
[./diff]
type = Diffusion
variable = u
[../]
[./abs]
type = Reaction
variable = u
[../]
[./ffn]
type = BodyForce
variable = u
function = forcing_fn
[../]
[]
[BCs]
[./left]
type = FunctionNeumannBC
variable = u
boundary = '0'
function = left_bc_fn
[../]
[./right]
type = FunctionNeumannBC
variable = u
boundary = '1'
function = right_bc_fn
[../]
[]
[Postprocessors]
[./l2_err]
type = ElementL2Error
variable = u
function = exact_fn
[../]
[]
[Executioner]
type = Transient
l_tol = 1e-12
start_time = 0.0
num_steps = 10
dt = 0.001
[./TimeIntegrator]
type = ActuallyExplicitEuler
[../]
[]
[Outputs]
exodus = true
[./console]
type = Console
max_rows = 10
[../]
[]
(modules/porous_flow/test/tests/flux_limited_TVD_pflow/pffltvd_2D_trimesh.i)
# Using flux-limited TVD advection ala Kuzmin and Turek, mploying PorousFlow Kernels and UserObjects, with superbee flux-limiter
# 2D version
[Mesh]
type = FileMesh
file = trimesh.msh
[]
[GlobalParams]
PorousFlowDictator = dictator
gravity = '0 0 0'
block = '50'
[]
[Variables]
[porepressure]
[]
[tracer]
[]
[]
[ICs]
[porepressure]
type = FunctionIC
variable = porepressure
function = '1 - x'
[]
[tracer]
type = FunctionIC
variable = tracer
function = 'if(x<0.1,0,if(x>0.305,0,1))'
[]
[]
[Kernels]
[mass0]
type = PorousFlowMassTimeDerivative
fluid_component = 0
variable = tracer
[]
[flux0]
type = PorousFlowFluxLimitedTVDAdvection
variable = tracer
advective_flux_calculator = advective_flux_calculator_0
[]
[mass1]
type = PorousFlowMassTimeDerivative
fluid_component = 1
variable = porepressure
[]
[flux1]
type = PorousFlowFluxLimitedTVDAdvection
variable = porepressure
advective_flux_calculator = advective_flux_calculator_1
[]
[]
[BCs]
[constant_injection_porepressure]
type = DirichletBC
variable = porepressure
value = 1
boundary = left
[]
[no_tracer_on_left]
type = DirichletBC
variable = tracer
value = 0
boundary = left
[]
[remove_component_1]
type = PorousFlowPiecewiseLinearSink
variable = porepressure
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 1
use_mobility = true
flux_function = 1E3
[]
[remove_component_0]
type = PorousFlowPiecewiseLinearSink
variable = tracer
boundary = right
fluid_phase = 0
pt_vals = '0 1E3'
multipliers = '0 1E3'
mass_fraction_component = 0
use_mobility = true
flux_function = 1E3
[]
[]
[Modules]
[FluidProperties]
[the_simple_fluid]
type = SimpleFluidProperties
bulk_modulus = 2E9
thermal_expansion = 0
viscosity = 1.0
density0 = 1000.0
[]
[]
[]
[UserObjects]
[dictator]
type = PorousFlowDictator
porous_flow_vars = 'porepressure tracer'
number_fluid_phases = 1
number_fluid_components = 2
[]
[pc]
type = PorousFlowCapillaryPressureConst
[]
[advective_flux_calculator_0]
type = PorousFlowAdvectiveFluxCalculatorUnsaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 0
[]
[advective_flux_calculator_1]
type = PorousFlowAdvectiveFluxCalculatorUnsaturatedMultiComponent
flux_limiter_type = superbee
fluid_component = 1
[]
[]
[Materials]
[temperature]
type = PorousFlowTemperature
[]
[ppss]
type = PorousFlow1PhaseP
porepressure = porepressure
capillary_pressure = pc
[]
[massfrac]
type = PorousFlowMassFraction
mass_fraction_vars = tracer
[]
[simple_fluid]
type = PorousFlowSingleComponentFluid
fp = the_simple_fluid
phase = 0
[]
[relperm]
type = PorousFlowRelativePermeabilityConst
phase = 0
[]
[porosity]
type = PorousFlowPorosity
porosity_zero = 0.1
[]
[permeability]
type = PorousFlowPermeabilityConst
permeability = '1E-2 0 0 0 1E-2 0 0 0 1E-2'
[]
[]
[Preconditioning]
active = basic
[basic]
type = SMP
full = true
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type -pc_asm_overlap'
petsc_options_value = ' asm lu NONZERO 2'
[]
[preferred_but_might_not_be_installed]
type = SMP
full = true
petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
petsc_options_value = ' lu mumps'
[]
[]
[VectorPostprocessors]
[tracer]
type = LineValueSampler
start_point = '0 0 0'
end_point = '1 0.04 0'
num_points = 101
sort_by = x
variable = tracer
[]
[]
[Executioner]
type = Transient
solve_type = Newton
end_time = 6
dt = 6E-2
nl_abs_tol = 1E-8
timestep_tolerance = 1E-3
[]
[Outputs]
print_linear_residuals = false
[out]
type = CSV
execute_on = final
[]
[]
(modules/combined/test/tests/surface_tension_KKS/surface_tension_VDWgas.i)
# Test for ComputeExtraStressVDWGas
# Gas bubble with r = 15 nm in a solid matrix
# The gas pressure is counterbalanced by the surface tension of the solid-gas interface,
# which is included with ComputeSurfaceTensionKKS
[Mesh]
type = GeneratedMesh
dim = 1
nx = 300
xmin = 0
xmax = 30
[]
[Problem]
coord_type = RSPHERICAL
[]
[GlobalParams]
displacements = 'disp_x'
[]
[Variables]
# order parameter
[./eta]
order = FIRST
family = LAGRANGE
[../]
# gas concentration
[./cg]
order = FIRST
family = LAGRANGE
[../]
# vacancy concentration
[./cv]
order = FIRST
family = LAGRANGE
[../]
# gas chemical potential
[./wg]
order = FIRST
family = LAGRANGE
[../]
# vacancy chemical potential
[./wv]
order = FIRST
family = LAGRANGE
[../]
# Matrix phase gas concentration
[./cgm]
order = FIRST
family = LAGRANGE
initial_condition = 1.01e-31
[../]
# Matrix phase vacancy concentration
[./cvm]
order = FIRST
family = LAGRANGE
initial_condition = 2.25e-11
[../]
# Bubble phase gas concentration
[./cgb]
order = FIRST
family = LAGRANGE
initial_condition = 0.2714
[../]
# Bubble phase vacancy concentration
[./cvb]
order = FIRST
family = LAGRANGE
initial_condition = 0.7286
[../]
[]
[ICs]
[./eta_ic]
variable = eta
type = FunctionIC
function = ic_func_eta
[../]
[./cv_ic]
variable = cv
type = FunctionIC
function = ic_func_cv
[../]
[./cg_ic]
variable = cg
type = FunctionIC
function = ic_func_cg
[../]
[]
[Functions]
[./ic_func_eta]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2);0.5*(1.0-tanh((r-r0)/delta_eta/sqrt(2.0)))'
vars = 'delta_eta r0'
vals = '0.321 15'
[../]
[./ic_func_cv]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2);eta_an:=0.5*(1.0-tanh((r-r0)/delta/sqrt(2.0)));cvbubinit*eta_an^3*(6*eta_an^2-15*eta_an+10)+cvmatrixinit*(1-eta_an^3*(6*eta_an^2-15*eta_an+10))'
vars = 'delta r0 cvbubinit cvmatrixinit'
vals = '0.321 15 0.7286 2.25e-11'
[../]
[./ic_func_cg]
type = ParsedFunction
value = 'r:=sqrt(x^2+y^2+z^2);eta_an:=0.5*(1.0-tanh((r-r0)/delta/sqrt(2.0)));cgbubinit*eta_an^3*(6*eta_an^2-15*eta_an+10)+cgmatrixinit*(1-eta_an^3*(6*eta_an^2-15*eta_an+10))'
vars = 'delta r0 cgbubinit cgmatrixinit'
vals = '0.321 15 0.2714 1.01e-31'
[../]
[]
[Modules/TensorMechanics/Master]
[./all]
add_variables = true
generate_output = 'hydrostatic_stress stress_xx stress_yy stress_zz'
[../]
[]
[Kernels]
# enforce cg = (1-h(eta))*cgm + h(eta)*cgb
[./PhaseConc_g]
type = KKSPhaseConcentration
ca = cgm
variable = cgb
c = cg
eta = eta
[../]
# enforce cv = (1-h(eta))*cvm + h(eta)*cvb
[./PhaseConc_v]
type = KKSPhaseConcentration
ca = cvm
variable = cvb
c = cv
eta = eta
[../]
# enforce pointwise equality of chemical potentials
[./ChemPotVacancies]
type = KKSPhaseChemicalPotential
variable = cvm
cb = cvb
fa_name = f_total_matrix
fb_name = f_total_bub
args_a = 'cgm'
args_b = 'cgb'
[../]
[./ChemPotGas]
type = KKSPhaseChemicalPotential
variable = cgm
cb = cgb
fa_name = f_total_matrix
fb_name = f_total_bub
args_a = 'cvm'
args_b = 'cvb'
[../]
#
# Cahn-Hilliard Equations
#
[./CHBulk_g]
type = KKSSplitCHCRes
variable = cg
ca = cgm
fa_name = f_total_matrix
w = wg
args_a = 'cvm'
[../]
[./CHBulk_v]
type = KKSSplitCHCRes
variable = cv
ca = cvm
fa_name = f_total_matrix
w = wv
args_a = 'cgm'
[../]
[./dcgdt]
type = CoupledTimeDerivative
variable = wg
v = cg
[../]
[./dcvdt]
type = CoupledTimeDerivative
variable = wv
v = cv
[../]
[./wgkernel]
type = SplitCHWRes
mob_name = M
variable = wg
[../]
[./wvkernel]
type = SplitCHWRes
mob_name = M
variable = wv
[../]
#
# Allen-Cahn Equation
#
[./ACBulkF]
type = KKSACBulkF
variable = eta
fa_name = f_total_matrix
fb_name = f_total_bub
w = 0.356
args = 'cvm cvb cgm cgb'
[../]
[./ACBulkCv]
type = KKSACBulkC
variable = eta
ca = cvm
cb = cvb
fa_name = f_total_matrix
args = 'cgm'
[../]
[./ACBulkCg]
type = KKSACBulkC
variable = eta
ca = cgm
cb = cgb
fa_name = f_total_matrix
args = 'cvm'
[../]
[./ACInterface]
type = ACInterface
variable = eta
kappa_name = kappa
[../]
[./detadt]
type = TimeDerivative
variable = eta
[../]
[]
[Materials]
# Chemical free energy of the matrix
[./fm]
type = DerivativeParsedMaterial
f_name = fm
args = 'cvm cgm'
material_property_names = 'kvmatrix kgmatrix cvmatrixeq cgmatrixeq'
function = '0.5*kvmatrix*(cvm-cvmatrixeq)^2 + 0.5*kgmatrix*(cgm-cgmatrixeq)^2'
[../]
# Elastic energy of the matrix
[./elastic_free_energy_m]
type = ElasticEnergyMaterial
base_name = matrix
f_name = fe_m
args = ' '
[../]
# Total free energy of the matrix
[./Total_energy_matrix]
type = DerivativeSumMaterial
f_name = f_total_matrix
sum_materials = 'fm fe_m'
args = 'cvm cgm'
[../]
# Free energy of the bubble phase
[./fb]
type = DerivativeParsedMaterial
f_name = fb
args = 'cvb cgb'
material_property_names = 'kToverV nQ Va b f0 kpen kgbub kvbub cvbubeq cgbubeq'
function = '0.5*kgbub*(cvb-cvbubeq)^2 + 0.5*kvbub*(cgb-cgbubeq)^2'
[../]
# Elastic energy of the bubble
[./elastic_free_energy_p]
type = ElasticEnergyMaterial
base_name = bub
f_name = fe_b
args = ' '
[../]
# Total free energy of the bubble
[./Total_energy_bub]
type = DerivativeSumMaterial
f_name = f_total_bub
sum_materials = 'fb fe_b'
# sum_materials = 'fb'
args = 'cvb cgb'
[../]
# h(eta)
[./h_eta]
type = SwitchingFunctionMaterial
h_order = HIGH
eta = eta
[../]
# g(eta)
[./g_eta]
type = BarrierFunctionMaterial
g_order = SIMPLE
eta = eta
[../]
# constant properties
[./constants]
type = GenericConstantMaterial
prop_names = 'M L kappa Va kvmatrix kgmatrix kgbub kvbub f0 kpen cvbubeq cgbubeq b T'
prop_values = '0.7 0.7 0.0368 0.03629 223.16 223.16 2.23 2.23 0.0224 1.0 0.6076 0.3924 0.085 800'
[../]
[./cvmatrixeq]
type = ParsedMaterial
f_name = cvmatrixeq
material_property_names = 'T'
constant_names = 'kB Efv'
constant_expressions = '8.6173324e-5 1.69'
function = 'exp(-Efv/(kB*T))'
[../]
[./cgmatrixeq]
type = ParsedMaterial
f_name = cgmatrixeq
material_property_names = 'T'
constant_names = 'kB Efg'
constant_expressions = '8.6173324e-5 4.92'
function = 'exp(-Efg/(kB*T))'
[../]
[./kToverV]
type = ParsedMaterial
f_name = kToverV
material_property_names = 'T Va'
constant_names = 'k C44dim' #k in J/K and dimensional C44 in J/m^3
constant_expressions = '1.38e-23 63e9'
function = 'k*T*1e27/Va/C44dim'
[../]
[./nQ]
type = ParsedMaterial
f_name = nQ
material_property_names = 'T'
constant_names = 'k Pi M hbar' #k in J/K, M is Xe atomic mass in kg, hbar in J s
constant_expressions = '1.38e-23 3.14159 2.18e-25 1.05459e-34'
function = '(M*k*T/2/Pi/hbar^2)^1.5 * 1e-27' #1e-27 converts from #/m^3 to #/nm^3
[../]
#Mechanical properties
[./Stiffness_matrix]
type = ComputeElasticityTensor
C_ijkl = '0.778 0.7935'
fill_method = symmetric_isotropic
base_name = matrix
[../]
[./Stiffness_bub]
type = ComputeElasticityTensor
C_ijkl = '0.0778 0.07935'
fill_method = symmetric_isotropic
base_name = bub
[../]
[./strain_matrix]
type = ComputeRSphericalSmallStrain
base_name = matrix
[../]
[./strain_bub]
type = ComputeRSphericalSmallStrain
base_name = bub
[../]
[./stress_matrix]
type = ComputeLinearElasticStress
base_name = matrix
[../]
[./stress_bub]
type = ComputeLinearElasticStress
base_name = bub
[../]
[./global_stress]
type = TwoPhaseStressMaterial
base_A = matrix
base_B = bub
[../]
[./surface_tension]
type = ComputeSurfaceTensionKKS
v = eta
kappa_name = kappa
w = 0.356
[../]
[./gas_pressure]
type = ComputeExtraStressVDWGas
T = T
b = b
cg = cgb
Va = Va
nondim_factor = 63e9
base_name = bub
outputs = exodus
[../]
[]
[BCs]
[./left_r]
type = DirichletBC
variable = disp_x
boundary = left
value = 0
[../]
[]
[Preconditioning]
[./full]
type = SMP
full = true
[../]
[]
[Executioner]
type = Transient
solve_type = 'PJFNK'
petsc_options_iname = '-pc_type -sub_pc_type -sub_pc_factor_shift_type'
petsc_options_value = 'asm lu nonzero'
l_max_its = 30
nl_max_its = 15
l_tol = 1.0e-4
nl_rel_tol = 1.0e-10
nl_abs_tol = 1e-11
num_steps = 2
dt = 0.5
[]
[Outputs]
exodus = true
[]
(modules/richards/test/tests/excav/ex01.i)
###########################################
# #
# THIS EXAMPLE CONTAINS AN EXCAVATION #
# #
###########################################
# Easiest way of figuring out what's happening:
# Run this example, load into paraview, take
# a slice through (0,0,0) with normal (0,0,1),
# colour by pressure and play the animation.
# This mesh has an interior sideset called excav_bdy
[Mesh]
type = FileMesh
file = ex01_input.e
[]
# This is a boundary condition acting on excav_bdy
# All it does is to set the pressure to p_excav=0
# at places on excav_bdy wherever excav_fcn tells it to.
[BCs]
[./excav_bdy]
type = RichardsExcav
boundary = excav_bdy
p_excav = 0.0
variable = pressure
excav_geom_function = excav_fcn
[../]
[]
[Functions]
# excav_fcn controls where to set pressure=p_excav
# You supply start and end positions and times and
# by a linear interpolation these define the position
# of the coal face at all times
[./excav_fcn]
type = RichardsExcavGeom
start_posn = '0 -500 0'
start_time = 0
end_posn = '0 -300 0'
end_time = 6E6
active_length = 1E4
[../]
# mass_bal_fcn calculates the mass balance
[./mass_bal_fcn]
type = ParsedFunction
value = abs((mi-fout-mf)/2/(mi+mf))
vars = 'mi mf fout'
vals = 'mass_init mass_final flux_out'
[../]
# initial pressure - unimportant in this example
[./initial_pressure]
type = ParsedFunction
value = -10000*(z-100)
[../]
[]
# following is needed by postprocessors, kernels, etc
# unimportant in this example
[GlobalParams]
richardsVarNames_UO = PPNames
[]
# following does the calculation of relevant
# masses and mass-flux to the excavation
[Postprocessors]
# note that this is calculated at beginning of timestep
[./mass_init]
type = RichardsMass
variable = pressure
execute_on = 'initial timestep_begin'
[../]
# note this is calculated at end of timestep
[./mass_final]
type = RichardsMass
variable = pressure
execute_on = timestep_end
[../]
# this is what calculates the mass flux to the excavation
# it is calculating it for boundary=excav_bdy, and the
# excavation time-dependence is set through the excav_fcn
[./flux_out]
type = RichardsExcavFlow
boundary = excav_bdy
variable = pressure
excav_geom_function = excav_fcn
[../]
# mass_bal just outputs the result to screen
[./mass_bal]
type = FunctionValuePostprocessor
function = mass_bal_fcn
[../]
[]
######################################
# #
# THE FOLLOWING STUFF IS STANDARD #
# #
######################################
[UserObjects]
[./PPNames]
type = RichardsVarNames
richards_vars = pressure
[../]
[./DensityConstBulk]
type = RichardsDensityConstBulk
dens0 = 1000
bulk_mod = 2E9
[../]
[./Seff1VG]
type = RichardsSeff1VG
m = 0.8
al = 1E-5
[../]
[./RelPermPower]
type = RichardsRelPermPower
simm = 0.0
n = 2
[../]
[./Saturation]
type = RichardsSat
s_res = 0
sum_s_res = 0
[../]
[./SUPGstandard]
type = RichardsSUPGstandard
p_SUPG = 1E+2
[../]
[]
[Variables]
active = 'pressure'
[./pressure]
order = FIRST
family = LAGRANGE
[../]
[]
[ICs]
[./p_ic]
type = FunctionIC
variable = pressure
function = initial_pressure
[../]
[]
[AuxVariables]
[./Seff1VG_Aux]
[../]
[]
[Kernels]
active = 'richardsf richardst'
[./richardst]
type = RichardsMassChange
variable = pressure
[../]
[./richardsf]
type = RichardsFlux
variable = pressure
[../]
[]
[Materials]
[./all]
type = RichardsMaterial
block = '1 2 3 4'
viscosity = 1E-3
mat_porosity = 0.1
mat_permeability = '1E-15 0 0 0 1E-15 0 0 0 1E-15'
density_UO = DensityConstBulk
relperm_UO = RelPermPower
sat_UO = Saturation
seff_UO = Seff1VG
SUPG_UO = SUPGstandard
gravity = '0 0 -10'
linear_shape_fcns = true
[../]
[]
[AuxKernels]
[./Seff1VG_AuxK]
type = RichardsSeffAux
variable = Seff1VG_Aux
seff_UO = Seff1VG
pressure_vars = pressure
[../]
[]
[Preconditioning]
[./usual]
type = SMP
full = true
petsc_options = '-snes_converged_reason'
petsc_options_iname = '-ksp_type -pc_type -snes_atol -snes_rtol -snes_max_it -ksp_max_it'
petsc_options_value = 'bcgs bjacobi 1E-13 1E-14 10000 30'
[../]
[]
[Executioner]
type = Transient
end_time = 6E6
dt = 3E6
solve_type = NEWTON
[]
[Outputs]
file_base = ex01
exodus = true
csv = true
[]